Citrus Sinensis ID: 047388

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350--
Protein Sequence
MIATLKAEEQSQLQLVEREDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADAKD
Secondary Structure (PSIPRED)
cccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHccccHHHHHHHHHcccccHHHHHcccHHHHHHHHcccHHHHHHHHHHHHHHcccccccHHHHHHHHccccEEEcccHHHHHHHcccccccEEEEcccccccccccEEEEEHHcccccccccccccEEEEEEccccccHHHHHHHHHHHccccHHHcccEEEEEcccHHHHHHHHHHHHHHcccccEEEEEEEEEEEEEEEEccccccHHHHHHHHHHHHHHHHHHHHHHccEEEEEccEEEcccccccccccccccccccccccccEEEEEEEccccEEEEEEEEcccccccccccEEEEEEEEEEcccccccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHccccccHcccccccHcccccccHHHHHHccccHHHHHHHHHccccEEEEEEEccHHHHHHHccccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHEHccccHHHHHHHccccccccEHHHHccccccccEEEEEEEEEEEccccccccccEEEEEEccccccHHHHHHHHHHHcccHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHccccEEEEEEcHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHcccEEEEEcEEEEcccccccccccccccccEEEEEcccEEEEEEccccccEEEEEEccccccHHcEEEEEEEEEEEEEcccccccccc
Coil and Loop (DISEMBL)
MIATLKAEEQSQLQLverediddeEDLFEAIDKLISQginagdvkklqdagiytcnglmmhtkkhltgikglsEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELlgggietgAITEAfgefrsgktqLAHTLCVctqlptnmrggngkvayidtegtfrpdrivpiaerfgmdpgavLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRvdftgrgeLADRQQKLGQMLSRLTKISEEFNVAVYMTNQviadpgggvfisdpkkpagghvLAHAVTIRLMFrkgkgeqrvckvfdapnlpeaeaiSFSYHIILIKitpggiadakd
Flexible Loop (DISEMBL)
miatlkaeeqsqlqlverediddEEDLFEAIDKLIsqginagdvkkLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFgyitgsdalLRRKAVIKITtgsqaldelLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTqlptnmrggnGKVAyidtegtfrpDRIVPIaerfgmdpgAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITpggiadakd
Low Complexity Region (SEG)
MIATLKAEEQSQLQLVEREDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADAKD
Disordered region (IsUnstruct)
*************************DLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGI*****
Disordered Region (DISOPRED)
****************************EAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRG**ADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGI*****
Disordered Region (DISEMBL)
**********SQLQLVEREDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADAKD
Disordered Region (DISPRO)
**************************LFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGI*****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MIATLKAEEQSQLQLVEREDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADAKD
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	352	2.2.26 [Sep-21-2011]
Q96449	345	Meiotic recombination pro	yes	no	0.977	0.997	0.895	1e-179
Q39009	344	Meiotic recombination pro	yes	no	0.977	1.0	0.869	1e-172
P37384	349	Meiotic recombination pro	N/A	no	0.957	0.965	0.846	1e-169
Q61880	340	Meiotic recombination pro	yes	no	0.940	0.973	0.593	1e-109
Q14565	340	Meiotic recombination pro	yes	no	0.917	0.95	0.592	1e-107
P50265	324	Meiotic recombination pro	N/A	no	0.900	0.978	0.553	2e-99
O42634	332	Meiotic recombination pro	yes	no	0.909	0.963	0.554	3e-98
P25453	334	Meiotic recombination pro	yes	no	0.894	0.943	0.529	5e-95
Q06609	339	DNA repair protein RAD51	no	no	0.946	0.982	0.511	1e-94
Q91918	336	DNA repair protein RAD51	N/A	no	0.911	0.955	0.521	4e-94

>sp|Q96449|DMC1_SOYBN Meiotic recombination protein DMC1 homolog OS=Glycine max PE=2 SV=1

 Score =  628 bits (1620), Expect = e-179,   Method: Compositional matrix adjust.
 Identities = 316/353 (89%), Positives = 336/353 (95%), Gaps = 9/353 (2%)

Query: 1   MIATLKAEEQS-QLQLVEREDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLM 59
           M+ATLK+EE S QLQLVEREDIDD+EDLFEAIDKLI+QGINAGDVKKLQDAGIYTCNGLM
Sbjct: 1   MLATLKSEESSGQLQLVEREDIDDDEDLFEAIDKLIAQGINAGDVKKLQDAGIYTCNGLM 60

Query: 60  MHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELL 119
           MHTKK+LTGIKGLSEAKV+KICEAAEK+VNFGYITGSDALL+RK+VI+ITTGSQALDELL
Sbjct: 61  MHTKKNLTGIKGLSEAKVDKICEAAEKLVNFGYITGSDALLKRKSVIRITTGSQALDELL 120

Query: 120 GGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVP 179
           GGG+ET AITEAFGEFRSGKTQLAHTLCV TQLPTNMRGGNGKVAYIDTEGTFRPDRIVP
Sbjct: 121 GGGVETSAITEAFGEFRSGKTQLAHTLCVSTQLPTNMRGGNGKVAYIDTEGTFRPDRIVP 180

Query: 180 IAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFT 239
           IAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDF+
Sbjct: 181 IAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFS 240

Query: 240 GRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAH 299
           GRGELADRQQKL QMLSRL KI+EEFNVAVYMTNQVI+DPGGGVF++DPKKPAGGHVLAH
Sbjct: 241 GRGELADRQQKLAQMLSRLIKIAEEFNVAVYMTNQVISDPGGGVFVTDPKKPAGGHVLAH 300

Query: 300 AVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADAKD 352
           A T+RLMFRKGKGEQR+CKVFDAPNLPEAEA+         +IT GGIADAKD
Sbjct: 301 AATVRLMFRKGKGEQRICKVFDAPNLPEAEAV--------FQITAGGIADAKD 345

May participate in meiotic recombination.
Glycine max (taxid: 3847)

>sp|Q39009|DMC1_ARATH Meiotic recombination protein DMC1 homolog OS=Arabidopsis thaliana GN=LIM15 PE=1 SV=2

 Score =  604 bits (1557), Expect = e-172,   Method: Compositional matrix adjust.
 Identities = 306/352 (86%), Positives = 332/352 (94%), Gaps = 8/352 (2%)

Query: 1   MIATLKAEEQSQLQLVEREDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMM 60
           M+A+LKAEE SQ+QLVERE+ D++EDLFE IDKLI+QGINAGDVKKLQ+AGI+TCNGLMM
Sbjct: 1   MMASLKAEETSQMQLVEREENDEDEDLFEMIDKLIAQGINAGDVKKLQEAGIHTCNGLMM 60

Query: 61  HTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLG 120
           HTKK+LTGIKGLSEAKV+KICEAAEKIVNFGY+TGSDAL++RK+V+KITTG QALD+LLG
Sbjct: 61  HTKKNLTGIKGLSEAKVDKICEAAEKIVNFGYMTGSDALIKRKSVVKITTGCQALDDLLG 120

Query: 121 GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPI 180
           GGIET AITEAFGEFRSGKTQLAHTLCV TQLPTNM+GGNGKVAYIDTEGTFRPDRIVPI
Sbjct: 121 GGIETSAITEAFGEFRSGKTQLAHTLCVTTQLPTNMKGGNGKVAYIDTEGTFRPDRIVPI 180

Query: 181 AERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTG 240
           AERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFR+LIVDS+IALFRVDFTG
Sbjct: 181 AERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRILIVDSIIALFRVDFTG 240

Query: 241 RGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA 300
           RGELADRQQKL QMLSRL KI+EEFNVAVYMTNQVIADPGGG+FISDPKKPAGGHVLAHA
Sbjct: 241 RGELADRQQKLAQMLSRLIKIAEEFNVAVYMTNQVIADPGGGMFISDPKKPAGGHVLAHA 300

Query: 301 VTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADAKD 352
            TIRL+FRKGKG+ RVCKV+DAPNL EAEA SF       +IT GGIADAKD
Sbjct: 301 ATIRLLFRKGKGDTRVCKVYDAPNLAEAEA-SF-------QITQGGIADAKD 344

May participate in meiotic recombination.

Arabidopsis thaliana (taxid: 3702)

>sp|P37384|DMC1_LILLO Meiotic recombination protein DMC1 homolog OS=Lilium longiflorum GN=LIM15 PE=2 SV=1

 Score =  596 bits (1536), Expect = e-169,   Method: Compositional matrix adjust.
 Identities = 293/346 (84%), Positives = 318/346 (91%), Gaps = 9/346 (2%)

Query: 8   EEQSQLQLVEREDIDDEE-DLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHL 66
           E   QLQL++R++ ++EE D FE+IDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKK+L
Sbjct: 12  ESPGQLQLLDRQEAEEEEEDCFESIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKNL 71

Query: 67  TGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIETG 126
           TGIKGLSEAKV+KICEAAEK+VN GYITGSD LL+RK+VI+ITTGSQALDELLGGGIET 
Sbjct: 72  TGIKGLSEAKVDKICEAAEKLVNVGYITGSDVLLKRKSVIRITTGSQALDELLGGGIETL 131

Query: 127 AITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGM 186
            ITEAFGEFRSGKTQ+AHTLCV TQLP +M GGNGKVAYIDTEGTFRPDRIVPIAERFGM
Sbjct: 132 QITEAFGEFRSGKTQIAHTLCVSTQLPVSMHGGNGKVAYIDTEGTFRPDRIVPIAERFGM 191

Query: 187 DPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELAD 246
           D  AVLDNIIYARAYTYEHQYNLLL LAAKMSEEPFRLLIVDSVIALFRVDF+GRGELA+
Sbjct: 192 DASAVLDNIIYARAYTYEHQYNLLLALAAKMSEEPFRLLIVDSVIALFRVDFSGRGELAE 251

Query: 247 RQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLM 306
           RQQKL QMLSRLTKI+EEFNVAVYMTNQVIADPGGG+FISDPKKPAGGHVLAHA T+RLM
Sbjct: 252 RQQKLAQMLSRLTKIAEEFNVAVYMTNQVIADPGGGMFISDPKKPAGGHVLAHAATVRLM 311

Query: 307 FRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADAKD 352
            RKGKGEQRVCK+FDAPNLPE+EA+         +ITPGG+ADAKD
Sbjct: 312 LRKGKGEQRVCKIFDAPNLPESEAV--------FQITPGGVADAKD 349

May participate in meiotic recombination.

Lilium longiflorum (taxid: 4690)

>sp|Q61880|DMC1_MOUSE Meiotic recombination protein DMC1/LIM15 homolog OS=Mus musculus GN=Dmc1 PE=1 SV=1

 Score =  396 bits (1017), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 204/344 (59%), Positives = 250/344 (72%), Gaps = 13/344 (3%)

Query: 14  QLVERED--IDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKG 71
           Q+V+ E    DDEE LF+ ID L   GIN  D+KKL+  GI T  G+ M T++ L  +KG
Sbjct: 5   QVVQEESGFQDDEESLFQDIDLLQKHGINMADIKKLKSVGICTIKGIQMTTRRALCNVKG 64

Query: 72  LSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEA 131
           LSEAKVEKI EAA K++  G++T      RRK V  ITTGSQ  D+LLGGGIE+ AITEA
Sbjct: 65  LSEAKVEKIKEAANKLIEPGFLTAFQYSERRKMVFHITTGSQEFDKLLGGGIESMAITEA 124

Query: 132 FGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAV 191
           FGEFR+GKTQL+HTLCV  QLP       GK+ +IDTE TFRPDR+  IA+RF +D  AV
Sbjct: 125 FGEFRTGKTQLSHTLCVTAQLPGTGGYSGGKIIFIDTENTFRPDRLRDIADRFNVDHEAV 184

Query: 192 LDNIIYARAYTYEHQYNLLLGLAAKMSEEP--FRLLIVDSVIALFRVDFTGRGELADRQQ 249
           LDN++YARAYT EHQ  LL  +AAK  EE   F+LLI+DS++ALFRVDF+GRGELA+RQQ
Sbjct: 185 LDNVLYARAYTSEHQMELLDYVAAKFHEEAGIFKLLIIDSIMALFRVDFSGRGELAERQQ 244

Query: 250 KLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGV-FISDPKKPAGGHVLAHAVTIRLMFR 308
           KL QMLSRL KISEE+NVAV++TNQ+ ADPG  + F +DPKKP GGH+LAHA T R+  R
Sbjct: 245 KLAQMLSRLQKISEEYNVAVFVTNQMTADPGATMTFQADPKKPIGGHILAHASTTRISLR 304

Query: 309 KGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADAKD 352
           KG+GE R+ K++D+P +PE EA           IT GGI DAK+
Sbjct: 305 KGRGELRIAKIYDSPEMPENEAT--------FAITAGGIGDAKE 340

May participate in meiotic recombination, specifically in homologous strand assimilation, which is required for the resolution of meiotic double-strand breaks.

Mus musculus (taxid: 10090)

>sp|Q14565|DMC1_HUMAN Meiotic recombination protein DMC1/LIM15 homolog OS=Homo sapiens GN=DMC1 PE=1 SV=2

 Score =  389 bits (1000), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 198/334 (59%), Positives = 246/334 (73%), Gaps = 11/334 (3%)

Query: 22  DDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKIC 81
           D+EE LF+ ID L   GIN  D+KKL+  GI T  G+ M T++ L  +KGLSEAKV+KI 
Sbjct: 15  DEEESLFQDIDLLQKHGINVADIKKLKSVGICTIKGIQMTTRRALCNVKGLSEAKVDKIK 74

Query: 82  EAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQ 141
           EAA K++  G++T  +   +RK V  ITTGSQ  D+LLGGGIE+ AITEAFGEFR+GKTQ
Sbjct: 75  EAANKLIEPGFLTAFEYSEKRKMVFHITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQ 134

Query: 142 LAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAY 201
           L+HTLCV  QLP       GK+ +IDTE TFRPDR+  IA+RF +D  AVLDN++YARAY
Sbjct: 135 LSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRDIADRFNVDHDAVLDNVLYARAY 194

Query: 202 TYEHQYNLLLGLAAKMSEEP--FRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLT 259
           T EHQ  LL  +AAK  EE   F+LLI+DS++ALFRVDF+GRGELA+RQQKL QMLSRL 
Sbjct: 195 TSEHQMELLDYVAAKFHEEAGIFKLLIIDSIMALFRVDFSGRGELAERQQKLAQMLSRLQ 254

Query: 260 KISEEFNVAVYMTNQVIADPGGGV-FISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCK 318
           KISEE+NVAV++TNQ+ ADPG  + F +DPKKP GGH+LAHA T R+  RKG+GE R+ K
Sbjct: 255 KISEEYNVAVFVTNQMTADPGATMTFQADPKKPIGGHILAHASTTRISLRKGRGELRIAK 314

Query: 319 VFDAPNLPEAEAISFSYHIILIKITPGGIADAKD 352
           ++D+P +PE EA           IT GGI DAK+
Sbjct: 315 IYDSPEMPENEAT--------FAITAGGIGDAKE 340

May participate in meiotic recombination, specifically in homologous strand assimilation, which is required for the resolution of meiotic double-strand breaks.

Homo sapiens (taxid: 9606)

>sp|P50265|DLH1_CANAX Meiotic recombination protein DLH1 OS=Candida albicans GN=DLH1 PE=3 SV=1

 Score =  363 bits (931), Expect = 2e-99,   Method: Compositional matrix adjust.
 Identities = 181/327 (55%), Positives = 232/327 (70%), Gaps = 10/327 (3%)

Query: 25  EDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAA 84
           ED   +ID L  QGINAGD+ KL+ AGI +   ++  T+++LT IKGLSE KVEKI EAA
Sbjct: 4   EDSIISIDSLQDQGINAGDINKLKSAGICSITSVLSTTRRNLTKIKGLSEIKVEKIKEAA 63

Query: 85  EKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAH 144
            KI  +G++  +     R  V  ITTGS+  DE+LGGGI++ +ITE FGEFR GKTQL H
Sbjct: 64  GKIKKYGFLPATIVAESRTKVFHITTGSKQFDEILGGGIQSMSITEVFGEFRCGKTQLCH 123

Query: 145 TLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYE 204
           TLCV  QLPT+M GG G+VAYIDTEGTFRPDRI  IAER+G+D    L+NI YARA   E
Sbjct: 124 TLCVAAQLPTDMGGGEGRVAYIDTEGTFRPDRIRSIAERYGVDADICLENISYARALNSE 183

Query: 205 HQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEE 264
           HQ  L+  L  +++E  FRLLIVDS++A FRVD++GRGEL +RQQKL Q LS LT+++E+
Sbjct: 184 HQIELVEQLGNELAEGTFRLLIVDSIMACFRVDYSGRGELNERQQKLNQHLSNLTRVAED 243

Query: 265 FNVAVYMTNQVIADPGGGVFI--SDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDA 322
           +N+AV++TNQV +DPG       +D +KP GGHVLAHA   R++ RKG+GE+RV K+ D+
Sbjct: 244 YNIAVFLTNQVQSDPGASALFAAADGRKPVGGHVLAHASATRILLRKGRGEERVAKLQDS 303

Query: 323 PNLPEAEAISFSYHIILIKITPGGIAD 349
           PN+PE E +          I  GGI D
Sbjct: 304 PNMPEKECVYV--------IGEGGIKD 322

Required for meiotic recombination, synaptonemal complex formation and cell cycle progression.

Candida albicans (taxid: 5476)

>sp|O42634|DMC1_SCHPO Meiotic recombination protein dmc1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=dmc1 PE=1 SV=2

 Score =  358 bits (920), Expect = 3e-98,   Method: Compositional matrix adjust.
 Identities = 183/330 (55%), Positives = 236/330 (71%), Gaps = 10/330 (3%)

Query: 22  DDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKIC 81
           DDE+ +F  I+ L + GI   D+ KL+ AG+ T  G+ M TK+ L  IKG SEAKV+K+ 
Sbjct: 9   DDEQMIFSDIEDLTAHGIGMTDIIKLKQAGVCTVQGVHMSTKRFLLKIKGFSEAKVDKLK 68

Query: 82  EAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQ 141
           EAA K+    + T  +    RK V  I+TGS+AL+ +LGGGI++ +ITE FGEFR GKTQ
Sbjct: 69  EAASKMCPANFSTAMEISQNRKKVWSISTGSEALNGILGGGIQSMSITEVFGEFRCGKTQ 128

Query: 142 LAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAY 201
           ++HTLCV  QLP +M G  GKVA+IDTEGTFRPDRI  IAERFG+D    ++NII +RAY
Sbjct: 129 MSHTLCVTAQLPRDMGGAEGKVAFIDTEGTFRPDRIKAIAERFGVDADQAMENIIVSRAY 188

Query: 202 TYEHQYNLLLGLAAKMSEE-PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTK 260
             E Q   +  L    +E+  +RLLIVDS++ALFRVD++GRGEL++RQQKL  ML+RL  
Sbjct: 189 NSEQQMEYITKLGTIFAEDGQYRLLIVDSIMALFRVDYSGRGELSERQQKLNIMLARLNH 248

Query: 261 ISEEFNVAVYMTNQVIADPGGG-VFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKV 319
           ISEEFNVAV++TNQV ADPG   +F S+ +KP GGHV+AHA   RL+ RKG+GE+RV K+
Sbjct: 249 ISEEFNVAVFVTNQVQADPGAAMMFASNDRKPVGGHVMAHASATRLLLRKGRGEERVAKL 308

Query: 320 FDAPNLPEAEAISFSYHIILIKITPGGIAD 349
            D+P++PEAE    SY      ITPGGIAD
Sbjct: 309 NDSPDMPEAEC---SY-----VITPGGIAD 330

Required for meiotic recombination and cell cycle progression. Binds to single and double stranded DNA, in the presence of magnesium, and exhibits DNA-dependent ATPase activity. Promotes DNA strand annealing and strand exchange via DNA recombinase activity and forms helical and stacked ring nucleoprotein filaments.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|P25453|DMC1_YEAST Meiotic recombination protein DMC1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=DMC1 PE=1 SV=1

 Score =  348 bits (892), Expect = 5e-95,   Method: Compositional matrix adjust.
 Identities = 172/325 (52%), Positives = 230/325 (70%), Gaps = 10/325 (3%)

Query: 30  AIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVN 89
           ++D+L + GINA D++KL+  GIYT N ++  T++HL  IKGLSE KVEKI EAA KI+ 
Sbjct: 18  SVDELQNYGINASDLQKLKSGGIYTVNTVLSTTRRHLCKIKGLSEVKVEKIKEAAGKIIQ 77

Query: 90  FGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVC 149
            G+I  +  L  R+ V  ++TGS+ LD +LGGGI T +ITE FGEFR GKTQ++HTLCV 
Sbjct: 78  VGFIPATVQLDIRQRVYSLSTGSKQLDSILGGGIMTMSITEVFGEFRCGKTQMSHTLCVT 137

Query: 150 TQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNL 209
           TQLP  M GG GKVAYIDTEGTFRP+RI  IAE + +DP + L N+ YARA   EHQ  L
Sbjct: 138 TQLPREMGGGEGKVAYIDTEGTFRPERIKQIAEGYELDPESCLANVSYARALNSEHQMEL 197

Query: 210 LLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAV 269
           +  L  ++S   +RL++VDS++A FRVD+ GRGEL++RQQKL Q L +L +++EEFNVAV
Sbjct: 198 VEQLGEELSSGDYRLIVVDSIMANFRVDYCGRGELSERQQKLNQHLFKLNRLAEEFNVAV 257

Query: 270 YMTNQVIADPGGGVFI--SDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPE 327
           ++TNQV +DPG       +D +KP GGHVLAHA   R++ RKG+G++RV K+ D+P++PE
Sbjct: 258 FLTNQVQSDPGASALFASADGRKPIGGHVLAHASATRILLRKGRGDERVAKLQDSPDMPE 317

Query: 328 AEAISFSYHIILIKITPGGIADAKD 352
            E +          I   GI D+ D
Sbjct: 318 KECVYV--------IGEKGITDSSD 334

Required for meiotic recombination, synaptonemal complex formation and cell cycle progression. Recruited to meiosis recombination hotspots by MEI5 and SAE3.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

>sp|Q06609|RAD51_HUMAN DNA repair protein RAD51 homolog 1 OS=Homo sapiens GN=RAD51 PE=1 SV=1

 Score =  346 bits (888), Expect = 1e-94,   Method: Compositional matrix adjust.
 Identities = 176/344 (51%), Positives = 232/344 (67%), Gaps = 11/344 (3%)

Query: 12  QLQLVEREDIDDEEDLF--EAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGI 69
           Q+QL    D   EE+ F  + I +L   GINA DVKKL++AG +T   +    KK L  I
Sbjct: 4   QMQLEANADTSVEEESFGPQPISRLEQCGINANDVKKLEEAGFHTVEAVAYAPKKELINI 63

Query: 70  KGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAIT 129
           KG+SEAK +KI   A K+V  G+ T ++   RR  +I+ITTGS+ LD+LL GGIETG+IT
Sbjct: 64  KGISEAKADKILAEAAKLVPMGFTTATEFHQRRSEIIQITTGSKELDKLLQGGIETGSIT 123

Query: 130 EAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPG 189
           E FGEFR+GKTQ+ HTL V  QLP +  GG GK  YIDTEGTFRP+R++ +AER+G+   
Sbjct: 124 EMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLLAVAERYGLSGS 183

Query: 190 AVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQ 249
            VLDN+ YARA+  +HQ  LL   +A M E  + LLIVDS  AL+R D++GRGEL+ RQ 
Sbjct: 184 DVLDNVAYARAFNTDHQTQLLYQASAMMVESRYALLIVDSATALYRTDYSGRGELSARQM 243

Query: 250 KLGQMLSRLTKISEEFNVAVYMTNQVIAD-PGGGVFISDPKKPAGGHVLAHAVTIRLMFR 308
            L + L  L ++++EF VAV +TNQV+A   G  +F +DPKKP GG+++AHA T RL  R
Sbjct: 244 HLARFLRMLLRLADEFGVAVVITNQVVAQVDGAAMFAADPKKPIGGNIIAHASTTRLYLR 303

Query: 309 KGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADAKD 352
           KG+GE R+CK++D+P LPEAEA        +  I   G+ DAKD
Sbjct: 304 KGRGETRICKIYDSPCLPEAEA--------MFAINADGVGDAKD 339

Participates in a common DNA damage response pathway associated with the activation of homologous recombination and double-strand break repair. Binds to single and double stranded DNA and exhibits DNA-dependent ATPase activity. Underwinds duplex DNA and forms helical nucleoprotein filaments. Plays a role in regulating mitochondrial DNA copy number under conditions of oxidative stress in the presence of RAD51C and XRCC3.

Homo sapiens (taxid: 9606)

>sp|Q91918|RA51A_XENLA DNA repair protein RAD51 homolog A OS=Xenopus laevis GN=rad51-a PE=2 SV=1

 Score =  345 bits (884), Expect = 4e-94,   Method: Compositional matrix adjust.
 Identities = 173/332 (52%), Positives = 229/332 (68%), Gaps = 11/332 (3%)

Query: 24  EEDLF--EAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKIC 81
           EE+ F  +AI +L   GINA DVKKL++AG +T   +    KK L  IKG+SEAK EKI 
Sbjct: 13  EEEHFGPQAISRLEQCGINANDVKKLEEAGFHTVEAVAYAPKKELLNIKGISEAKAEKIL 72

Query: 82  EAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQ 141
             A K+V  G+ T ++   RR  +I+I+TGS+ LD+LL GG+ETG+ITE FGEFR+GKTQ
Sbjct: 73  AEAAKLVPMGFTTATEFHQRRSEIIQISTGSKELDKLLQGGVETGSITEMFGEFRTGKTQ 132

Query: 142 LAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAY 201
           L HTL V  QLP +  GG GK  YIDTEGTFRP+R++ +AER+G+    VLDN+ YARA+
Sbjct: 133 LCHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLLAVAERYGLSGSDVLDNVAYARAF 192

Query: 202 TYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKI 261
             +HQ  LL   +A M+E  + LLIVDS  AL+R D++GRGEL+ RQ  L + L  L ++
Sbjct: 193 NTDHQTQLLYQASAMMAESRYALLIVDSATALYRTDYSGRGELSARQMHLARFLRMLLRL 252

Query: 262 SEEFNVAVYMTNQVIAD-PGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVF 320
           ++EF VAV +TNQV+A   G  +F +DPKKP GG+++AHA T RL  RKG+GE R+CK++
Sbjct: 253 ADEFGVAVVITNQVVAQVDGAAMFAADPKKPIGGNIIAHASTTRLYLRKGRGETRICKIY 312

Query: 321 DAPNLPEAEAISFSYHIILIKITPGGIADAKD 352
           D+P LPEAEA        +  I   G+ DAKD
Sbjct: 313 DSPCLPEAEA--------MFAINADGVGDAKD 336

Binds to single and double stranded DNA and exhibits DNA-dependent ATPase activity. Underwinds duplex DNA.

Xenopus laevis (taxid: 8355)

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	352
255552035	353	meiotic recombination protein dmc1, puta	1.0	0.997	0.937	0.0
297737116	348	unnamed protein product [Vitis vinifera]	0.988	1.0	0.934	0.0
224107947	352	predicted protein [Populus trichocarpa]	0.997	0.997	0.883	0.0
359477566	361	PREDICTED: LOW QUALITY PROTEIN: meiotic	1.0	0.975	0.911	1e-180
449432658	345	PREDICTED: meiotic recombination protein	0.977	0.997	0.892	1e-178
351726994	345	meiotic recombination protein DMC1 homol	0.977	0.997	0.895	1e-177
147805615	348	hypothetical protein VITISV_028799 [Viti	0.951	0.962	0.946	1e-176
145952326	343	DMC1 [Hieracium caespitosum] gi|14595232	0.965	0.991	0.899	1e-173
30686826	344	meiotic recombination protein DMC1-like	0.977	1.0	0.869	1e-170
871832	342	recA-like protein [Arabidopsis thaliana]	0.971	1.0	0.863	1e-169

>gi|255552035|ref|XP_002517062.1| meiotic recombination protein dmc1, putative [Ricinus communis] gi|223543697|gb|EEF45225.1| meiotic recombination protein dmc1, putative [Ricinus communis]

 Score =  647 bits (1668), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 331/353 (93%), Positives = 340/353 (96%), Gaps = 1/353 (0%)

Query: 1   MIATLKAEEQSQLQLVEREDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMM 60
           MIATLKAEEQSQLQLVEREDIDDEEDLFEAIDKLI+QGINAGDVKKLQDAGIYTCNGLMM
Sbjct: 1   MIATLKAEEQSQLQLVEREDIDDEEDLFEAIDKLIAQGINAGDVKKLQDAGIYTCNGLMM 60

Query: 61  HTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLG 120
           HTKK+LTGIKGLSEAKV+KICEAAEKIVNFGYITGSDALLRRK V++ITTGSQALDELLG
Sbjct: 61  HTKKNLTGIKGLSEAKVDKICEAAEKIVNFGYITGSDALLRRKQVVRITTGSQALDELLG 120

Query: 121 GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPI 180
           GGIET  ITEAFGEFRSGKTQLAHTLCV TQLPTNMRGGNGKVAYIDTEGTFRPDRIVPI
Sbjct: 121 GGIETLCITEAFGEFRSGKTQLAHTLCVSTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPI 180

Query: 181 AERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTG 240
           AERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTG
Sbjct: 181 AERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTG 240

Query: 241 RGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA 300
           RGELA+RQQKL QMLSRLTKI+EEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA
Sbjct: 241 RGELAERQQKLAQMLSRLTKIAEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA 300

Query: 301 VTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHI-ILIKITPGGIADAKD 352
            TIRLMFRKGKGEQRVCKVFDAPNLPEAEAIS    I  + +ITPGGIADAKD
Sbjct: 301 ATIRLMFRKGKGEQRVCKVFDAPNLPEAEAISLVTVIEHVFQITPGGIADAKD 353

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297737116|emb|CBI26317.3| unnamed protein product [Vitis vinifera]

 Score =  640 bits (1652), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 329/352 (93%), Positives = 339/352 (96%), Gaps = 4/352 (1%)

Query: 1   MIATLKAEEQSQLQLVEREDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMM 60
           MIA LK+EE SQLQLVEREDI+DEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMM
Sbjct: 1   MIAALKSEEHSQLQLVEREDIEDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMM 60

Query: 61  HTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLG 120
           HTKK+LTGIKGLSEAKV+KICEAAEKIVNFGYITGSDALLRRK+V++ITTGSQALDELLG
Sbjct: 61  HTKKNLTGIKGLSEAKVDKICEAAEKIVNFGYITGSDALLRRKSVVRITTGSQALDELLG 120

Query: 121 GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPI 180
           GGIET AITEAFGEFRSGKTQLAHTLCV TQLPT+MRGGNGKVAYIDTEGTFRPDRIVPI
Sbjct: 121 GGIETSAITEAFGEFRSGKTQLAHTLCVSTQLPTSMRGGNGKVAYIDTEGTFRPDRIVPI 180

Query: 181 AERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTG 240
           AERFGMD GAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTG
Sbjct: 181 AERFGMDAGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTG 240

Query: 241 RGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA 300
           RGELADRQQKL QMLSRLTKI+EEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA
Sbjct: 241 RGELADRQQKLAQMLSRLTKIAEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA 300

Query: 301 VTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADAKD 352
            TIRLMFRKGKGEQRVCKVFDAPNLPEAEAISF     L +ITPGGIADAKD
Sbjct: 301 ATIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFP----LFQITPGGIADAKD 348

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224107947|ref|XP_002314664.1| predicted protein [Populus trichocarpa] gi|222863704|gb|EEF00835.1| predicted protein [Populus trichocarpa]

 Score =  640 bits (1651), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 311/352 (88%), Positives = 332/352 (94%), Gaps = 1/352 (0%)

Query: 2   IATLKAEEQSQLQLVEREDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMH 61
           +   +AEEQ+ LQL+ERE++D E+DLFEAI+KLI+QGINAGDVKKLQDAGIYTCNGLMM 
Sbjct: 1   MVVFRAEEQNHLQLMEREEMDGEDDLFEAIEKLINQGINAGDVKKLQDAGIYTCNGLMMF 60

Query: 62  TKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGG 121
           TKKHLTGIKGLSEAKV+KICEAAEKIVN+GYITGSDALL+RK+VI+ITTGSQALDELLGG
Sbjct: 61  TKKHLTGIKGLSEAKVDKICEAAEKIVNYGYITGSDALLKRKSVIRITTGSQALDELLGG 120

Query: 122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIA 181
           GIET AITEAFGEFRSGKTQLAHTLCV TQLPT M GGNGKVAYIDTEGTFRPDRIVPIA
Sbjct: 121 GIETSAITEAFGEFRSGKTQLAHTLCVSTQLPTQMHGGNGKVAYIDTEGTFRPDRIVPIA 180

Query: 182 ERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGR 241
           ERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEP+RLLIVDSVIALFRVDFTGR
Sbjct: 181 ERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPYRLLIVDSVIALFRVDFTGR 240

Query: 242 GELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAV 301
           GELA+RQQKL QMLSRL KI+EEFNVAVYMTNQVIADPGGG+FISDPKKPAGGHVLAHA 
Sbjct: 241 GELAERQQKLAQMLSRLIKIAEEFNVAVYMTNQVIADPGGGMFISDPKKPAGGHVLAHAA 300

Query: 302 TIRLMFRKGKGEQRVCKVFDAPNLPEAEAISF-SYHIILIKITPGGIADAKD 352
           TIRLMFRKGKGEQRVCKVFDAPNLPEAEAIS  S  + + +IT GGIADAKD
Sbjct: 301 TIRLMFRKGKGEQRVCKVFDAPNLPEAEAISLISIQLHVFQITSGGIADAKD 352

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359477566|ref|XP_002279369.2| PREDICTED: LOW QUALITY PROTEIN: meiotic recombination protein DMC1 homolog [Vitis vinifera]

 Score =  638 bits (1645), Expect = e-180,   Method: Compositional matrix adjust.
 Identities = 329/361 (91%), Positives = 340/361 (94%), Gaps = 9/361 (2%)

Query: 1   MIATLKAEEQSQLQLVEREDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMM 60
           MIA LK+EE SQLQLVEREDI+DEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMM
Sbjct: 1   MIAALKSEEHSQLQLVEREDIEDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMM 60

Query: 61  HTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLG 120
           HTKK+LTGIKGLSEAKV+KICEAAEKIVNFGYITGSDALLRRK+V++ITTGSQALDELLG
Sbjct: 61  HTKKNLTGIKGLSEAKVDKICEAAEKIVNFGYITGSDALLRRKSVVRITTGSQALDELLG 120

Query: 121 GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPI 180
           GGIET AITEAFGEFRSGKTQLAHTLCV TQLPT+MRGGNGKVAYIDTEGTFRPDRIVPI
Sbjct: 121 GGIETSAITEAFGEFRSGKTQLAHTLCVSTQLPTSMRGGNGKVAYIDTEGTFRPDRIVPI 180

Query: 181 AERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTG 240
           AERFGMD GAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTG
Sbjct: 181 AERFGMDAGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTG 240

Query: 241 RGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA 300
           RGELADRQQKL QMLSRLTKI+EEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA
Sbjct: 241 RGELADRQQKLAQMLSRLTKIAEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA 300

Query: 301 VTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIIL---------IKITPGGIADAK 351
            TIRLMFRKGKGEQRVCKVFDAPNLPEAEAIS    I+L          +ITPGGIADAK
Sbjct: 301 ATIRLMFRKGKGEQRVCKVFDAPNLPEAEAISLITIILLKSCSXQRQVFQITPGGIADAK 360

Query: 352 D 352
           D
Sbjct: 361 D 361

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449432658|ref|XP_004134116.1| PREDICTED: meiotic recombination protein DMC1 homolog [Cucumis sativus] gi|449504138|ref|XP_004162263.1| PREDICTED: meiotic recombination protein DMC1 homolog [Cucumis sativus]

 Score =  629 bits (1623), Expect = e-178,   Method: Compositional matrix adjust.
 Identities = 315/353 (89%), Positives = 337/353 (95%), Gaps = 9/353 (2%)

Query: 1   MIATLKAEEQSQ-LQLVEREDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLM 59
           M+ATLKAEEQSQ LQLVEREDI+DE+DLFEAIDKL S GINAGDVKKLQDAGIYTCNGLM
Sbjct: 1   MLATLKAEEQSQQLQLVEREDIEDEDDLFEAIDKLTSHGINAGDVKKLQDAGIYTCNGLM 60

Query: 60  MHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELL 119
           MHTKKHLTGIKGLSEAKV+KICEAAEK+VNFGYITGSDALL+RK+V++ITTGSQALDELL
Sbjct: 61  MHTKKHLTGIKGLSEAKVDKICEAAEKLVNFGYITGSDALLKRKSVVRITTGSQALDELL 120

Query: 120 GGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVP 179
           GGGIET AITEAFGEFRSGKTQLAHTLCV TQLPT+MRGGNGKVAYIDTEGTFRPDRIVP
Sbjct: 121 GGGIETLAITEAFGEFRSGKTQLAHTLCVSTQLPTSMRGGNGKVAYIDTEGTFRPDRIVP 180

Query: 180 IAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFT 239
           IAERFGMDPGAVLDNIIYARAYTYEHQ+NLLLGLAAKMSEEPF+LLIVDS+IALFRVDFT
Sbjct: 181 IAERFGMDPGAVLDNIIYARAYTYEHQHNLLLGLAAKMSEEPFKLLIVDSIIALFRVDFT 240

Query: 240 GRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAH 299
           GRGELA+RQQKL QMLSRLTKI+EEFNVAVYMTNQV+ADPGGGVF+SDPKKPAGGHVLAH
Sbjct: 241 GRGELAERQQKLAQMLSRLTKIAEEFNVAVYMTNQVVADPGGGVFVSDPKKPAGGHVLAH 300

Query: 300 AVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADAKD 352
           A T+RLMFRKGKGEQR+CKVFDAPNLPE+EA+         +ITPGGIADAKD
Sbjct: 301 AATVRLMFRKGKGEQRICKVFDAPNLPESEAV--------FQITPGGIADAKD 345

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351726994|ref|NP_001238425.1| meiotic recombination protein DMC1 homolog [Glycine max] gi|3219787|sp|Q96449.1|DMC1_SOYBN RecName: Full=Meiotic recombination protein DMC1 homolog gi|1518157|gb|AAB07025.1| RecA/Rad51/DMC1-like protein [Glycine max]

 Score =  628 bits (1620), Expect = e-177,   Method: Compositional matrix adjust.
 Identities = 316/353 (89%), Positives = 336/353 (95%), Gaps = 9/353 (2%)

Query: 1   MIATLKAEEQS-QLQLVEREDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLM 59
           M+ATLK+EE S QLQLVEREDIDD+EDLFEAIDKLI+QGINAGDVKKLQDAGIYTCNGLM
Sbjct: 1   MLATLKSEESSGQLQLVEREDIDDDEDLFEAIDKLIAQGINAGDVKKLQDAGIYTCNGLM 60

Query: 60  MHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELL 119
           MHTKK+LTGIKGLSEAKV+KICEAAEK+VNFGYITGSDALL+RK+VI+ITTGSQALDELL
Sbjct: 61  MHTKKNLTGIKGLSEAKVDKICEAAEKLVNFGYITGSDALLKRKSVIRITTGSQALDELL 120

Query: 120 GGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVP 179
           GGG+ET AITEAFGEFRSGKTQLAHTLCV TQLPTNMRGGNGKVAYIDTEGTFRPDRIVP
Sbjct: 121 GGGVETSAITEAFGEFRSGKTQLAHTLCVSTQLPTNMRGGNGKVAYIDTEGTFRPDRIVP 180

Query: 180 IAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFT 239
           IAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDF+
Sbjct: 181 IAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFS 240

Query: 240 GRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAH 299
           GRGELADRQQKL QMLSRL KI+EEFNVAVYMTNQVI+DPGGGVF++DPKKPAGGHVLAH
Sbjct: 241 GRGELADRQQKLAQMLSRLIKIAEEFNVAVYMTNQVISDPGGGVFVTDPKKPAGGHVLAH 300

Query: 300 AVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADAKD 352
           A T+RLMFRKGKGEQR+CKVFDAPNLPEAEA+         +IT GGIADAKD
Sbjct: 301 AATVRLMFRKGKGEQRICKVFDAPNLPEAEAV--------FQITAGGIADAKD 345

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147805615|emb|CAN71783.1| hypothetical protein VITISV_028799 [Vitis vinifera]

 Score =  623 bits (1607), Expect = e-176,   Method: Compositional matrix adjust.
 Identities = 317/335 (94%), Positives = 327/335 (97%)

Query: 1   MIATLKAEEQSQLQLVEREDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMM 60
           MIA LK+EE SQLQLVEREDI+DEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMM
Sbjct: 1   MIAALKSEEHSQLQLVEREDIEDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMM 60

Query: 61  HTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLG 120
           HTKK+LTGIKGLSEAKV+KICEAAEKIVNFGYITGSDALLRRK+V++ITTGSQALDELLG
Sbjct: 61  HTKKNLTGIKGLSEAKVDKICEAAEKIVNFGYITGSDALLRRKSVVRITTGSQALDELLG 120

Query: 121 GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPI 180
           GGIET AITEAFGEFRSGKTQLAHTLCV TQLPT+MRGGNGKVAYIDTEGTFRPDRIVPI
Sbjct: 121 GGIETSAITEAFGEFRSGKTQLAHTLCVSTQLPTSMRGGNGKVAYIDTEGTFRPDRIVPI 180

Query: 181 AERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTG 240
           AERFGMD GAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTG
Sbjct: 181 AERFGMDAGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTG 240

Query: 241 RGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA 300
           RGELADRQQKL QMLSRLTKI+EEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA
Sbjct: 241 RGELADRQQKLAQMLSRLTKIAEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA 300

Query: 301 VTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSY 335
            TIRLMFRKGKGEQRVCKVFDAPNLPEAEAISF +
Sbjct: 301 ATIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFPF 335

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|145952326|gb|ABP98984.1| DMC1 [Hieracium caespitosum] gi|145952328|gb|ABP98985.1| DMC1 [Hieracium caespitosum]

 Score =  614 bits (1583), Expect = e-173,   Method: Compositional matrix adjust.
 Identities = 313/348 (89%), Positives = 328/348 (94%), Gaps = 8/348 (2%)

Query: 5   LKAEEQSQLQLVEREDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKK 64
            K+EE SQLQLVERE+++D+EDLFEAIDKL S GINAGDVKKLQDAGIYTCNGLMMHTKK
Sbjct: 4   FKSEEVSQLQLVEREELEDDEDLFEAIDKLTSHGINAGDVKKLQDAGIYTCNGLMMHTKK 63

Query: 65  HLTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIE 124
           +LTGIKGLSEAKV+KICEAAEKIVNFGYITGSDALLRRKAV++ITTGSQALDELLGGGIE
Sbjct: 64  NLTGIKGLSEAKVDKICEAAEKIVNFGYITGSDALLRRKAVVRITTGSQALDELLGGGIE 123

Query: 125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERF 184
           T  ITEAFGEFRSGKTQLAHTLCV TQLPTNM+GGNGKVAYIDTEGTFRPDRIVPIAERF
Sbjct: 124 TLQITEAFGEFRSGKTQLAHTLCVSTQLPTNMKGGNGKVAYIDTEGTFRPDRIVPIAERF 183

Query: 185 GMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGEL 244
           GMD GAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGEL
Sbjct: 184 GMDAGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGEL 243

Query: 245 ADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIR 304
           A+RQQKL QMLSRLTKI+EEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA T+R
Sbjct: 244 AERQQKLAQMLSRLTKIAEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAATVR 303

Query: 305 LMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADAKD 352
           LMFRKGKGEQRVCKVFDAPNLPE+EAI         +IT GGIADAKD
Sbjct: 304 LMFRKGKGEQRVCKVFDAPNLPESEAI--------FQITSGGIADAKD 343

Source: Hieracium caespitosum

Species: Hieracium caespitosum

Genus: Hieracium

Family: Asteraceae

Order: Asterales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30686826|ref|NP_188928.2| meiotic recombination protein DMC1-like protein [Arabidopsis thaliana] gi|21903409|sp|Q39009.2|DMC1_ARATH RecName: Full=Meiotic recombination protein DMC1 homolog gi|1790922|gb|AAC49617.1| AtDMC1 [Arabidopsis thaliana] gi|66792672|gb|AAY56438.1| At3g22880 [Arabidopsis thaliana] gi|332643166|gb|AEE76687.1| meiotic recombination protein DMC1-like protein [Arabidopsis thaliana]

 Score =  604 bits (1557), Expect = e-170,   Method: Compositional matrix adjust.
 Identities = 306/352 (86%), Positives = 332/352 (94%), Gaps = 8/352 (2%)

Query: 1   MIATLKAEEQSQLQLVEREDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMM 60
           M+A+LKAEE SQ+QLVERE+ D++EDLFE IDKLI+QGINAGDVKKLQ+AGI+TCNGLMM
Sbjct: 1   MMASLKAEETSQMQLVEREENDEDEDLFEMIDKLIAQGINAGDVKKLQEAGIHTCNGLMM 60

Query: 61  HTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLG 120
           HTKK+LTGIKGLSEAKV+KICEAAEKIVNFGY+TGSDAL++RK+V+KITTG QALD+LLG
Sbjct: 61  HTKKNLTGIKGLSEAKVDKICEAAEKIVNFGYMTGSDALIKRKSVVKITTGCQALDDLLG 120

Query: 121 GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPI 180
           GGIET AITEAFGEFRSGKTQLAHTLCV TQLPTNM+GGNGKVAYIDTEGTFRPDRIVPI
Sbjct: 121 GGIETSAITEAFGEFRSGKTQLAHTLCVTTQLPTNMKGGNGKVAYIDTEGTFRPDRIVPI 180

Query: 181 AERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTG 240
           AERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFR+LIVDS+IALFRVDFTG
Sbjct: 181 AERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRILIVDSIIALFRVDFTG 240

Query: 241 RGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA 300
           RGELADRQQKL QMLSRL KI+EEFNVAVYMTNQVIADPGGG+FISDPKKPAGGHVLAHA
Sbjct: 241 RGELADRQQKLAQMLSRLIKIAEEFNVAVYMTNQVIADPGGGMFISDPKKPAGGHVLAHA 300

Query: 301 VTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADAKD 352
            TIRL+FRKGKG+ RVCKV+DAPNL EAEA SF       +IT GGIADAKD
Sbjct: 301 ATIRLLFRKGKGDTRVCKVYDAPNLAEAEA-SF-------QITQGGIADAKD 344

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|871832|dbj|BAA08255.1| recA-like protein [Arabidopsis thaliana]

 Score =  598 bits (1543), Expect = e-169,   Method: Compositional matrix adjust.
 Identities = 304/352 (86%), Positives = 329/352 (93%), Gaps = 10/352 (2%)

Query: 1   MIATLKAEEQSQLQLVEREDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMM 60
           M+A+LKAEE SQ+QLVERE+ D++EDLFE IDKLI+QGINAGDVKKLQ+AGI+TCNGLMM
Sbjct: 1   MMASLKAEETSQMQLVEREENDEDEDLFEMIDKLIAQGINAGDVKKLQEAGIHTCNGLMM 60

Query: 61  HTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLG 120
           HTKK+LTGIKGLSEAKV+KICEAAEKIVNFGY+TGSDAL++RK V+KITTG QALD+LLG
Sbjct: 61  HTKKNLTGIKGLSEAKVDKICEAAEKIVNFGYMTGSDALIKRKLVVKITTGCQALDDLLG 120

Query: 121 GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPI 180
           GGIET AITEAFGEFRSGKTQLAHTLCV TQLPTNM+GGNGKVAYIDTEGTFRPDRIVPI
Sbjct: 121 GGIETSAITEAFGEFRSGKTQLAHTLCVTTQLPTNMKGGNGKVAYIDTEGTFRPDRIVPI 180

Query: 181 AERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTG 240
           AERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFR+LIVDS+IALFRVDFTG
Sbjct: 181 AERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRILIVDSIIALFRVDFTG 240

Query: 241 RGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA 300
           RGELADRQQKL QMLSRL KI+EEFNVAVYMTNQVIADPGGG+FISDPKKPAGGHVLAHA
Sbjct: 241 RGELADRQQKLAQMLSRLIKIAEEFNVAVYMTNQVIADPGGGMFISDPKKPAGGHVLAHA 300

Query: 301 VTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADAKD 352
            TIRL+FRKGKG+ RVCKV+DAPNL EA   SF       +IT GGIADAKD
Sbjct: 301 ATIRLLFRKGKGDTRVCKVYDAPNLAEA---SF-------QITQGGIADAKD 342

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	352
TAIR|locus:2084558	344	DMC1 "DISRUPTION OF MEIOTIC CO	0.977	1.0	0.869	2.2e-160
UNIPROTKB|Q50LF6	342	tilDmc1 "RecA homolog Dmc1" [O	0.940	0.967	0.601	7.9e-101
UNIPROTKB|Q50LF7	339	eDmc1 "RecA homolog DMC1" [Ang	0.940	0.976	0.598	1.9e-99
UNIPROTKB|F1NI95	346	DMC1 "Uncharacterized protein"	0.957	0.973	0.583	2.4e-99
MGI|MGI:105393	340	Dmc1 "DMC1 dosage suppressor o	0.940	0.973	0.595	2.4e-99
UNIPROTKB|F1SKQ1	340	DMC1 "Uncharacterized protein"	0.954	0.988	0.582	1e-98
RGD|1307611	340	Dmc1 "DMC1 dosage suppressor o	0.940	0.973	0.593	1.3e-98
UNIPROTKB|E2RK50	340	DMC1 "Uncharacterized protein"	0.954	0.988	0.582	1.7e-98
ZFIN|ZDB-GENE-060331-93	342	dmc1 "DMC1 dosage suppressor o	0.940	0.967	0.590	1.7e-98
GENEDB_PFALCIPARUM|MAL8P1.76	347	MAL8P1.76 "meiotic recombinati	0.974	0.988	0.560	3.5e-98

TAIR|locus:2084558 DMC1 "DISRUPTION OF MEIOTIC CONTROL 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 1562 (554.9 bits), Expect = 2.2e-160, P = 2.2e-160
 Identities = 306/352 (86%), Positives = 332/352 (94%)

Query:     1 MIATLKAEEQSQLQLVEREDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMM 60
             M+A+LKAEE SQ+QLVERE+ D++EDLFE IDKLI+QGINAGDVKKLQ+AGI+TCNGLMM
Sbjct:     1 MMASLKAEETSQMQLVEREENDEDEDLFEMIDKLIAQGINAGDVKKLQEAGIHTCNGLMM 60

Query:    61 HTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLG 120
             HTKK+LTGIKGLSEAKV+KICEAAEKIVNFGY+TGSDAL++RK+V+KITTG QALD+LLG
Sbjct:    61 HTKKNLTGIKGLSEAKVDKICEAAEKIVNFGYMTGSDALIKRKSVVKITTGCQALDDLLG 120

Query:   121 GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPI 180
             GGIET AITEAFGEFRSGKTQLAHTLCV TQLPTNM+GGNGKVAYIDTEGTFRPDRIVPI
Sbjct:   121 GGIETSAITEAFGEFRSGKTQLAHTLCVTTQLPTNMKGGNGKVAYIDTEGTFRPDRIVPI 180

Query:   181 AERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTG 240
             AERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFR+LIVDS+IALFRVDFTG
Sbjct:   181 AERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRILIVDSIIALFRVDFTG 240

Query:   241 RGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA 300
             RGELADRQQKL QMLSRL KI+EEFNVAVYMTNQVIADPGGG+FISDPKKPAGGHVLAHA
Sbjct:   241 RGELADRQQKLAQMLSRLIKIAEEFNVAVYMTNQVIADPGGGMFISDPKKPAGGHVLAHA 300

Query:   301 VTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADAKD 352
              TIRL+FRKGKG+ RVCKV+DAPNL EAEA SF       +IT GGIADAKD
Sbjct:   301 ATIRLLFRKGKGDTRVCKVYDAPNLAEAEA-SF-------QITQGGIADAKD 344

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0003684 "damaged DNA binding" evidence=ISS

GO:0005524 "ATP binding" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006259 "DNA metabolic process" evidence=IEA;IDA

GO:0006281 "DNA repair" evidence=ISS

GO:0007131 "reciprocal meiotic recombination" evidence=IEA;ISS

GO:0008094 "DNA-dependent ATPase activity" evidence=IEA;ISS

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

GO:0005515 "protein binding" evidence=IPI

GO:0051026 "chiasma assembly" evidence=IGI;IMP

GO:0006302 "double-strand break repair" evidence=RCA

GO:0007126 "meiosis" evidence=RCA;TAS

GO:0010212 "response to ionizing radiation" evidence=RCA

UNIPROTKB|Q50LF6 tilDmc1 "RecA homolog Dmc1" [Oreochromis niloticus (taxid:8128)]

 Score = 1000 (357.1 bits), Expect = 7.9e-101, P = 7.9e-101
 Identities = 207/344 (60%), Positives = 255/344 (74%)

Query:    14 QLVEREDI--DDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKG 71
             Q+VE +    DDEE  F+ ID L   GIN  D+KKL+  GI T  G+ M T+K L  IKG
Sbjct:     7 QVVEDDSSFQDDEESFFQDIDLLQKHGINMADIKKLKSVGICTVKGIQMTTRKALCNIKG 66

Query:    72 LSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEA 131
             LSEAKVEKI EAA K++N G+ T  +   RRK V  +TTGSQ  D+LLGGG+E+ AITEA
Sbjct:    67 LSEAKVEKIKEAAGKMLNVGFQTAFEYSARRKQVFHVTTGSQEFDKLLGGGVESMAITEA 126

Query:   132 FGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAV 191
             FGEFR+GKTQL+HTLCV  QLP       GKV +IDTE TFRPDR+  IA+RF +D  AV
Sbjct:   127 FGEFRTGKTQLSHTLCVTAQLPGEDGYSGGKVIFIDTENTFRPDRLRDIADRFNVDHDAV 186

Query:   192 LDNIIYARAYTYEHQYNLLLGLAAKMSEEP--FRLLIVDSVIALFRVDFTGRGELADRQQ 249
             LDN++YARAYT EHQ  LL  +AAK  EE   F+LLI+DS++ALFRVDF+GRGELA+RQQ
Sbjct:   187 LDNVLYARAYTSEHQMELLDFVAAKFHEEGGVFKLLIIDSIMALFRVDFSGRGELAERQQ 246

Query:   250 KLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGV-FISDPKKPAGGHVLAHAVTIRLMFR 308
             KL QMLSRL KISEE+NVAV++TNQ+ ADPG G+ F +DPKKP GGH+LAHA T R+  R
Sbjct:   247 KLAQMLSRLQKISEEYNVAVFITNQMTADPGAGMTFQADPKKPIGGHILAHASTTRISLR 306

Query:   309 KGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADAKD 352
             KG+GE R+ K+FD+P++PE EA +F+       I+ GG+ DAKD
Sbjct:   307 KGRGEMRIAKIFDSPDMPENEA-TFA-------ISAGGVTDAKD 342

GO:0000150 "recombinase activity" evidence=ISS

GO:0003690 "double-stranded DNA binding" evidence=ISS

GO:0003697 "single-stranded DNA binding" evidence=ISS

GO:0005524 "ATP binding" evidence=ISS

GO:0006200 "ATP catabolic process" evidence=ISS

GO:0016887 "ATPase activity" evidence=ISS

UNIPROTKB|Q50LF7 eDmc1 "RecA homolog DMC1" [Anguilla japonica (taxid:7937)]

 Score = 987 (352.5 bits), Expect = 1.9e-99, P = 1.9e-99
 Identities = 206/344 (59%), Positives = 256/344 (74%)

Query:    14 QLVERED--IDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKG 71
             Q+VE E    DDEE  F+ ID L   GIN  D+KKL+  GI T  G+ M T++ L  +KG
Sbjct:     4 QVVENEVGYQDDEESFFQDIDLLQKHGINMADIKKLKSIGICTVKGIQMTTRRALCNVKG 63

Query:    72 LSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEA 131
             LSEAKV+KI EAA K+++ G++T  +   RRK V  ITTGS   D+L+GGGIE+ AITEA
Sbjct:    64 LSEAKVDKIKEAAGKLLSNGFLTAFEYSERRKQVFHITTGSLEFDKLIGGGIESMAITEA 123

Query:   132 FGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAV 191
             FGEFR+GKTQL+HTLCV  QLP       GKV +IDTE TFRPDR+  IA+RF +D  AV
Sbjct:   124 FGEFRTGKTQLSHTLCVTAQLPGEDGYTGGKVIFIDTENTFRPDRLKDIADRFSVDQEAV 183

Query:   192 LDNIIYARAYTYEHQYNLLLGLAAKMSEEP--FRLLIVDSVIALFRVDFTGRGELADRQQ 249
             LDN++YARAYT EHQ  LL  +AAK  EE   F+LLI+DS++ALFRVDF+GRGELA+RQQ
Sbjct:   184 LDNVLYARAYTSEHQMELLDFVAAKFHEEGGVFKLLIIDSIMALFRVDFSGRGELAERQQ 243

Query:   250 KLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGV-FISDPKKPAGGHVLAHAVTIRLMFR 308
             KL QMLSRL KISEE+NVAV++TNQ+ ADPG G+ F +DPKKP GGH+LAHA T R+  R
Sbjct:   244 KLAQMLSRLQKISEEYNVAVFVTNQMTADPGAGMTFQADPKKPIGGHILAHASTTRISLR 303

Query:   309 KGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADAKD 352
             KG+GE R+ K+FD+P++PE EA +F+       IT GGIADAK+
Sbjct:   304 KGRGEMRIAKIFDSPDMPENEA-TFA-------ITAGGIADAKE 339

GO:0000150 "recombinase activity" evidence=ISS

GO:0003690 "double-stranded DNA binding" evidence=ISS

GO:0003697 "single-stranded DNA binding" evidence=ISS

GO:0005524 "ATP binding" evidence=ISS

GO:0006200 "ATP catabolic process" evidence=ISS

GO:0016887 "ATPase activity" evidence=ISS

UNIPROTKB|F1NI95 DMC1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 986 (352.1 bits), Expect = 2.4e-99, P = 2.4e-99
 Identities = 206/353 (58%), Positives = 257/353 (72%)

Query:     4 TLKAEEQSQLQLVERED--IDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMH 61
             T+KA E    Q+V+ E    DDEE  F+ ID L   GIN  D+KKL+  GI T  G+ M 
Sbjct:     4 TMKAMED---QVVQEESGYHDDEESFFQDIDLLQKHGINVADIKKLKSVGICTIKGVQMT 60

Query:    62 TKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGG 121
             T++ L  +KGLSE KV+KI EAA K++  G++T  +   +RK V  ITTGSQ  D+LLGG
Sbjct:    61 TRRALCNVKGLSEVKVDKIKEAANKLIEPGFLTAFEYSEKRKMVFHITTGSQEFDKLLGG 120

Query:   122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIA 181
             GIE+ AITEAFGEFR+GKTQL+HTLCV  QLP       GK+ +IDTE TFRPDR+  IA
Sbjct:   121 GIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGPKGYTGGKIIFIDTENTFRPDRLRDIA 180

Query:   182 ERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEP--FRLLIVDSVIALFRVDFT 239
             +RF +D  AVLDN++YARAYT EHQ  LL  +AAK  EE   F+LLI+DS++ALFRVDF+
Sbjct:   181 DRFNVDHDAVLDNVLYARAYTSEHQMELLDYVAAKFHEEAGIFKLLIIDSIMALFRVDFS 240

Query:   240 GRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGV-FISDPKKPAGGHVLA 298
             GRGELA+RQQKL QMLSRL KISEE+NVAV++TNQ+ ADPG  + F +DPKKP GGH+LA
Sbjct:   241 GRGELAERQQKLAQMLSRLQKISEEYNVAVFVTNQMTADPGATMTFQADPKKPVGGHILA 300

Query:   299 HAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADAK 351
             HA T R+  RKG+GE R+ K++D+P +PE EA +F+       ITPGGI DAK
Sbjct:   301 HASTTRISLRKGRGELRIAKIYDSPEMPENEA-TFA-------ITPGGIGDAK 345

GO:0003677 "DNA binding" evidence=IEA

GO:0007131 "reciprocal meiotic recombination" evidence=IEA

GO:0008094 "DNA-dependent ATPase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0000239 "pachytene" evidence=IEA

GO:0000781 "chromosome, telomeric region" evidence=IEA

GO:0000794 "condensed nuclear chromosome" evidence=IEA

GO:0001541 "ovarian follicle development" evidence=IEA

GO:0001556 "oocyte maturation" evidence=IEA

GO:0007141 "male meiosis I" evidence=IEA

GO:0007286 "spermatid development" evidence=IEA

MGI|MGI:105393 Dmc1 "DMC1 dosage suppressor of mck1 homolog, meiosis-specific homologous recombination" [Mus musculus (taxid:10090)]

 Score = 986 (352.1 bits), Expect = 2.4e-99, P = 2.4e-99
 Identities = 205/344 (59%), Positives = 253/344 (73%)

Query:    14 QLVERED--IDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKG 71
             Q+V+ E    DDEE LF+ ID L   GIN  D+KKL+  GI T  G+ M T++ L  +KG
Sbjct:     5 QVVQEESGFQDDEESLFQDIDLLQKHGINMADIKKLKSVGICTIKGIQMTTRRALCNVKG 64

Query:    72 LSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEA 131
             LSEAKVEKI EAA K++  G++T      RRK V  ITTGSQ  D+LLGGGIE+ AITEA
Sbjct:    65 LSEAKVEKIKEAANKLIEPGFLTAFQYSERRKMVFHITTGSQEFDKLLGGGIESMAITEA 124

Query:   132 FGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAV 191
             FGEFR+GKTQL+HTLCV  QLP       GK+ +IDTE TFRPDR+  IA+RF +D  AV
Sbjct:   125 FGEFRTGKTQLSHTLCVTAQLPGTGGYSGGKIIFIDTENTFRPDRLRDIADRFNVDHEAV 184

Query:   192 LDNIIYARAYTYEHQYNLLLGLAAKMSEEP--FRLLIVDSVIALFRVDFTGRGELADRQQ 249
             LDN++YARAYT EHQ  LL  +AAK  EE   F+LLI+DS++ALFRVDF+GRGELA+RQQ
Sbjct:   185 LDNVLYARAYTSEHQMELLDYVAAKFHEEAGIFKLLIIDSIMALFRVDFSGRGELAERQQ 244

Query:   250 KLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGV-FISDPKKPAGGHVLAHAVTIRLMFR 308
             KL QMLSRL KISEE+NVAV++TNQ+ ADPG  + F +DPKKP GGH+LAHA T R+  R
Sbjct:   245 KLAQMLSRLQKISEEYNVAVFVTNQMTADPGATMTFQADPKKPIGGHILAHASTTRISLR 304

Query:   309 KGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADAKD 352
             KG+GE R+ K++D+P +PE EA +F+       IT GGI DAK+
Sbjct:   305 KGRGELRIAKIYDSPEMPENEA-TFA-------ITAGGIGDAKE 340

GO:0000166 "nucleotide binding" evidence=IEA

GO:0000781 "chromosome, telomeric region" evidence=IDA

GO:0000794 "condensed nuclear chromosome" evidence=IDA

GO:0001541 "ovarian follicle development" evidence=IMP

GO:0001556 "oocyte maturation" evidence=IMP

GO:0003677 "DNA binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005694 "chromosome" evidence=IDA

GO:0006259 "DNA metabolic process" evidence=IEA

GO:0006281 "DNA repair" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

GO:0007126 "meiosis" evidence=IEA

GO:0007129 "synapsis" evidence=IMP

GO:0007131 "reciprocal meiotic recombination" evidence=IEA

GO:0007141 "male meiosis I" evidence=IMP

GO:0007276 "gamete generation" evidence=IMP

GO:0007283 "spermatogenesis" evidence=IMP

GO:0007286 "spermatid development" evidence=IMP

GO:0008094 "DNA-dependent ATPase activity" evidence=IEA

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

UNIPROTKB|F1SKQ1 DMC1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 980 (350.0 bits), Expect = 1.0e-98, P = 1.0e-98
 Identities = 202/347 (58%), Positives = 255/347 (73%)

Query:     9 EQSQLQLVEREDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTG 68
             ++ Q+ L E    D+EE LF+ ID L   GIN  D+KKL+  GI T  G+ M T++ L  
Sbjct:     2 KEDQVVLEEPGFQDEEESLFQDIDLLQKHGINVADIKKLKSVGICTIKGIQMTTRRALCN 61

Query:    69 IKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAI 128
             +KGLSEAKV+KI EAA K++  G++T  +   +RK V  ITTGSQ  D+LLGGGIE+ AI
Sbjct:    62 VKGLSEAKVDKIKEAANKLIEPGFLTAFEYSEKRKMVFHITTGSQEFDKLLGGGIESMAI 121

Query:   129 TEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDP 188
             TEAFGEFR+GKTQL+HTLCV  QLP       GK+ +IDTE TFRPDR+  IA+RF +D 
Sbjct:   122 TEAFGEFRTGKTQLSHTLCVTAQLPGAGGYSGGKIIFIDTENTFRPDRLRDIADRFNVDH 181

Query:   189 GAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEP--FRLLIVDSVIALFRVDFTGRGELAD 246
              AVLDN++YARAYT EHQ  LL  +AAK  EE   F+LLI+DS++ALFRVDF+GRGELA+
Sbjct:   182 DAVLDNVLYARAYTSEHQMELLDYVAAKFHEEAGIFKLLIIDSIMALFRVDFSGRGELAE 241

Query:   247 RQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGV-FISDPKKPAGGHVLAHAVTIRL 305
             RQQKL QMLSRL KISEE+NVAV++TNQ+ ADPG  + F +DPKKP GGH+LAHA T R+
Sbjct:   242 RQQKLAQMLSRLQKISEEYNVAVFVTNQMTADPGATMTFQADPKKPVGGHILAHASTTRI 301

Query:   306 MFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADAKD 352
               RKG+GE R+ K++D+P +PE EA +F+       IT GGI DAK+
Sbjct:   302 SLRKGRGELRIAKIYDSPEMPENEA-TFA-------ITAGGIGDAKE 340

GO:0007286 "spermatid development" evidence=IEA

GO:0007141 "male meiosis I" evidence=IEA

GO:0001556 "oocyte maturation" evidence=IEA

GO:0001541 "ovarian follicle development" evidence=IEA

GO:0000794 "condensed nuclear chromosome" evidence=IEA

GO:0000781 "chromosome, telomeric region" evidence=IEA

GO:0000239 "pachytene" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0008094 "DNA-dependent ATPase activity" evidence=IEA

GO:0007131 "reciprocal meiotic recombination" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

RGD|1307611 Dmc1 "DMC1 dosage suppressor of mck1 homolog, meiosis-specific homologous recombination (yeast)" [Rattus norvegicus (taxid:10116)]

 Score = 979 (349.7 bits), Expect = 1.3e-98, P = 1.3e-98
 Identities = 204/344 (59%), Positives = 253/344 (73%)

Query:    14 QLVERED--IDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKG 71
             Q+V+ E    D+EE LF+ ID L   GIN  D+KKL+  GI T  G+ M T++ L  +KG
Sbjct:     5 QVVQEESGFQDEEESLFQDIDLLQKHGINMADIKKLKSVGICTIKGIQMTTRRALCNVKG 64

Query:    72 LSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEA 131
             LSEAKVEKI EAA K++  G++T      +RK V  ITTGSQ  D+LLGGGIE+ AITEA
Sbjct:    65 LSEAKVEKIKEAANKLIEPGFLTAFQYSEKRKMVFHITTGSQEFDKLLGGGIESMAITEA 124

Query:   132 FGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAV 191
             FGEFR+GKTQL+HTLCV  QLP       GK+ +IDTE TFRPDR+  IA+RF +D  AV
Sbjct:   125 FGEFRTGKTQLSHTLCVTAQLPGADGYSGGKIIFIDTENTFRPDRLRDIADRFNVDHDAV 184

Query:   192 LDNIIYARAYTYEHQYNLLLGLAAKMSEEP--FRLLIVDSVIALFRVDFTGRGELADRQQ 249
             LDN++YARAYT EHQ  LL  +AAK  EE   F+LLIVDS++ALFRVDF+GRGELA+RQQ
Sbjct:   185 LDNVLYARAYTSEHQMELLDYVAAKFHEEAGIFKLLIVDSIMALFRVDFSGRGELAERQQ 244

Query:   250 KLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGV-FISDPKKPAGGHVLAHAVTIRLMFR 308
             KL QMLSRL KISEE+NVAV++TNQ+ ADPG  + F +DPKKP GGH+LAHA T R+  R
Sbjct:   245 KLAQMLSRLQKISEEYNVAVFVTNQMTADPGATMTFQADPKKPIGGHILAHASTTRISLR 304

Query:   309 KGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADAKD 352
             KG+GE R+ K++D+P +PE EA +F+       IT GGI DAK+
Sbjct:   305 KGRGELRIAKIYDSPEMPENEA-TFA-------ITTGGIGDAKE 340

GO:0000239 "pachytene" evidence=IEA;ISO

GO:0000781 "chromosome, telomeric region" evidence=IEA;ISO

GO:0000794 "condensed nuclear chromosome" evidence=IEA;ISO

GO:0001541 "ovarian follicle development" evidence=IEA;ISO

GO:0001556 "oocyte maturation" evidence=IEA;ISO

GO:0003677 "DNA binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005694 "chromosome" evidence=ISO

GO:0006281 "DNA repair" evidence=IEA

GO:0007131 "reciprocal meiotic recombination" evidence=IEA

GO:0007141 "male meiosis I" evidence=IEA;ISO

GO:0007276 "gamete generation" evidence=ISO

GO:0007283 "spermatogenesis" evidence=ISO

GO:0007286 "spermatid development" evidence=IEA;ISO

GO:0008094 "DNA-dependent ATPase activity" evidence=IEA

UNIPROTKB|E2RK50 DMC1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 978 (349.3 bits), Expect = 1.7e-98, P = 1.7e-98
 Identities = 202/347 (58%), Positives = 255/347 (73%)

Query:     9 EQSQLQLVEREDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTG 68
             ++ Q+ L E    D+EE LF+ ID L   GIN  D+KKL+  GI T  G+ M T++ L  
Sbjct:     2 KEDQVVLEEPGFQDEEESLFQDIDLLQKHGINVADIKKLKSVGICTIKGIQMTTRRALCN 61

Query:    69 IKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAI 128
             +KGLSEAKV+KI EAA K++  G++T  +   +RK V  ITTGSQ  D+LLGGGIE+ AI
Sbjct:    62 VKGLSEAKVDKIKEAANKLIEPGFLTAFEYSEKRKMVFHITTGSQEFDKLLGGGIESMAI 121

Query:   129 TEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDP 188
             TEAFGEFR+GKTQL+HTLCV  QLP       GK+ +IDTE TFRPDR+  IA+RF +D 
Sbjct:   122 TEAFGEFRTGKTQLSHTLCVTAQLPGAGGYSGGKIIFIDTENTFRPDRLRDIADRFNVDH 181

Query:   189 GAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEP--FRLLIVDSVIALFRVDFTGRGELAD 246
              AVLDN++YARAYT EHQ  LL  +AAK  EE   F+LLI+DS++ALFRVDF+GRGELA+
Sbjct:   182 DAVLDNVLYARAYTSEHQMELLDYVAAKFHEEAGIFKLLIIDSIMALFRVDFSGRGELAE 241

Query:   247 RQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGV-FISDPKKPAGGHVLAHAVTIRL 305
             RQQKL QMLSRL KISEE+NVAV++TNQ+ ADPG  + F +DPKKP GGH+LAHA T R+
Sbjct:   242 RQQKLAQMLSRLQKISEEYNVAVFVTNQMTADPGATMTFQADPKKPIGGHILAHASTTRV 301

Query:   306 MFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADAKD 352
               RKG+GE R+ K++D+P +PE EA +F+       IT GGI DAK+
Sbjct:   302 SLRKGRGELRIAKIYDSPEMPENEA-TFA-------ITAGGIGDAKE 340

GO:0007286 "spermatid development" evidence=IEA

GO:0007141 "male meiosis I" evidence=IEA

GO:0001556 "oocyte maturation" evidence=IEA

GO:0001541 "ovarian follicle development" evidence=IEA

GO:0000794 "condensed nuclear chromosome" evidence=IEA

GO:0000781 "chromosome, telomeric region" evidence=IEA

GO:0000239 "pachytene" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0008094 "DNA-dependent ATPase activity" evidence=IEA

GO:0007131 "reciprocal meiotic recombination" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

ZFIN|ZDB-GENE-060331-93 dmc1 "DMC1 dosage suppressor of mck1 homolog, meiosis-specific homologous recombination (yeast)" [Danio rerio (taxid:7955)]

 Score = 978 (349.3 bits), Expect = 1.7e-98, P = 1.7e-98
 Identities = 203/344 (59%), Positives = 253/344 (73%)

Query:    14 QLVERED--IDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKG 71
             Q +E E    DDEE  F+ I+ L   GIN  D+KKL+  GI T  G+ M T++ L  IKG
Sbjct:     7 QTLEEESGYQDDEESFFQDIELLQKHGINVADIKKLKSVGICTVKGIQMTTRRALCNIKG 66

Query:    72 LSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEA 131
             LSEAKV+KI EAA K++  G+ T S+  ++RK V  ITTGS   D+LLGGG+E+ AITEA
Sbjct:    67 LSEAKVDKIKEAAGKLLTCGFQTASEYCIKRKQVFHITTGSLEFDKLLGGGVESMAITEA 126

Query:   132 FGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAV 191
             FGEFR+GKTQL+HTLCV  QLP       GKV +IDTE TFRP+R+  IA+RF +D  AV
Sbjct:   127 FGEFRTGKTQLSHTLCVTAQLPGEYGYTGGKVIFIDTENTFRPERLKDIADRFNVDHEAV 186

Query:   192 LDNIIYARAYTYEHQYNLLLGLAAKMSEEP--FRLLIVDSVIALFRVDFTGRGELADRQQ 249
             LDN++YARAYT EHQ  LL  +AAK  EE   F+LLI+DS++ALFRVDF+GRGELA+RQQ
Sbjct:   187 LDNVLYARAYTSEHQMELLDFVAAKFHEEGGVFKLLIIDSIMALFRVDFSGRGELAERQQ 246

Query:   250 KLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGV-FISDPKKPAGGHVLAHAVTIRLMFR 308
             KL QMLSRL KISEE+NVAV++TNQ+ ADPG G+ F +DPKKP GGH+LAHA T R+  R
Sbjct:   247 KLAQMLSRLQKISEEYNVAVFVTNQMTADPGAGMTFQADPKKPIGGHILAHASTTRISLR 306

Query:   309 KGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADAKD 352
             KG+ E R+ K+FD+P++PE EA +F+       IT GGI DAKD
Sbjct:   307 KGRAELRIAKIFDSPHMPENEA-TFA-------ITAGGITDAKD 342

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

GO:0003677 "DNA binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0007131 "reciprocal meiotic recombination" evidence=IEA

GO:0008094 "DNA-dependent ATPase activity" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0006259 "DNA metabolic process" evidence=IEA

GENEDB_PFALCIPARUM|MAL8P1.76 MAL8P1.76 "meiotic recombination protein dmc1-like protein" [Plasmodium falciparum (taxid:5833)]

 Score = 975 (348.3 bits), Expect = 3.5e-98, P = 3.5e-98
 Identities = 199/355 (56%), Positives = 258/355 (72%)

Query:     2 IATLKAEEQ-SQLQLV-EREDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLM 59
             +ATL A +  S++ L  E ED   +E  F+ I+KL   GINA D+ KL+ +G  T   L+
Sbjct:     1 MATLPASKSASKVALTSEVEDEGIKEHTFQEIEKLQDLGINAADINKLKGSGYCTILSLI 60

Query:    60 MHTKKHLTGIKGLSEAKVEKICEAAEKIVNFG-YITGSDALLRRKAVIKITTGSQALDEL 118
               TKK L  +KG+SEAKV+KI E A KI N   +IT ++ + +R  V+KITTGS   D+ 
Sbjct:    61 QTTKKELCNVKGISEAKVDKILEVASKIENCSSFITANELVQKRSKVLKITTGSTVFDQT 120

Query:   119 LGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIV 178
             LGGGIE+  ITE FGE R GKTQ+ HTL V  QLP ++ GGNGKV YIDTEGTFRP+++ 
Sbjct:   121 LGGGIESMCITELFGENRCGKTQVCHTLAVTAQLPKSLNGGNGKVCYIDTEGTFRPEKVC 180

Query:   179 PIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDF 238
              IAER+G+D  AVLDNI+YARA+T+EH Y LL   AAKM EEPF LL+VDS+I+LFRVDF
Sbjct:   181 KIAERYGLDGEAVLDNILYARAFTHEHLYQLLAISAAKMCEEPFALLVVDSIISLFRVDF 240

Query:   239 TGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGV-FISDPKKPAGGHVL 297
             +GRGEL++RQQKL + +S L+K+SE+FN+A+ +TNQV++DPG  + FI++P KP GGHV+
Sbjct:   241 SGRGELSERQQKLNKTMSILSKLSEQFNIAILITNQVMSDPGATMTFIANPMKPVGGHVI 300

Query:   298 AHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADAKD 352
              HA TIRL  RKGKG+QRVCKV+DAPNLPE E I         +++  G+ DA D
Sbjct:   301 GHASTIRLSLRKGKGDQRVCKVYDAPNLPEVECI--------FQLSDKGVIDATD 347

GO:0000794 "condensed nuclear chromosome" evidence=ISS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q8PZN5	RADA_METMA	No assigned EC number	0.4259	0.8579	0.9292	yes	no
Q67EU8	R51A1_MAIZE	No assigned EC number	0.5108	0.8920	0.9235	N/A	no
O74036	RADA_PYRFU	No assigned EC number	0.4685	0.8579	0.8653	yes	no
Q46A31	RADA_METBF	No assigned EC number	0.4369	0.8551	0.9261	yes	no
C3MY77	RADA_SULIM	No assigned EC number	0.4145	0.8664	0.9413	yes	no
O42634	DMC1_SCHPO	No assigned EC number	0.5545	0.9090	0.9638	yes	no
C3MRI1	RADA_SULIL	No assigned EC number	0.4145	0.8664	0.9413	yes	no
A4WN87	RADA_PYRAR	No assigned EC number	0.4491	0.8323	0.8798	yes	no
P50265	DLH1_CANAX	No assigned EC number	0.5535	0.9005	0.9783	N/A	no
Q9UWR5	RADA_PYRIL	No assigned EC number	0.4590	0.8323	0.8878	yes	no
Q12UG7	RADA_METBU	No assigned EC number	0.4433	0.8409	0.9107	yes	no
Q27297	RAD51_DROME	No assigned EC number	0.4829	0.8948	0.9375	yes	no
Q39009	DMC1_ARATH	No assigned EC number	0.8693	0.9772	1.0	yes	no
Q14565	DMC1_HUMAN	No assigned EC number	0.5928	0.9176	0.95	yes	no
Q9XED7	R51A2_MAIZE	No assigned EC number	0.5201	0.8920	0.9235	N/A	no
Q91917	RA51B_XENLA	No assigned EC number	0.5271	0.9119	0.9553	N/A	no
O27436	RADA_METTH	No assigned EC number	0.4462	0.8437	0.9549	yes	no
Q91918	RA51A_XENLA	No assigned EC number	0.5210	0.9119	0.9553	N/A	no
O29269	RADA_ARCFU	No assigned EC number	0.4322	0.9176	0.9584	yes	no
Q8ZYR9	RADA_PYRAE	No assigned EC number	0.4340	0.9062	0.9579	yes	no
C3NFU5	RADA_SULIN	No assigned EC number	0.4145	0.8664	0.9413	yes	no
B8D610	RADA_DESK1	No assigned EC number	0.4226	0.9204	0.9878	yes	no
Q61880	DMC1_MOUSE	No assigned EC number	0.5930	0.9403	0.9735	yes	no
B1YC14	RADA_PYRNV	No assigned EC number	0.4524	0.8323	0.8878	yes	no
Q96449	DMC1_SOYBN	No assigned EC number	0.8951	0.9772	0.9971	yes	no
Q9V233	RADA_PYRAB	No assigned EC number	0.4622	0.8579	0.8555	yes	no
Q8TK71	RADA_METAC	No assigned EC number	0.4215	0.8551	0.9261	yes	no
Q74MX9	RADA_NANEQ	No assigned EC number	0.4347	0.8153	0.8830	yes	no
P37384	DMC1_LILLO	No assigned EC number	0.8468	0.9573	0.9656	N/A	no
P0CW92	RADA_AERPE	No assigned EC number	0.4159	0.9005	0.9937	yes	no
P0CW91	RADA_AERPX	No assigned EC number	0.4189	0.9005	0.9937	yes	no
A8AB83	RADA_IGNH4	No assigned EC number	0.4343	0.8636	0.9296	yes	no
A3MXX9	RADA_PYRCJ	No assigned EC number	0.4655	0.8323	0.8825	yes	no
P25453	DMC1_YEAST	No assigned EC number	0.5292	0.8948	0.9431	yes	no
C3N7M8	RADA_SULIY	No assigned EC number	0.4145	0.8664	0.9413	yes	no
Q2NE95	RADA_METST	No assigned EC number	0.4322	0.8267	0.9356	yes	no

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	352
PLN03187	344	PLN03187, PLN03187, meiotic recombination protein	0.0
TIGR02238	313	TIGR02238, recomb_DMC1, meiotic recombinase Dmc1	0.0
PTZ00035	337	PTZ00035, PTZ00035, Rad51 protein; Provisional	0.0
pfam08423	261	pfam08423, Rad51, Rad51	1e-162
PLN03186	342	PLN03186, PLN03186, DNA repair protein RAD51 homol	1e-147
TIGR02239	316	TIGR02239, recomb_RAD51, DNA repair protein RAD51	1e-147
cd01123	235	cd01123, Rad51_DMC1_radA, Rad51_DMC1_radA,B	1e-127
PRK04301	317	PRK04301, radA, DNA repair and recombination prote	1e-125
cd01393	226	cd01393, recA_like, RecA is a bacterial enzyme whi	1e-114
TIGR02236	310	TIGR02236, recomb_radA, DNA repair and recombinati	1e-110
COG0468	279	COG0468, RecA, RecA/RadA recombinase [DNA replicat	5e-83
PRK09361	225	PRK09361, radB, DNA repair and recombination prote	8e-45
cd01394	218	cd01394, radB, RadB	5e-35
TIGR02237	209	TIGR02237, recomb_radB, DNA repair and recombinati	2e-34
cd00983	325	cd00983, recA, RecA is a bacterial enzyme which ha	5e-11
cd01120	165	cd01120, RecA-like_NTPases, RecA-like NTPases	2e-08
PRK09519	790	PRK09519, recA, DNA recombination protein RecA; Re	7e-08
TIGR02012	321	TIGR02012, tigrfam_recA, protein RecA	2e-07
pfam00154	322	pfam00154, RecA, recA bacterial DNA recombination	5e-07
COG0467	260	COG0467, RAD55, RecA-superfamily ATPases implicate	3e-06
COG1066	456	COG1066, Sms, Predicted ATP-dependent serine prote	1e-05
PRK09354	349	PRK09354, recA, recombinase A; Provisional	9e-05
pfam13481	154	pfam13481, AAA_25, AAA domain	0.002
TIGR03881	229	TIGR03881, KaiC_arch_4, KaiC domain protein, PAE11	0.003

>gnl|CDD|215620 PLN03187, PLN03187, meiotic recombination protein DMC1 homolog; Provisional

 Score =  666 bits (1721), Expect = 0.0
 Identities = 303/352 (86%), Positives = 325/352 (92%), Gaps = 8/352 (2%)

Query: 1   MIATLKAEEQSQLQLVEREDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMM 60
           M A+ +A+E +QLQLVE E++D+EEDLFE+IDKLISQGINAGDVKKLQDAGIYTCNGLMM
Sbjct: 1   MSASAQADEGAQLQLVEAEEVDEEEDLFESIDKLISQGINAGDVKKLQDAGIYTCNGLMM 60

Query: 61  HTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLG 120
           HTKK+LTGIKGLSEAKV+KICEAAEK++N G+ITGSDALL+RK+V++ITTGSQALDELLG
Sbjct: 61  HTKKNLTGIKGLSEAKVDKICEAAEKLLNQGFITGSDALLKRKSVVRITTGSQALDELLG 120

Query: 121 GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPI 180
           GGIET  ITEAFGEFRSGKTQLAHTLCV TQLPT M GGNGKVAYIDTEGTFRPDRIVPI
Sbjct: 121 GGIETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVPI 180

Query: 181 AERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTG 240
           AERFGMD  AVLDNIIYARAYTYEHQYNLLLGLAAKM+EEPFRLLIVDSVIALFRVDFTG
Sbjct: 181 AERFGMDADAVLDNIIYARAYTYEHQYNLLLGLAAKMAEEPFRLLIVDSVIALFRVDFTG 240

Query: 241 RGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA 300
           RGELA+RQQKL QMLSRLTKI+EEFNVAVYMTNQVIADPGGG+FISDPKKPAGGHVLAHA
Sbjct: 241 RGELAERQQKLAQMLSRLTKIAEEFNVAVYMTNQVIADPGGGMFISDPKKPAGGHVLAHA 300

Query: 301 VTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADAKD 352
            TIRLM RKGKGEQRVCKVFDAPNLPEAEA          +IT GGI DAKD
Sbjct: 301 ATIRLMLRKGKGEQRVCKVFDAPNLPEAEAE--------FQITSGGIMDAKD 344

Length = 344

>gnl|CDD|131292 TIGR02238, recomb_DMC1, meiotic recombinase Dmc1

 Score =  547 bits (1412), Expect = 0.0
 Identities = 224/321 (69%), Positives = 261/321 (81%), Gaps = 9/321 (2%)

Query: 31  IDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNF 90
           IDKL + GINA D+KKL+ AGI T NG++M T++ L  IKGLSEAKV+KI EAA KI+N 
Sbjct: 1   IDKLQAHGINAADIKKLKSAGICTVNGVIMTTRRALCKIKGLSEAKVDKIKEAASKIINP 60

Query: 91  GYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCT 150
           G+IT  +   +RK V+KITTGSQALD +LGGGIE+ +ITE FGEFR GKTQL+HTLCV  
Sbjct: 61  GFITAFEISQKRKKVLKITTGSQALDGILGGGIESMSITEVFGEFRCGKTQLSHTLCVTA 120

Query: 151 QLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLL 210
           QLP  M GGNGKVAYIDTEGTFRPDRI  IAERFG+DP AVLDNI+YARAYT EHQ  LL
Sbjct: 121 QLPREMGGGNGKVAYIDTEGTFRPDRIRAIAERFGVDPDAVLDNILYARAYTSEHQMELL 180

Query: 211 LGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVY 270
             LAAK SEEPFRLLIVDS++ALFRVDF+GRGEL++RQQKL QMLSRL KISEEFNVAV+
Sbjct: 181 DYLAAKFSEEPFRLLIVDSIMALFRVDFSGRGELSERQQKLAQMLSRLNKISEEFNVAVF 240

Query: 271 MTNQVIADPGG-GVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAE 329
           +TNQV ADPG    FI+DPKKP GGHVLAHA T R++ RKG+GE+RV K++D+P++PEAE
Sbjct: 241 VTNQVQADPGATMTFIADPKKPIGGHVLAHASTTRILLRKGRGEERVAKLYDSPDMPEAE 300

Query: 330 AISFSYHIILIKITPGGIADA 350
           A          +IT GGIADA
Sbjct: 301 AS--------FQITEGGIADA 313

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. Length = 313

>gnl|CDD|185407 PTZ00035, PTZ00035, Rad51 protein; Provisional

 Score =  529 bits (1366), Expect = 0.0
 Identities = 211/345 (61%), Positives = 259/345 (75%), Gaps = 9/345 (2%)

Query: 9   EQSQLQLVEREDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTG 68
           EQ      + E+ ++E + F+ I+KL S GINA D+KKL++AGI T   +   TKK L  
Sbjct: 1   EQESQNEQQEEEEEEEAEGFQEIEKLQSAGINAADIKKLKEAGICTVESVAYATKKDLCN 60

Query: 69  IKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAI 128
           IKG+SEAKVEKI EAA K+V  G+I+ ++ L  RK +I+ITTGS  LD+LLGGGIETG+I
Sbjct: 61  IKGISEAKVEKIKEAASKLVPMGFISATEYLEARKNIIRITTGSTQLDKLLGGGIETGSI 120

Query: 129 TEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDP 188
           TE FGEFR+GKTQL HTLCV  QLP    GG GKV YIDTEGTFRP+RIV IAERFG+DP
Sbjct: 121 TELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERIVQIAERFGLDP 180

Query: 189 GAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQ 248
             VLDNI YARAY +EHQ  LL   AAKM+EE F LLIVDS  ALFRVD++GRGELA+RQ
Sbjct: 181 EDVLDNIAYARAYNHEHQMQLLSQAAAKMAEERFALLIVDSATALFRVDYSGRGELAERQ 240

Query: 249 QKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGG-VFISDPKKPAGGHVLAHAVTIRLMF 307
           Q LG+ L  L K+++EFNVAV +TNQV+AD  G  +F++DPKKP GGH++AHA T RL  
Sbjct: 241 QHLGKFLRALQKLADEFNVAVVITNQVMADVDGASMFVADPKKPIGGHIIAHASTTRLSL 300

Query: 308 RKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADAKD 352
           RKG+GEQR+CK++D+PNLPE+EA+          I+ GGI DAKD
Sbjct: 301 RKGRGEQRICKIYDSPNLPESEAV--------FAISEGGIIDAKD 337

Length = 337

>gnl|CDD|117002 pfam08423, Rad51, Rad51

 Score =  454 bits (1171), Expect = e-162
 Identities = 167/269 (62%), Positives = 199/269 (73%), Gaps = 9/269 (3%)

Query: 84  AEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLA 143
           A K+V  G+ T ++   RR  VI+ITTGS+ LD+LLGGGIETG+ITE FGEFR+GKTQL 
Sbjct: 1   ASKLVPMGFTTATELHQRRSEVIRITTGSKELDKLLGGGIETGSITEVFGEFRTGKTQLC 60

Query: 144 HTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTY 203
           HTLCV  QLP  M GG GK  YIDTEGTFRP+RIV IAERFG+DP  VLDNI YARAY  
Sbjct: 61  HTLCVTCQLPLEMGGGEGKALYIDTEGTFRPERIVAIAERFGLDPEEVLDNIAYARAYNT 120

Query: 204 EHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISE 263
           EHQ  LLL  AA MSE  F LLIVDS  AL+R DF+GRGELA+RQQ L + L  L ++++
Sbjct: 121 EHQMQLLLQAAAMMSESRFALLIVDSATALYRTDFSGRGELAERQQHLAKFLRSLQRLAD 180

Query: 264 EFNVAVYMTNQVIADPGG-GVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDA 322
           EF VAV +TNQV+A   G  +F +DPKKP GGH++AHA T RL  RKG+GEQRVCK++D+
Sbjct: 181 EFGVAVVITNQVVAQVDGAAMFAADPKKPIGGHIMAHASTTRLYLRKGRGEQRVCKIYDS 240

Query: 323 PNLPEAEAISFSYHIILIKITPGGIADAK 351
           P LPE+EA+          I+ GGI DAK
Sbjct: 241 PCLPESEAV--------FAISEGGIGDAK 261

Rad51 is a DNA repair and recombination protein and is a homologue of the bacterial ATPase RecA protein. Length = 261

>gnl|CDD|178728 PLN03186, PLN03186, DNA repair protein RAD51 homolog; Provisional

 Score =  419 bits (1080), Expect = e-147
 Identities = 180/350 (51%), Positives = 236/350 (67%), Gaps = 13/350 (3%)

Query: 8   EEQSQLQLVEREDIDDEEDLFEA----IDKLISQGINAGDVKKLQDAGIYTCNGLMMHTK 63
             Q+      +   ++EE+        I++L + GI A D+KKL+DAGI+T   L    K
Sbjct: 1   MAQAVAAAAAQAMQEEEEEEAAHGPFPIEQLQASGIAALDIKKLKDAGIHTVESLAYAPK 60

Query: 64  KHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGI 123
           K L  IKG+SEAKVEKI EAA K+V  G+ T S    +R+ +I+ITTGS+ LD++L GGI
Sbjct: 61  KDLLQIKGISEAKVEKILEAASKLVPLGFTTASQLHAQRQEIIQITTGSRELDKILEGGI 120

Query: 124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAER 183
           ETG+ITE +GEFR+GKTQL HTLCV  QLP +  GG GK  YIDTEGTFRP R++ IAER
Sbjct: 121 ETGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRLIQIAER 180

Query: 184 FGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGE 243
           FG++   VL+N+ YARAY  +HQ  LLL  A+ M+E  F L+IVDS  AL+R +F+GRGE
Sbjct: 181 FGLNGADVLENVAYARAYNTDHQSELLLEAASMMAETRFALMIVDSATALYRTEFSGRGE 240

Query: 244 LADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPK-KPAGGHVLAHAVT 302
           L+ RQ  LG+ L  L ++++EF VAV +TNQV+A   G  F + P+ KP GG+++AHA T
Sbjct: 241 LSARQMHLGKFLRSLQRLADEFGVAVVITNQVVAQVDGSAFFAGPQLKPIGGNIMAHAST 300

Query: 303 IRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADAKD 352
            RL  RKG+GE R+CKV  +P LPEAEA  FS       I+  G+ D KD
Sbjct: 301 TRLALRKGRGENRICKVISSPCLPEAEA-RFS-------ISSEGVTDVKD 342

Length = 342

>gnl|CDD|233794 TIGR02239, recomb_RAD51, DNA repair protein RAD51

 Score =  417 bits (1074), Expect = e-147
 Identities = 178/324 (54%), Positives = 229/324 (70%), Gaps = 10/324 (3%)

Query: 31  IDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNF 90
           I+KL   GI A D+KKLQ+AG++T   +    KK L  IKG+SEAK +KI   A K+V  
Sbjct: 1   IEKLEGNGITAADIKKLQEAGLHTVESVAYAPKKQLLEIKGISEAKADKILAEAAKLVPM 60

Query: 91  GYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCT 150
           G+ T ++   RR+ VI++TTGS+ LD+LLGGGIETG+ITE FGEFR+GKTQL HTL V  
Sbjct: 61  GFTTATEFHQRRQEVIQLTTGSKELDKLLGGGIETGSITEIFGEFRTGKTQLCHTLAVTC 120

Query: 151 QLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLL 210
           QLP +  GG GK  YIDTEGTFRP+R++ IAER+G++P  VLDN+ YARAY  +HQ  LL
Sbjct: 121 QLPIDQGGGEGKALYIDTEGTFRPERLLAIAERYGLNPEDVLDNVAYARAYNTDHQLQLL 180

Query: 211 LGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVY 270
              AA MSE  F LLIVDS  AL+R DF+GRGEL+ RQ  L + L  L ++++EF VAV 
Sbjct: 181 QQAAAMMSESRFALLIVDSATALYRTDFSGRGELSARQMHLARFLRSLQRLADEFGVAVV 240

Query: 271 MTNQVIADPGG--GVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEA 328
           +TNQV+A   G   +F  DPKKP GG+++AHA T RL  RKG+GEQR+CK++D+P LPE+
Sbjct: 241 ITNQVVAQVDGAGSMFAGDPKKPIGGNIMAHASTTRLSLRKGRGEQRICKIYDSPCLPES 300

Query: 329 EAISFSYHIILIKITPGGIADAKD 352
           EA+ F+       I   GI D K+
Sbjct: 301 EAM-FA-------IYEDGIGDPKE 316

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). Length = 316

>gnl|CDD|238543 cd01123, Rad51_DMC1_radA, Rad51_DMC1_radA,B

 Score =  364 bits (938), Expect = e-127
 Identities = 144/242 (59%), Positives = 173/242 (71%), Gaps = 10/242 (4%)

Query: 108 ITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYID 167
           +TTGS+ALDELLGGGIETG+ITE FGEF SGKTQL H L V  QLP  + G  GK  YID
Sbjct: 1   LTTGSKALDELLGGGIETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYID 60

Query: 168 TEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEP-FRLLI 226
           TEGTFRP+R+V IAERFG+DP  VLDNI  ARAY  +HQ  LL  L A + E    +L+I
Sbjct: 61  TEGTFRPERLVQIAERFGLDPEEVLDNIYVARAYNSDHQLQLLEELEAILIESSRIKLVI 120

Query: 227 VDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGV-FI 285
           VDSV ALFR +F GRGELA+RQQ L ++L  L ++++EFNVAV +TNQV A P G   F 
Sbjct: 121 VDSVTALFRAEFDGRGELAERQQHLAKLLRTLKRLADEFNVAVVITNQVTARPDGAAMFG 180

Query: 286 SDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPG 345
            DPKKPAGG++ AHA T RL  RKG+GE+R+ K+ D+P+LPE EA+          IT  
Sbjct: 181 GDPKKPAGGNIWAHASTTRLYLRKGRGEERIAKIVDSPHLPEGEAV--------FAITEE 232

Query: 346 GI 347
           GI
Sbjct: 233 GI 234

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 . Length = 235

>gnl|CDD|235273 PRK04301, radA, DNA repair and recombination protein RadA; Validated

 Score =  363 bits (933), Expect = e-125
 Identities = 148/310 (47%), Positives = 197/310 (63%), Gaps = 14/310 (4%)

Query: 44  VKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNF-GYITGSDALLRR 102
            +KL++AG  T   + + + K L+   G+ E+   KI EAA +  +  G+ T  + L RR
Sbjct: 19  AEKLREAGYDTVEAIAVASPKELSEAAGIGESTAAKIIEAAREAADIGGFETALEVLERR 78

Query: 103 KAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGK 162
           K V KITTGS+ LDELLGGGIET +ITE +GEF SGKTQ+ H L V  QLP    G  GK
Sbjct: 79  KNVGKITTGSKELDELLGGGIETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGK 138

Query: 163 VAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEE-- 220
             YIDTEGTFRP+RI  +AE  G+DP  VLDNI  ARAY  +HQ  LL   A ++ +E  
Sbjct: 139 AVYIDTEGTFRPERIEQMAEALGLDPDEVLDNIHVARAYNSDHQM-LLAEKAEELIKEGE 197

Query: 221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPG 280
             +L+IVDS+ A FR ++ GRG LA+RQQKL + L  L ++++ +N AV +TNQV+A P 
Sbjct: 198 NIKLVIVDSLTAHFRAEYVGRGNLAERQQKLNKHLHDLLRLADLYNAAVVVTNQVMARP- 256

Query: 281 GGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILI 340
              F  DP +P GGH+L H  T R+  RK KG +R+ ++ D+P+LPE EA+         
Sbjct: 257 -DAFFGDPTQPIGGHILGHTATFRIYLRKSKGNKRIARLVDSPHLPEGEAV--------F 307

Query: 341 KITPGGIADA 350
           +IT  GI DA
Sbjct: 308 RITEEGIRDA 317

Length = 317

>gnl|CDD|238687 cd01393, recA_like, RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

 Score =  331 bits (851), Expect = e-114
 Identities = 127/226 (56%), Positives = 153/226 (67%), Gaps = 5/226 (2%)

Query: 108 ITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYID 167
           I+TGS+ALDELLGGGI TG ITE FGEF SGKTQL   L V  QLP  + G  GKV YID
Sbjct: 1   ISTGSKALDELLGGGIPTGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYID 60

Query: 168 TEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIV 227
           TEG FRP+R+V +A RFG+DP  VLDNI  AR Y  E Q  ++  L   MS     L++V
Sbjct: 61  TEGAFRPERLVQLAVRFGLDPEEVLDNIYVARPYNGEQQLEIVEELERIMSSGRVDLVVV 120

Query: 228 DSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISD 287
           DSV ALFR +F GRG LA+R + L Q L +L +++++FNVAV  TNQV A     V   D
Sbjct: 121 DSVAALFRKEFIGRGMLAERARLLSQALRKLLRLADKFNVAVVFTNQVRAKV--DVMFGD 178

Query: 288 PKKPAGGHVLAHAVTIRLMFRKGK---GEQRVCKVFDAPNLPEAEA 330
           P+ PAGG+ LAHA T RL  RKG+   GE+R+ KV  +P LPEAEA
Sbjct: 179 PETPAGGNALAHASTTRLDLRKGRGIIGERRIAKVVKSPALPEAEA 224

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. Length = 226

>gnl|CDD|131290 TIGR02236, recomb_radA, DNA repair and recombination protein RadA

 Score =  324 bits (832), Expect = e-110
 Identities = 153/316 (48%), Positives = 201/316 (63%), Gaps = 15/316 (4%)

Query: 38  GINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFG-YITGS 96
           G+     +KL++AG  T   + + + K L+ I G+SE    KI +AA K  + G + T  
Sbjct: 6   GVGPATAEKLREAGYDTFEAIAVASPKELSEIAGISEGTAAKIIQAARKAADLGGFETAD 65

Query: 97  DALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNM 156
           D L RRK + KITTGS+ LDELLGGGIET AITE FGEF SGKTQ+ H L V  QLP   
Sbjct: 66  DVLERRKTIGKITTGSKELDELLGGGIETQAITEVFGEFGSGKTQICHQLAVNVQLPEEK 125

Query: 157 RGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAK 216
            G  GK  YIDTE TFRP+RI+ +AE  G+DP  VL NI  ARAY   HQ  LL+  A  
Sbjct: 126 GGLGGKAVYIDTENTFRPERIMQMAEARGLDPDEVLKNIYVARAYNSNHQM-LLVEKAED 184

Query: 217 MSEE---PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTN 273
           + +E   P +LLIVDS+ + FR ++ GRG LA+RQQKL + L  L ++++ +N AV +TN
Sbjct: 185 LIKELNNPVKLLIVDSLTSHFRAEYVGRGALAERQQKLNKHLHDLLRLADLYNAAVVVTN 244

Query: 274 QVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISF 333
           QV+A P    F  DP +P GGH+L HA T R+  RKGKG++R+ ++ D+P+LPE EA+  
Sbjct: 245 QVMARP--DAFFGDPTRPIGGHILGHAATFRVYLRKGKGDKRIARLVDSPHLPEGEAV-- 300

Query: 334 SYHIILIKITPGGIAD 349
                  +IT  GI D
Sbjct: 301 ------FRITEKGIED 310

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 [DNA metabolism, DNA replication, recombination, and repair]. Length = 310

>gnl|CDD|223544 COG0468, RecA, RecA/RadA recombinase [DNA replication, recombination, and repair]

 Score =  253 bits (648), Expect = 5e-83
 Identities = 98/289 (33%), Positives = 132/289 (45%), Gaps = 30/289 (10%)

Query: 69  IKGLSEAKVEKICEAA-EKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGA 127
            +G+ E K  +   A  EK    G I       RR+ +  I+TGS ALDE LGGG+  G 
Sbjct: 2   AQGIDEEKALEAALAQIEKAFGKGSIMALGGDERREDIEAISTGSLALDEALGGGLPRGR 61

Query: 128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMD 187
           ITE +G   SGKT LA  L    Q P       GK A+IDTE    P+R   +       
Sbjct: 62  ITEIYGPESSGKTTLALQLVANAQKP------GGKAAFIDTEHALDPERAKQLGVDL--- 112

Query: 188 PGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADR 247
               LDN++ ++  T E Q   +    A+   E   LL+VDSV AL R +    G L  R
Sbjct: 113 ----LDNLLVSQPDTGEQQL-EIAEKLARSGAEKIDLLVVDSVAALVRAEEIEDGHLGLR 167

Query: 248 QQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMF 307
            + L + L +LT+++ ++N AV  TNQV A    GV   DP+   GG+ L    ++RL  
Sbjct: 168 ARLLSKALRKLTRLANKYNTAVIFTNQVRAKI--GVMFGDPETTTGGNALKFYASVRLDL 225

Query: 308 RKG------KGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADA 350
           R+        G +R  KV      P  +   F        IT GG  D 
Sbjct: 226 RRIESLKEDVGNKRRVKVVKNKVAPPFKEAEF-------DITYGGGIDR 267

Length = 279

>gnl|CDD|236482 PRK09361, radB, DNA repair and recombination protein RadB; Provisional

 Score =  153 bits (388), Expect = 8e-45
 Identities = 82/248 (33%), Positives = 124/248 (50%), Gaps = 29/248 (11%)

Query: 107 KITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYI 166
           ++ TG + LDELLGGG E G IT+ +G   SGKT     +C+   +     G   KV YI
Sbjct: 4   RLPTGCKMLDELLGGGFERGTITQIYGPPGSGKT----NICLQLAVEAAKNG--KKVIYI 57

Query: 167 DTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLI 226
           DTEG   P+R   IA   G D   +L NII     ++E Q    +  A K+++E   L++
Sbjct: 58  DTEG-LSPERFKQIA---GEDFEELLSNIIIFEPSSFEEQSE-AIRKAEKLAKENVGLIV 112

Query: 227 VDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFIS 286
           +DS  +L+R++     + +   ++LG+ L+ L K++ + ++AV +TNQV +D        
Sbjct: 113 LDSATSLYRLELEDEEDNSKLNRELGRQLTHLLKLARKHDLAVVITNQVYSDIDSDGL-- 170

Query: 287 DPKKPAGGHVLAHA--VTIRL-MFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKIT 343
              +P GGH L H     +RL  FR GK   R   +    + PE E+  F       +IT
Sbjct: 171 ---RPLGGHTLEHWSKTILRLEKFRNGK---RRATLEKHRSRPEGESAEF-------RIT 217

Query: 344 PGGIADAK 351
             GI    
Sbjct: 218 DRGIEIID 225

Length = 225

>gnl|CDD|238688 cd01394, radB, RadB

 Score =  127 bits (320), Expect = 5e-35
 Identities = 72/240 (30%), Positives = 109/240 (45%), Gaps = 23/240 (9%)

Query: 108 ITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYID 167
           + TG + LDELLGGG+E G +T+ +G   +GKT       +  QL     G   KVAYID
Sbjct: 1   LPTGCKGLDELLGGGVERGTVTQVYGPPGTGKTN------IAIQLAVETAGQGKKVAYID 54

Query: 168 TEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIV 227
           TEG    +R     +  G  P     +II      +  Q   +       ++E   L++V
Sbjct: 55  TEGLS-SER---FRQIAGDRPERAASSIIVFEPMDFNEQGRAIQE-TETFADEKVDLVVV 109

Query: 228 DSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISD 287
           DS  AL+R++           ++L + L+ L  ++ + +VAV +TNQV +D G G     
Sbjct: 110 DSATALYRLELGDDDTTIKNYRELAKQLTFLLWLARKHDVAVVITNQVYSDVGSGSV--- 166

Query: 288 PKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGI 347
             +P GGH L H   + L   K +   R   +      PE  ++ F       +IT  GI
Sbjct: 167 --RPLGGHTLEHWSKVILRLEKLRVGTRRAVLEKHRFRPEGSSVYF-------RITDKGI 217

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear. Length = 218

>gnl|CDD|233793 TIGR02237, recomb_radB, DNA repair and recombination protein RadB

 Score =  125 bits (316), Expect = 2e-34
 Identities = 75/233 (32%), Positives = 113/233 (48%), Gaps = 25/233 (10%)

Query: 115 LDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRP 174
           +DELLGGG+E G IT+ +G   SGKT +   L V        R G  KV YIDTEG   P
Sbjct: 1   IDELLGGGVERGTITQIYGPPGSGKTNICMILAV-----NAARQG-KKVVYIDTEG-LSP 53

Query: 175 DRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALF 234
           +R   IAE     P   L N I    + ++ Q   +   +  +  +   L++VDS  AL+
Sbjct: 54  ERFKQIAED---RPERALSNFIVFEVFDFDEQGVAIQKTSKFIDRDSASLVVVDSFTALY 110

Query: 235 RVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGG 294
           R++     +   R ++L + L+ L  ++ + N+AV +TNQV  D   G       +P GG
Sbjct: 111 RLE--LSDDRISRNRELARQLTLLLSLARKKNLAVVITNQVYTDVNNGTL-----RPLGG 163

Query: 295 HVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGI 347
           H+L H   + L   K +G +    +    + PE E++ F       +IT  GI
Sbjct: 164 HLLEHWSKVILRLEKFRGRRLAT-LEKHRSRPEGESVYF-------RITDDGI 208

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236). Length = 209

>gnl|CDD|238483 cd00983, recA, RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

 Score = 62.6 bits (153), Expect = 5e-11
 Identities = 68/219 (31%), Positives = 98/219 (44%), Gaps = 46/219 (21%)

Query: 108 ITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLA-HTLCVCTQLPTNMRGGNGKVAY 165
           I TGS +LD  LG GG   G I E +G   SGKT LA H +    +L        G VA+
Sbjct: 36  IPTGSLSLDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQKL-------GGTVAF 88

Query: 166 IDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFR-- 223
           ID E    P      A++ G+D    LDN++ ++  T E         A ++++   R  
Sbjct: 89  IDAEHALDPV----YAKKLGVD----LDNLLISQPDTGEQ--------ALEIADSLVRSG 132

Query: 224 ---LLIVDSVIALF-RVDFTGRGELADRQQKL-----GQMLSRLTKISEEFNVAVYMTNQ 274
              L++VDSV AL  + +    GE+ D    L      Q L +LT    + N  V   NQ
Sbjct: 133 AVDLIVVDSVAALVPKAEI--EGEMGDSHVGLQARLMSQALRKLTGSINKSNTTVIFINQ 190

Query: 275 V---IADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKG 310
           +   I     GV   +P+   GG+ L    ++RL  R+ 
Sbjct: 191 LREKI-----GVMFGNPETTTGGNALKFYSSVRLDIRRI 224

RecA couples ATP hydrolysis to DNA strand exchange. Length = 325

>gnl|CDD|238540 cd01120, RecA-like_NTPases, RecA-like NTPases

 Score = 53.3 bits (128), Expect = 2e-08
 Identities = 46/183 (25%), Positives = 64/183 (34%), Gaps = 19/183 (10%)

Query: 128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMD 187
           +   FG   SGKT LA  L +            GKV Y+D E          I E     
Sbjct: 1   LILVFGPTGSGKTTLALQLALNIATKG------GKVVYVDIEEEIEELTERLIGESLKGA 54

Query: 188 PGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIV-DSVIALFRVDFTGRGELAD 246
               LDN+I   A   +     LL  A ++ E     LI+ D +  L R     R     
Sbjct: 55  ----LDNLIIVFATADDPAAARLLSKAERLRERGGDDLIILDELTRLVR---ALREIREG 107

Query: 247 RQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLM 306
              +L + L  L + + +  V V  T QV   P G     DP+   G   L       ++
Sbjct: 108 YPGELDEELRELLERARKGGVTVIFTLQV---PSGD--KGDPRLTRGAQNLEDIADTVIV 162

Query: 307 FRK 309
             +
Sbjct: 163 LSR 165

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. Length = 165

>gnl|CDD|77219 PRK09519, recA, DNA recombination protein RecA; Reviewed

 Score = 53.9 bits (129), Expect = 7e-08
 Identities = 66/243 (27%), Positives = 103/243 (42%), Gaps = 33/243 (13%)

Query: 78  EKICEAAEKIVNFGYITGSDALL---RRKAVIKITTGSQALDELLG-GGIETGAITEAFG 133
           EK  E A   +   Y  GS   L    R+ +  I TGS ALD  LG GG+  G + E +G
Sbjct: 8   EKALELAVAQIEKSYGKGSVMRLGDEARQPISVIPTGSIALDVALGIGGLPRGRVIEIYG 67

Query: 134 EFRSGKTQLA-HTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVL 192
              SGKT +A H +        N +   G  A+ID E    PD     A++ G+D     
Sbjct: 68  PESSGKTTVALHAV-------ANAQAAGGVAAFIDAEHALDPD----YAKKLGVDT---- 112

Query: 193 DNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALF-RVDFTGRGELAD----- 246
           D+++ ++  T E    +   L   +      ++++DSV AL  R +    GE+ D     
Sbjct: 113 DSLLVSQPDTGEQALEIADML---IRSGALDIVVIDSVAALVPRAEL--EGEMGDSHVGL 167

Query: 247 RQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLM 306
           + + + Q L ++T             NQ+      GV    P+   GG  L    ++R+ 
Sbjct: 168 QARLMSQALRKMTGALNNSGTTAIFINQLRDKI--GVMFGSPETTTGGKALKFYASVRMD 225

Query: 307 FRK 309
            R+
Sbjct: 226 VRR 228

Length = 790

>gnl|CDD|162659 TIGR02012, tigrfam_recA, protein RecA

 Score = 51.6 bits (124), Expect = 2e-07
 Identities = 64/221 (28%), Positives = 94/221 (42%), Gaps = 52/221 (23%)

Query: 108 ITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLA-HTLCVCTQLPTNMRGGNGKVAY 165
           I+TGS +LD  LG GG+  G I E +G   SGKT LA H +    +         G  A+
Sbjct: 36  ISTGSLSLDLALGVGGLPRGRIIEIYGPESSGKTTLALHAIAEAQKA-------GGTAAF 88

Query: 166 IDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFR-- 223
           ID E    P      A + G+D    +DN++ ++  T E         A +++E   R  
Sbjct: 89  IDAEHALDPV----YARKLGVD----IDNLLVSQPDTGEQ--------ALEIAETLVRSG 132

Query: 224 ---LLIVDSVIALFRVDFTGR----GELADRQQKL-----GQMLSRLTKISEEFNVAVYM 271
              +++VDSV AL       +    GE+ D    L      Q L +LT    + N     
Sbjct: 133 AVDIIVVDSVAAL-----VPKAEIEGEMGDSHVGLQARLMSQALRKLTGALSKSNTTAIF 187

Query: 272 TNQV---IADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRK 309
            NQ+   I     GV   +P+   GG  L    ++RL  R+
Sbjct: 188 INQIREKI-----GVMFGNPETTTGGRALKFYASVRLDIRR 223

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 [DNA metabolism, DNA replication, recombination, and repair]. Length = 321

>gnl|CDD|215755 pfam00154, RecA, recA bacterial DNA recombination protein

 Score = 50.4 bits (121), Expect = 5e-07
 Identities = 65/221 (29%), Positives = 96/221 (43%), Gaps = 52/221 (23%)

Query: 108 ITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLA-HTLCVCTQLPTNMRGGNGKVAY 165
           I+TGS  LD  LG GG+  G I E +G   SGKT LA H +    +         G  A+
Sbjct: 33  ISTGSLGLDIALGIGGLPKGRIIEIYGPESSGKTTLALHAIAEAQKA-------GGTAAF 85

Query: 166 IDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFR-- 223
           ID E    P      A++ G+D    +DN++ ++  T E         A ++++   R  
Sbjct: 86  IDAEHALDPV----YAKKLGVD----IDNLLVSQPDTGEQ--------ALEIADMLVRSG 129

Query: 224 ---LLIVDSVIALFRVDFTGR----GELADRQQKL-----GQMLSRLTKISEEFNVAVYM 271
              L++VDSV AL       +    GE+ D    L      Q L +LT    + N  V  
Sbjct: 130 AVDLIVVDSVAAL-----VPKAEIEGEMGDSHVGLQARLMSQALRKLTGNISKSNTTVIF 184

Query: 272 TNQV---IADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRK 309
            NQ+   I     GV   +P+   GG+ L    ++RL  R+
Sbjct: 185 INQIRMKI-----GVMFGNPETTTGGNALKFYASVRLDIRR 220

RecA is a DNA-dependent ATPase and functions in DNA repair systems. RecA protein catalyzes an ATP-dependent DNA strand-exchange reaction that is the central step in the repair of dsDNA breaks by homologous recombination. Length = 322

>gnl|CDD|223543 COG0467, RAD55, RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

 Score = 47.8 bits (114), Expect = 3e-06
 Identities = 38/191 (19%), Positives = 67/191 (35%), Gaps = 30/191 (15%)

Query: 105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVA 164
           + +I TG   LDE+LGGG+  G++    G   +GKT  A       Q           V 
Sbjct: 2   MERIPTGIPGLDEILGGGLPRGSVVLITGPPGTGKTIFAL------QFLYEGAREGEPVL 55

Query: 165 YIDTEGTFRPDRIVPIAERFGMDPGAVLDNI---------IYARAYTYEHQYNLLLG--- 212
           Y+ TE +  P+ ++  A  FG D    ++                 +      L L    
Sbjct: 56  YVSTEES--PEELLENARSFGWDLEVYIEKGKLAILDAFLSEKGLVSIVVGDPLDLEELL 113

Query: 213 --LAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVY 270
             +   + +E    +++DS+  L    +     L  R          L +  ++  V   
Sbjct: 114 DRIREIVEKEGADRVVIDSITELTL--YLNDPALVRRILL------LLKRFLKKLGVTSL 165

Query: 271 MTNQVIADPGG 281
           +T +   +  G
Sbjct: 166 LTTEAPVEERG 176

Length = 260

>gnl|CDD|223993 COG1066, Sms, Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

 Score = 46.1 bits (110), Expect = 1e-05
 Identities = 55/204 (26%), Positives = 95/204 (46%), Gaps = 35/204 (17%)

Query: 105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVA 164
             +I+TG + LD +LGGG+  G++    G+   GK+ L   L V  +L        GKV 
Sbjct: 72  EPRISTGIEELDRVLGGGLVPGSVILIGGDPGIGKSTLL--LQVAARL-----AKRGKVL 124

Query: 165 YIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRL 224
           Y+  E +    +I   A+R G     +  N +Y  A T     NL   +A    E+P  L
Sbjct: 125 YVSGEES--LQQIKLRADRLG-----LPTNNLYLLAET-----NLEDIIAELEQEKP-DL 171

Query: 225 LIVDSVIALFRVDFTGR-GELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGV 283
           +++DS+  L+  + T   G ++  Q +  ++ + L ++++  N+A+++   V  +  G +
Sbjct: 172 VVIDSIQTLYSEEITSAPGSVS--QVR--EVAAELMRLAKTKNIAIFIVGHVTKE--GAI 225

Query: 284 FISDPKKPAGGHVLAHAVTIRLMF 307
                   AG  VL H V   L F
Sbjct: 226 --------AGPRVLEHMVDTVLYF 241

Length = 456

>gnl|CDD|236476 PRK09354, recA, recombinase A; Provisional

 Score = 43.6 bits (104), Expect = 9e-05
 Identities = 44/133 (33%), Positives = 64/133 (48%), Gaps = 30/133 (22%)

Query: 108 ITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLA-HTLCVCTQLPTNMRGGNGKVAY 165
           I+TGS ALD  LG GG+  G I E +G   SGKT LA H +    +         G  A+
Sbjct: 41  ISTGSLALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKA-------GGTAAF 93

Query: 166 IDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFR-- 223
           ID E    P      A++ G+D    +DN++ ++  T E         A ++++   R  
Sbjct: 94  IDAEHALDPV----YAKKLGVD----IDNLLVSQPDTGEQ--------ALEIADTLVRSG 137

Query: 224 ---LLIVDSVIAL 233
              L++VDSV AL
Sbjct: 138 AVDLIVVDSVAAL 150

Length = 349

>gnl|CDD|222165 pfam13481, AAA_25, AAA domain

 Score = 38.0 bits (89), Expect = 0.002
 Identities = 27/156 (17%), Positives = 49/156 (31%), Gaps = 41/156 (26%)

Query: 118 LLGGGIETGAITEAFGEFRSGKTQLAHTLCVC----TQLPTNMRGGNGKVAYIDTEGTFR 173
           L+ G +  G +T   G   +GK+ LA  L                  G+V Y+D E +  
Sbjct: 25  LVKGLLPRGGLTLLAGAPGTGKSTLALDLAAAVATGRPFLGPFPVEPGRVLYLDGEDS-- 82

Query: 174 PDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIAL 233
                 +  R      A+ + +                        E   L+++D +   
Sbjct: 83  EAG---LRRRL----RALGEAL---------------------EEIEGPDLVVIDPL--- 111

Query: 234 FRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAV 269
                 G  E  +     G +L+ L +++     AV
Sbjct: 112 --ASLLGGDENDNAAV--GALLAALDRLARRTGAAV 143

This AAA domain is found in a wide variety of presumed DNA repair proteins. Length = 154

>gnl|CDD|163593 TIGR03881, KaiC_arch_4, KaiC domain protein, PAE1156 family

 Score = 38.6 bits (90), Expect = 0.003
 Identities = 28/82 (34%), Positives = 40/82 (48%), Gaps = 10/82 (12%)

Query: 107 KITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLP-TNMRGGNGKVAY 165
           +++TG + LD+LL GGI  G      GE  +GKT        C       +R G+  V Y
Sbjct: 1   RLSTGVEGLDKLLEGGIPRGFFVAVTGEPGTGKTIF------CLHFAYKGLRDGD-PVIY 53

Query: 166 IDTEGTFRPDRIVPIAERFGMD 187
           + TE +     I+  A +FGMD
Sbjct: 54  VTTEESRE--SIIRQAAQFGMD 73

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. Length = 229

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	352
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	100.0
KOG1434	335	consensus Meiotic recombination protein Dmc1 [Cell	100.0
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	100.0
PTZ00035	337	Rad51 protein; Provisional	100.0
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	100.0
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	100.0
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	100.0
PRK04301	317	radA DNA repair and recombination protein RadA; Va	100.0
TIGR02236	310	recomb_radA DNA repair and recombination protein R	100.0
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	100.0
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	100.0
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	100.0
KOG1564	351	consensus DNA repair protein RHP57 [Replication, r	100.0
KOG1433	326	consensus DNA repair protein RAD51/RHP55 [Replicat	100.0
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	100.0
cd01394	218	radB RadB. The archaeal protein radB shares simila	100.0
TIGR02237	209	recomb_radB DNA repair and recombination protein R	100.0
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	100.0
cd00983	325	recA RecA is a bacterial enzyme which has roles in	100.0
PRK09354	349	recA recombinase A; Provisional	100.0
PRK09519	790	recA DNA recombination protein RecA; Reviewed	100.0
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	100.0
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	99.97
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	99.97
PRK11823	446	DNA repair protein RadA; Provisional	99.97
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	99.97
PRK04328	249	hypothetical protein; Provisional	99.97
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	99.97
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	99.96
PF00154	322	RecA: recA bacterial DNA recombination protein; In	99.95
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	99.95
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	99.94
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	99.94
PRK06067	234	flagellar accessory protein FlaH; Validated	99.94
PRK09302	509	circadian clock protein KaiC; Reviewed	99.93
PRK09302	509	circadian clock protein KaiC; Reviewed	99.93
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	99.92
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	99.92
PHA02542	473	41 41 helicase; Provisional	99.91
PRK08760	476	replicative DNA helicase; Provisional	99.91
TIGR03600	421	phage_DnaB phage replicative helicase, DnaB family	99.91
PRK09165	497	replicative DNA helicase; Provisional	99.91
TIGR00665	434	DnaB replicative DNA helicase. This model describe	99.91
PF03796	259	DnaB_C: DnaB-like helicase C terminal domain; Inte	99.9
PRK05595	444	replicative DNA helicase; Provisional	99.9
PRK06321	472	replicative DNA helicase; Provisional	99.9
PRK07004	460	replicative DNA helicase; Provisional	99.9
PRK08006	471	replicative DNA helicase; Provisional	99.9
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	99.9
PRK05636	505	replicative DNA helicase; Provisional	99.9
PRK05748	448	replicative DNA helicase; Provisional	99.89
PRK06904	472	replicative DNA helicase; Validated	99.89
PRK08506	472	replicative DNA helicase; Provisional	99.89
PRK08840	464	replicative DNA helicase; Provisional	99.89
PRK08533	230	flagellar accessory protein FlaH; Reviewed	99.89
PRK06749	428	replicative DNA helicase; Provisional	99.88
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	99.88
COG0305	435	DnaB Replicative DNA helicase [DNA replication, re	99.87
PRK05973	237	replicative DNA helicase; Provisional	99.86
COG2874	235	FlaH Predicted ATPases involved in biogenesis of a	99.8
PRK07773	886	replicative DNA helicase; Validated	99.8
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	99.76
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	99.74
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	99.66
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	99.54
KOG2859	293	consensus DNA repair protein, member of the recA/R	99.51
COG3598	402	RepA RecA-family ATPase [DNA replication, recombin	99.47
KOG2373	514	consensus Predicted mitochondrial DNA helicase twi	99.36
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	99.25
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	99.12
COG1125	309	OpuBA ABC-type proline/glycine betaine transport s	99.08
COG1127	263	Ttg2A ABC-type transport system involved in resist	99.08
COG1135	339	AbcC ABC-type metal ion transport system, ATPase c	99.05
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	99.04
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	99.02
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	98.99
COG1131	293	CcmA ABC-type multidrug transport system, ATPase c	98.97
COG4619	223	ABC-type uncharacterized transport system, ATPase	98.93
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	98.92
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	98.92
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	98.9
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	98.88
COG3638	258	ABC-type phosphate/phosphonate transport system, A	98.87
PRK04296	190	thymidine kinase; Provisional	98.86
COG1122	235	CbiO ABC-type cobalt transport system, ATPase comp	98.84
cd03246	173	ABCC_Protease_Secretion This family represents the	98.8
COG3840	231	ThiQ ABC-type thiamine transport system, ATPase co	98.8
PF13479	213	AAA_24: AAA domain	98.8
cd03216	163	ABC_Carb_Monos_I This family represents the domain	98.8
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	98.8
TIGR01184	230	ntrCD nitrate transport ATP-binding subunits C and	98.79
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	98.77
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	98.76
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	98.76
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	98.76
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	98.75
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	98.75
TIGR02314	343	ABC_MetN D-methionine ABC transporter, ATP-binding	98.75
COG0410	237	LivF ABC-type branched-chain amino acid transport	98.75
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	98.74
PRK11153	343	metN DL-methionine transporter ATP-binding subunit	98.74
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	98.74
PRK13537	306	nodulation ABC transporter NodI; Provisional	98.73
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	98.73
COG1123	539	ATPase components of various ABC-type transport sy	98.72
PRK13650	279	cbiO cobalt transporter ATP-binding subunit; Provi	98.72
cd03298	211	ABC_ThiQ_thiamine_transporter ABC-type thiamine tr	98.71
COG2884	223	FtsE Predicted ATPase involved in cell division [C	98.71
COG1118	345	CysA ABC-type sulfate/molybdate transport systems,	98.71
PRK13635	279	cbiO cobalt transporter ATP-binding subunit; Provi	98.7
PRK13636	283	cbiO cobalt transporter ATP-binding subunit; Provi	98.7
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	98.7
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	98.69
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	98.69
PRK13634	290	cbiO cobalt transporter ATP-binding subunit; Provi	98.69
TIGR01188	302	drrA daunorubicin resistance ABC transporter ATP-b	98.69
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	98.69
PRK11650	356	ugpC glycerol-3-phosphate transporter ATP-binding	98.69
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	98.69
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	98.69
PF07088	484	GvpD: GvpD gas vesicle protein; InterPro: IPR00978	98.68
COG3845	501	ABC-type uncharacterized transport systems, ATPase	98.68
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	98.68
PRK13640	282	cbiO cobalt transporter ATP-binding subunit; Provi	98.68
TIGR01186	363	proV glycine betaine/L-proline transport ATP bindi	98.68
PRK13536	340	nodulation factor exporter subunit NodI; Provision	98.68
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	98.68
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	98.67
PRK13652	277	cbiO cobalt transporter ATP-binding subunit; Provi	98.67
COG4586	325	ABC-type uncharacterized transport system, ATPase	98.67
PRK13633	280	cobalt transporter ATP-binding subunit; Provisiona	98.66
COG4107	258	PhnK ABC-type phosphonate transport system, ATPase	98.66
PRK09452	375	potA putrescine/spermidine ABC transporter ATPase	98.66
PRK11432	351	fbpC ferric transporter ATP-binding subunit; Provi	98.66
PRK09544	251	znuC high-affinity zinc transporter ATPase; Review	98.66
PRK10851	353	sulfate/thiosulfate transporter subunit; Provision	98.66
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	98.65
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	98.65
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	98.65
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	98.65
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	98.64
COG1123	539	ATPase components of various ABC-type transport sy	98.64
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	98.64
cd03215	182	ABC_Carb_Monos_II This family represents domain II	98.64
PRK11308	327	dppF dipeptide transporter ATP-binding subunit; Pr	98.64
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	98.63
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	98.63
COG0444	316	DppD ABC-type dipeptide/oligopeptide/nickel transp	98.63
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	98.63
cd03294	269	ABC_Pro_Gly_Bertaine This family comprises the gly	98.63
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	98.62
PRK13646	286	cbiO cobalt transporter ATP-binding subunit; Provi	98.62
COG4172	534	ABC-type uncharacterized transport system, duplica	98.62
TIGR03265	353	PhnT2 putative 2-aminoethylphosphonate ABC transpo	98.62
COG4604	252	CeuD ABC-type enterochelin transport system, ATPas	98.62
COG4555	245	NatA ABC-type Na+ transport system, ATPase compone	98.62
PRK13548	258	hmuV hemin importer ATP-binding subunit; Provision	98.62
PRK13647	274	cbiO cobalt transporter ATP-binding subunit; Provi	98.62
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	98.61
PRK13637	287	cbiO cobalt transporter ATP-binding subunit; Provi	98.61
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	98.61
PRK10908	222	cell division protein FtsE; Provisional	98.61
PRK11144	352	modC molybdate transporter ATP-binding protein; Pr	98.61
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	98.61
smart00382	148	AAA ATPases associated with a variety of cellular	98.61
PRK11607	377	potG putrescine transporter ATP-binding subunit; P	98.61
PRK11300	255	livG leucine/isoleucine/valine transporter ATP-bin	98.6
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	98.6
PRK13648	269	cbiO cobalt transporter ATP-binding subunit; Provi	98.6
PRK11000	369	maltose/maltodextrin transporter ATP-binding prote	98.6
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	98.6
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	98.59
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	98.59
COG4175	386	ProV ABC-type proline/glycine betaine transport sy	98.59
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	98.58
PRK13651	305	cobalt transporter ATP-binding subunit; Provisiona	98.58
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	98.58
PRK09536	402	btuD corrinoid ABC transporter ATPase; Reviewed	98.58
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	98.58
PRK10575	265	iron-hydroxamate transporter ATP-binding subunit;	98.58
TIGR03258	362	PhnT 2-aminoethylphosphonate ABC transport system,	98.57
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	98.57
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	98.57
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	98.57
TIGR01288	303	nodI ATP-binding ABC transporter family nodulation	98.57
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	98.57
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	98.56
PRK10771	232	thiQ thiamine transporter ATP-binding subunit; Pro	98.56
COG4148	352	ModC ABC-type molybdate transport system, ATPase c	98.56
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.56
PRK11831	269	putative ABC transporter ATP-binding protein YrbF;	98.55
TIGR02142	354	modC_ABC molybdenum ABC transporter, ATP-binding p	98.55
PRK13638	271	cbiO cobalt transporter ATP-binding subunit; Provi	98.55
PRK13642	277	cbiO cobalt transporter ATP-binding subunit; Provi	98.55
PRK09984	262	phosphonate/organophosphate ester transporter subu	98.55
PRK15079	331	oligopeptide ABC transporter ATP-binding protein O	98.55
PRK13632	271	cbiO cobalt transporter ATP-binding subunit; Provi	98.55
PRK13639	275	cbiO cobalt transporter ATP-binding subunit; Provi	98.54
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	98.54
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	98.54
PRK14250	241	phosphate ABC transporter ATP-binding protein; Pro	98.54
PRK13644	274	cbiO cobalt transporter ATP-binding subunit; Provi	98.54
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	98.54
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	98.54
PRK10253	265	iron-enterobactin transporter ATP-binding protein;	98.54
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	98.53
TIGR01277	213	thiQ thiamine ABC transporter, ATP-binding protein	98.53
COG0411	250	LivG ABC-type branched-chain amino acid transport	98.53
COG4598	256	HisP ABC-type histidine transport system, ATPase c	98.53
TIGR02323	253	CP_lyasePhnK phosphonate C-P lyase system protein	98.52
cd03269	210	ABC_putative_ATPase This subfamily is involved in	98.52
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.51
PRK10070	400	glycine betaine transporter ATP-binding subunit; P	98.51
PRK09493	240	glnQ glutamine ABC transporter ATP-binding protein	98.51
PRK10418	254	nikD nickel transporter ATP-binding protein NikD;	98.51
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	98.51
PRK13547	272	hmuV hemin importer ATP-binding subunit; Provision	98.51
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	98.51
TIGR03771	223	anch_rpt_ABC anchored repeat-type ABC transporter,	98.5
TIGR03005	252	ectoine_ehuA ectoine/hydroxyectoine ABC transporte	98.5
PRK13645	289	cbiO cobalt transporter ATP-binding subunit; Provi	98.5
PRK11614	237	livF leucine/isoleucine/valine transporter ATP-bin	98.5
cd03295	242	ABC_OpuCA_Osmoprotection OpuCA is a the ATP bindin	98.5
TIGR02982	220	heterocyst_DevA ABC exporter ATP-binding subunit,	98.5
PRK13643	288	cbiO cobalt transporter ATP-binding subunit; Provi	98.5
PRK13631	320	cbiO cobalt transporter ATP-binding subunit; Provi	98.49
PRK09473	330	oppD oligopeptide transporter ATP-binding componen	98.49
PRK10895	241	lipopolysaccharide ABC transporter ATP-binding pro	98.49
TIGR00968	237	3a0106s01 sulfate ABC transporter, ATP-binding pro	98.49
cd03250	204	ABCC_MRP_domain1 Domain 1 of the ABC subfamily C.	98.48
TIGR03415	382	ABC_choXWV_ATP choline ABC transporter, ATP-bindin	98.48
TIGR03522	301	GldA_ABC_ATP gliding motility-associated ABC trans	98.48
COG1134	249	TagH ABC-type polysaccharide/polyol phosphate tran	98.48
PRK15112	267	antimicrobial peptide ABC system ATP-binding prote	98.48
cd03231	201	ABC_CcmA_heme_exporter CcmA, the ATP-binding compo	98.48
cd03299	235	ABC_ModC_like Archeal protein closely related to M	98.47
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	98.47
PRK13641	287	cbiO cobalt transporter ATP-binding subunit; Provi	98.47
cd03244	221	ABCC_MRP_domain2 Domain 2 of the ABC subfamily C.	98.47
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	98.46
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	98.46
TIGR02324	224	CP_lyasePhnL phosphonate C-P lyase system protein	98.46
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	98.46
PRK10762	501	D-ribose transporter ATP binding protein; Provisio	98.46
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	98.45
TIGR02770	230	nickel_nikD nickel import ATP-binding protein NikD	98.45
PRK10619	257	histidine/lysine/arginine/ornithine transporter su	98.45
TIGR03873	256	F420-0_ABC_ATP proposed F420-0 ABC transporter, AT	98.45
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	98.45
cd03267	236	ABC_NatA_like Similar in sequence to NatA, this is	98.45
cd03300	232	ABC_PotA_N PotA is an ABC-type transporter and the	98.44
COG4152	300	ABC-type uncharacterized transport system, ATPase	98.44
PRK09700	510	D-allose transporter ATP-binding protein; Provisio	98.44
PRK03695	248	vitamin B12-transporter ATPase; Provisional	98.44
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	98.44
PRK15439	510	autoinducer 2 ABC transporter ATP-binding protein	98.43
PRK11022	326	dppD dipeptide transporter ATP-binding subunit; Pr	98.43
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	98.43
TIGR02769	265	nickel_nikE nickel import ATP-binding protein NikE	98.43
cd03220	224	ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transpo	98.43
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	98.42
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	98.42
PRK10419	268	nikE nickel transporter ATP-binding protein NikE;	98.42
PRK10938	490	putative molybdenum transport ATP-binding protein	98.42
TIGR03740	223	galliderm_ABC gallidermin-class lantibiotic protec	98.42
PRK13649	280	cbiO cobalt transporter ATP-binding subunit; Provi	98.42
PRK14249	251	phosphate ABC transporter ATP-binding protein; Pro	98.42
PRK10261	623	glutathione transporter ATP-binding protein; Provi	98.41
TIGR03411	242	urea_trans_UrtD urea ABC transporter, ATP-binding	98.41
cd03252	237	ABCC_Hemolysin The ABC-transporter hemolysin B is	98.41
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	98.41
PRK11701	258	phnK phosphonate C-P lyase system protein PhnK; Pr	98.41
PRK11264	250	putative amino-acid ABC transporter ATP-binding pr	98.41
TIGR01978	243	sufC FeS assembly ATPase SufC. SufC is part of the	98.41
PRK11176	582	lipid transporter ATP-binding/permease protein; Pr	98.41
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	98.41
PRK10261	623	glutathione transporter ATP-binding protein; Provi	98.4
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	98.4
cd03253	236	ABCC_ATM1_transporter ATM1 is an ABC transporter t	98.4
PRK15056	272	manganese/iron transporter ATP-binding protein; Pr	98.39
cd03236	255	ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 o	98.39
PRK10982	491	galactose/methyl galaxtoside transporter ATP-bindi	98.38
cd03251	234	ABCC_MsbA MsbA is an essential ABC transporter, cl	98.38
COG1129	500	MglA ABC-type sugar transport system, ATPase compo	98.38
PF00004	132	AAA: ATPase family associated with various cellula	98.38
PRK14271	276	phosphate ABC transporter ATP-binding protein; Pro	98.38
PRK11231	255	fecE iron-dicitrate transporter ATP-binding subuni	98.37
PRK13549	506	xylose transporter ATP-binding subunit; Provisiona	98.37
PRK11174	588	cysteine/glutathione ABC transporter membrane/ATP-	98.37
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	98.37
cd03245	220	ABCC_bacteriocin_exporters ABC-type bacteriocin ex	98.36
TIGR03269	520	met_CoM_red_A2 methyl coenzyme M reductase system,	98.36
PRK11288	501	araG L-arabinose transporter ATP-binding protein;	98.36
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	98.36
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	98.36
PRK09700	510	D-allose transporter ATP-binding protein; Provisio	98.36
COG4559	259	ABC-type hemin transport system, ATPase component	98.35
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	98.34
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	98.34
TIGR02633	500	xylG D-xylose ABC transporter, ATP-binding protein	98.34
cd03249	238	ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6)	98.34
COG4988	559	CydD ABC-type transport system involved in cytochr	98.34
PRK15093	330	antimicrobial peptide ABC transporter ATP-binding	98.34
TIGR00972	247	3a0107s01c2 phosphate ABC transporter, ATP-binding	98.32
PRK09580	248	sufC cysteine desulfurase ATPase component; Review	98.32
TIGR03797	686	NHPM_micro_ABC2 NHPM bacteriocin system ABC transp	98.32
cd03290	218	ABCC_SUR1_N The SUR domain 1. The sulfonylurea rec	98.31
PRK14269	246	phosphate ABC transporter ATP-binding protein; Pro	98.31
COG4615	546	PvdE ABC-type siderophore export system, fused ATP	98.31
TIGR02203	571	MsbA_lipidA lipid A export permease/ATP-binding pr	98.31
PRK10790	592	putative multidrug transporter membrane\ATP-bindin	98.31
PRK14235	267	phosphate transporter ATP-binding protein; Provisi	98.31
PRK10762	501	D-ribose transporter ATP binding protein; Provisio	98.3
PRK13409	590	putative ATPase RIL; Provisional	98.3
PRK15064	530	ABC transporter ATP-binding protein; Provisional	98.3
PRK14240	250	phosphate transporter ATP-binding protein; Provisi	98.3
TIGR03269	520	met_CoM_red_A2 methyl coenzyme M reductase system,	98.3
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	98.29
PRK14273	254	phosphate ABC transporter ATP-binding protein; Pro	98.29
cd03289	275	ABCC_CFTR2 The CFTR subfamily domain 2. The cystic	98.29
COG4181	228	Predicted ABC-type transport system involved in ly	98.28
CHL00131	252	ycf16 sulfate ABC transporter protein; Validated	98.28
TIGR02633	500	xylG D-xylose ABC transporter, ATP-binding protein	98.28
PRK14253	249	phosphate ABC transporter ATP-binding protein; Pro	98.28
PRK15134	529	microcin C ABC transporter ATP-binding protein Yej	98.28
PRK11288	501	araG L-arabinose transporter ATP-binding protein;	98.28
TIGR02857	529	CydD thiol reductant ABC exporter, CydD subunit. U	98.27
TIGR03796	710	NHPM_micro_ABC1 NHPM bacteriocin system ABC transp	98.27
PRK14270	251	phosphate ABC transporter ATP-binding protein; Pro	98.27
TIGR03375	694	type_I_sec_LssB type I secretion system ATPase, Ls	98.26
PRK13549	506	xylose transporter ATP-binding subunit; Provisiona	98.26
COG4167	267	SapF ABC-type antimicrobial peptide transport syst	98.26
PRK14274	259	phosphate ABC transporter ATP-binding protein; Pro	98.26
cd03115	173	SRP The signal recognition particle (SRP) mediates	98.26
PRK15134	529	microcin C ABC transporter ATP-binding protein Yej	98.25
TIGR02204	576	MsbA_rel ABC transporter, permease/ATP-binding pro	98.25
PRK14267	253	phosphate ABC transporter ATP-binding protein; Pro	98.25
TIGR01193	708	bacteriocin_ABC ABC-type bacteriocin transporter.	98.25
PRK10982	491	galactose/methyl galaxtoside transporter ATP-bindi	98.24
cd03248	226	ABCC_TAP TAP, the Transporter Associated with Anti	98.24
PRK14259	269	phosphate ABC transporter ATP-binding protein; Pro	98.24
cd03234	226	ABCG_White The White subfamily represents ABC tran	98.24
PRK10636	638	putative ABC transporter ATP-binding protein; Prov	98.23
PRK13657	588	cyclic beta-1,2-glucan ABC transporter; Provisiona	98.23
cd03270	226	ABC_UvrA_I The excision repair protein UvrA domain	98.23
PRK10744	260	pstB phosphate transporter ATP-binding protein; Pr	98.23
COG4618	580	ArpD ABC-type protease/lipase transport system, AT	98.23
PRK15439	510	autoinducer 2 ABC transporter ATP-binding protein	98.23
PRK13546	264	teichoic acids export protein ATP-binding subunit;	98.22
PRK14258	261	phosphate ABC transporter ATP-binding protein; Pro	98.22
PRK14247	250	phosphate ABC transporter ATP-binding protein; Pro	98.21
PRK13545	549	tagH teichoic acids export protein ATP-binding sub	98.21
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.2
PRK10522	547	multidrug transporter membrane component/ATP-bindi	98.19
PRK14261	253	phosphate ABC transporter ATP-binding protein; Pro	98.19
PRK10789	569	putative multidrug transporter membrane\ATP-bindin	98.18
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	98.18
TIGR01842	544	type_I_sec_PrtD type I secretion system ABC transp	98.18
PRK11819	556	putative ABC transporter ATP-binding protein; Revi	98.17
PRK14242	253	phosphate transporter ATP-binding protein; Provisi	98.17
TIGR00958	711	3a01208 Conjugate Transporter-2 (CT2) Family prote	98.17
PRK13409	590	putative ATPase RIL; Provisional	98.17
PRK11160	574	cysteine/glutathione ABC transporter membrane/ATP-	98.17
KOG0058	716	consensus Peptide exporter, ABC superfamily [Intra	98.16
COG1245	591	Predicted ATPase, RNase L inhibitor (RLI) homolog	98.16
PRK14256	252	phosphate ABC transporter ATP-binding protein; Pro	98.16
PTZ00265	1466	multidrug resistance protein (mdr1); Provisional	98.16
PRK10938	490	putative molybdenum transport ATP-binding protein	98.16
PRK14263	261	phosphate ABC transporter ATP-binding protein; Pro	98.15
PRK14266	250	phosphate ABC transporter ATP-binding protein; Pro	98.15
PRK14239	252	phosphate transporter ATP-binding protein; Provisi	98.15
PRK14238	271	phosphate transporter ATP-binding protein; Provisi	98.15
PRK14268	258	phosphate ABC transporter ATP-binding protein; Pro	98.14
TIGR01192	585	chvA glucan exporter ATP-binding protein. This mod	98.14
TIGR01257	2272	rim_protein retinal-specific rim ABC transporter.	98.14
PRK14265	274	phosphate ABC transporter ATP-binding protein; Pro	98.14
PRK14245	250	phosphate ABC transporter ATP-binding protein; Pro	98.14
COG0488	530	Uup ATPase components of ABC transporters with dup	98.13
PTZ00265	1466	multidrug resistance protein (mdr1); Provisional	98.13
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	98.13
cd03288	257	ABCC_SUR2 The SUR domain 2. The sulfonylurea recep	98.13
PRK14237	267	phosphate transporter ATP-binding protein; Provisi	98.12
cd03272	243	ABC_SMC3_euk Eukaryotic SMC3 proteins; SMC protein	98.12
COG4987	573	CydC ABC-type transport system involved in cytochr	98.12
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	98.12
PRK14251	251	phosphate ABC transporter ATP-binding protein; Pro	98.12
PRK14974	336	cell division protein FtsY; Provisional	98.11
PRK14264	305	phosphate ABC transporter ATP-binding protein; Pro	98.11
COG4136	213	ABC-type uncharacterized transport system, ATPase	98.1
PRK14272	252	phosphate ABC transporter ATP-binding protein; Pro	98.1
PRK14246	257	phosphate ABC transporter ATP-binding protein; Pro	98.1
TIGR01846	694	type_I_sec_HlyB type I secretion system ABC transp	98.1
PRK10636	638	putative ABC transporter ATP-binding protein; Prov	98.1
PRK14262	250	phosphate ABC transporter ATP-binding protein; Pro	98.1
PRK11147	635	ABC transporter ATPase component; Reviewed	98.1
PLN03130	1622	ABC transporter C family member; Provisional	98.1
PRK14248	268	phosphate ABC transporter ATP-binding protein; Pro	98.09
PRK14243	264	phosphate transporter ATP-binding protein; Provisi	98.09
COG1132	567	MdlB ABC-type multidrug transport system, ATPase a	98.09
PRK14275	286	phosphate ABC transporter ATP-binding protein; Pro	98.09
cd03291	282	ABCC_CFTR1 The CFTR subfamily domain 1. The cystic	98.09
PRK14252	265	phosphate ABC transporter ATP-binding protein; Pro	98.09
PRK14236	272	phosphate transporter ATP-binding protein; Provisi	98.09
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	98.09
PRK14260	259	phosphate ABC transporter ATP-binding protein; Pro	98.09
TIGR03719	552	ABC_ABC_ChvD ATP-binding cassette protein, ChvD fa	98.09
KOG0061	613	consensus Transporter, ABC superfamily (Breast can	98.08
PLN03073	718	ABC transporter F family; Provisional	98.08
cd03278	197	ABC_SMC_barmotin Barmotin is a tight junction-asso	98.08
PRK11147	635	ABC transporter ATPase component; Reviewed	98.08
PRK14254	285	phosphate ABC transporter ATP-binding protein; Pro	98.08
PRK14241	258	phosphate transporter ATP-binding protein; Provisi	98.07
COG4161	242	ArtP ABC-type arginine transport system, ATPase co	98.07
KOG0057	591	consensus Mitochondrial Fe/S cluster exporter, ABC	98.07
PRK15064	530	ABC transporter ATP-binding protein; Provisional	98.07
PLN03232	1495	ABC transporter C family member; Provisional	98.07
PRK10867	433	signal recognition particle protein; Provisional	98.07
PRK14244	251	phosphate ABC transporter ATP-binding protein; Pro	98.07
PRK14257	329	phosphate ABC transporter ATP-binding protein; Pro	98.06
PTZ00243	1560	ABC transporter; Provisional	98.06
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	98.06
cd03227	162	ABC_Class2 ABC-type Class 2 contains systems invol	98.06
PLN03073	718	ABC transporter F family; Provisional	98.05
PF09807	249	DUF2348: Uncharacterized conserved protein (DUF234	98.05
TIGR01187	325	potA spermidine/putrescine ABC transporter ATP-bin	98.05
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	98.05
KOG0736	953	consensus Peroxisome assembly factor 2 containing	98.05
TIGR01194	555	cyc_pep_trnsptr cyclic peptide transporter. This m	98.05
TIGR00064	272	ftsY signal recognition particle-docking protein F	98.04
TIGR00954	659	3a01203 Peroxysomal Fatty Acyl CoA Transporter (FA	98.04
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	98.03
KOG0055	1228	consensus Multidrug/pheromone exporter, ABC superf	98.03
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	98.03
COG0488	530	Uup ATPase components of ABC transporters with dup	98.03
PRK15177	213	Vi polysaccharide export ATP-binding protein VexC;	98.02
cd03280	200	ABC_MutS2 MutS2 homologs in bacteria and eukaryote	98.02
PRK10416	318	signal recognition particle-docking protein FtsY;	98.02
COG4172	534	ABC-type uncharacterized transport system, duplica	98.01
COG4525	259	TauB ABC-type taurine transport system, ATPase com	98.01
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	98.0
COG4133	209	CcmA ABC-type transport system involved in cytochr	98.0
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	97.99
TIGR00957	1522	MRP_assoc_pro multi drug resistance-associated pro	97.98
PRK14255	252	phosphate ABC transporter ATP-binding protein; Pro	97.98
TIGR00959	428	ffh signal recognition particle protein. This mode	97.98
COG4178	604	ABC-type uncharacterized transport system, permeas	97.98
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	97.98
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	97.96
PF13173	128	AAA_14: AAA domain	97.95
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	97.95
COG2401	593	ABC-type ATPase fused to a predicted acetyltransfe	97.95
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	97.94
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	97.94
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.94
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	97.92
cd03271	261	ABC_UvrA_II The excision repair protein UvrA domai	97.92
TIGR01271	1490	CFTR_protein cystic fibrosis transmembrane conduct	97.92
PLN03211	659	ABC transporter G-25; Provisional	97.92
PRK07721	438	fliI flagellum-specific ATP synthase; Validated	97.91
TIGR03719	552	ABC_ABC_ChvD ATP-binding cassette protein, ChvD fa	97.9
cd03287	222	ABC_MSH3_euk MutS3 homolog in eukaryotes. The MutS	97.9
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	97.89
KOG0056	790	consensus Heavy metal exporter HMT1, ABC superfami	97.89
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	97.87
PRK06921	266	hypothetical protein; Provisional	97.87
PRK11819	556	putative ABC transporter ATP-binding protein; Revi	97.87
TIGR01257	2272	rim_protein retinal-specific rim ABC transporter.	97.86
PRK12377	248	putative replication protein; Provisional	97.86
PRK10535	648	macrolide transporter ATP-binding /permease protei	97.86
PRK07952	244	DNA replication protein DnaC; Validated	97.85
PRK08727	233	hypothetical protein; Validated	97.85
cd03275	247	ABC_SMC1_euk Eukaryotic SMC1 proteins; SMC protein	97.85
COG2087	175	CobU Adenosyl cobinamide kinase/adenosyl cobinamid	97.84
PRK08181	269	transposase; Validated	97.84
cd03282	204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	97.83
PF05625	363	PAXNEB: PAXNEB protein; InterPro: IPR008728 The RN	97.81
PF02283	167	CobU: Cobinamide kinase / cobinamide phosphate gua	97.81
COG1119	257	ModF ABC-type molybdenum transport system, ATPase	97.81
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	97.81
COG1101	263	PhnK ABC-type uncharacterized transport system, AT	97.8
TIGR00955	617	3a01204 The Eye Pigment Precursor Transporter (EPP	97.8
PRK06793	432	fliI flagellum-specific ATP synthase; Validated	97.8
PRK08084	235	DNA replication initiation factor; Provisional	97.8
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.79
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	97.79
cd03279	213	ABC_sbcCD SbcCD and other Mre11/Rad50 (MR) complex	97.79
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	97.79
PRK09099	441	type III secretion system ATPase; Provisional	97.78
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.78
cd03240	204	ABC_Rad50 The catalytic domains of Rad50 are simil	97.77
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	97.77
cd03285	222	ABC_MSH2_euk MutS2 homolog in eukaryotes. The MutS	97.76
PRK06526	254	transposase; Provisional	97.76
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	97.76
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.75
COG4674	249	Uncharacterized ABC-type transport system, ATPase	97.75
PRK13768	253	GTPase; Provisional	97.75
PRK03992	389	proteasome-activating nucleotidase; Provisional	97.75
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.75
TIGR02546	422	III_secr_ATP type III secretion apparatus H+-trans	97.74

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=100.00  E-value=2.3e-66  Score=482.61  Aligned_cols=344  Identities=88%  Similarity=1.300  Sum_probs=321.9

Q ss_pred             CccchHHHHhhhhhhhhcccccccchhhhcHHHHHhCCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHH
Q 047388            1 MIATLKAEEQSQLQLVEREDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKI   80 (352)
Q Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~   80 (352)
                      |-++-..-+-+.+++.+....|+++..+..++.|++.||++.++++|+++||+|+++++..++.+|++++|+|++++.++
T Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~~~~~kL~~~g~~tv~~~~~~~~~~L~~~~g~s~~~~~ki   80 (344)
T PLN03187          1 MSASAQADEGAQLQLVEAEEVDEEEDLFESIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKNLTGIKGLSEAKVDKI   80 (344)
T ss_pred             CchhhhhhhhhhhhhhhhhhhhhhhhcccCHHHHhhCCCCHHHHHHHHHcCCCcHHHHHhCCHHHHHHhcCCCHHHHHHH
Confidence            45566667777888888888888888899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhcCCCchhhhHHhhhcccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCC
Q 047388           81 CEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGN  160 (352)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~  160 (352)
                      ++.+++.++.+|.++.+++..+....+++||++.||++|+|||++|.+|+|+|+||+||||||+|+|.+++.|...||.+
T Consensus        81 ~~~a~~~~~~~~~ta~~~~~~~~~~~~isTG~~~LD~lLgGGi~~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~  160 (344)
T PLN03187         81 CEAAEKLLNQGFITGSDALLKRKSVVRITTGSQALDELLGGGIETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGN  160 (344)
T ss_pred             HHHHHHhhcccCCcHHHHHhhhccCceecCCcHhHHhhcCCCCCCCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCC
Confidence            99999999999999999988777888999999999999999999999999999999999999999999999998888888


Q ss_pred             CeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCC
Q 047388          161 GKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTG  240 (352)
Q Consensus       161 ~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~  240 (352)
                      ++|+|||+|++|+++|+.+++++++++++.+++|+.+.++++.+++..++..+...+.+.++++|||||++++++.++.+
T Consensus       161 ~~vvyIdTE~tF~peRl~~ia~~~g~d~~~~l~~I~~~~~~~~e~~~~~l~~l~~~i~~~~~~LvVIDSital~r~~~~~  240 (344)
T PLN03187        161 GKVAYIDTEGTFRPDRIVPIAERFGMDADAVLDNIIYARAYTYEHQYNLLLGLAAKMAEEPFRLLIVDSVIALFRVDFTG  240 (344)
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHcCCChhhhcCeEEEecCCCHHHHHHHHHHHHHHHHhcCCCEEEEeCcHHhhhccccC
Confidence            99999999999999999999999999999999999999999999999888888777777899999999999999999988


Q ss_pred             CcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeecCCeEEEEEE
Q 047388          241 RGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVF  320 (352)
Q Consensus       241 ~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~~~R~~~i~  320 (352)
                      ++++.+|++.+.++++.|+++|+++|++||+|||++..+++.+|.+++.+|+||+.|+|++++|++|++.++..|+++|+
T Consensus       241 rg~l~~rq~~L~~~~~~L~~lA~~~~vavvvTNqv~~~~~~~~~~~~~~~pagG~~~~h~~~~Rl~l~k~~~~~R~~~v~  320 (344)
T PLN03187        241 RGELAERQQKLAQMLSRLTKIAEEFNVAVYMTNQVIADPGGGMFISDPKKPAGGHVLAHAATIRLMLRKGKGEQRVCKVF  320 (344)
T ss_pred             ccchHHHHHHHHHHHHHHHHHHHHcCCEEEEEecEEEcCCcccccCCCCCCCCchhhheeeeEEEEEEcCCCCeEEEEEE
Confidence            88889999989999999999999999999999999987765545578889999999999999999999988889999999


Q ss_pred             eCCCCCcccccccceeeeeEEEeCCCccCCCC
Q 047388          321 DAPNLPEAEAISFSYHIILIKITPGGIADAKD  352 (352)
Q Consensus       321 Ks~~~~~~~~~~~~~~~~~f~I~~~Gi~~~~~  352 (352)
                      |||++|++++.        |.|+++||.|++|
T Consensus       321 ksp~lp~~~~~--------f~It~~GI~d~~~  344 (344)
T PLN03187        321 DAPNLPEAEAE--------FQITSGGIMDAKD  344 (344)
T ss_pred             ECCCCCCceEE--------EEEeCCCccCCCC
Confidence            99999999988        9999999999876

>KOG1434 consensus Meiotic recombination protein Dmc1 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=100.00  E-value=7.1e-66  Score=442.68  Aligned_cols=323  Identities=56%  Similarity=0.889  Sum_probs=309.2

Q ss_pred             cccchhhhcHHHHHhCCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHHHHhhcCCCchhhhHHh
Q 047388           22 DDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLR  101 (352)
Q Consensus        22 ~~~~~~~~~~~~l~~~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  101 (352)
                      |.+......|+.++.+|+...++.+|+..|++|+..++.++.+-|.++.++++..+.++.+++.+.++.+|.+|.++++.
T Consensus        11 ~~~~~l~~ai~~l~~~gi~~td~~kLk~~gi~tikgv~ist~r~l~~lkgise~kv~klkeaa~k~~~~~f~tA~e~le~   90 (335)
T KOG1434|consen   11 DVSFPLSPAIEELQVHGINVTDIEKLKSKGICTIKGVLISTRRALCKLKGISEVKVDKLKEAANKSISHGFCTALELLEQ   90 (335)
T ss_pred             ccccccchhHHHHHhcccchhhHHhhccCCeeeEeeeeehhHHHHHHHhhHHHHhhhhHHHhhCCccCcCcchHHHHHhh
Confidence            33444556699999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHH
Q 047388          102 RKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIA  181 (352)
Q Consensus       102 ~~~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~  181 (352)
                      +.....|+||+..||.+||||++..++++|+|.+|+|||++++++|+++++|.++||.+++++|||||++|.++|+++++
T Consensus        91 r~~v~~ItTgs~~lD~ILGGGI~~m~iTEifGefr~GKTQlshtLcVt~QlPr~~Gg~~Gk~ifIDTEgtFrpdRi~~IA  170 (335)
T KOG1434|consen   91 RKTVGSITTGSSALDDILGGGIPSMSITEIFGEFRCGKTQLSHTLCVTVQLPREMGGVGGKAIFIDTEGTFRPDRIKDIA  170 (335)
T ss_pred             hhccceeecchHHHhhhhcCCccchhhHHHcCCCCcCccceeeEEEEEeecchhhCCCCceEEEEecCCccchHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHcCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcC-CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHH
Q 047388          182 ERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEE-PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTK  260 (352)
Q Consensus       182 ~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~-~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~  260 (352)
                      ++++++++.+++|+.|.++++.+++++++..+...+.++ +.++||||||+++|+.+|+|+|++++||+.+.+++..|.+
T Consensus       171 e~~~~d~d~~LdNI~y~Ra~~se~qmelv~~L~~~~se~g~~rlvIVDsIma~FRvDy~grgeLseRqqkLn~ml~kl~~  250 (335)
T KOG1434|consen  171 ERFKVDPDFTLDNILYFRAYNSEEQMELVYLLGDFLSEHGKYRLVIVDSIMALFRVDYDGRGELSERQQKLNQMLQKLNK  250 (335)
T ss_pred             HHhCCCHHHHHHHHHHHHHcChHHHHHHHHHHHHHHhhcCcEEEEEEeceehheeecccccccHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999987 8999999999999999999999999999999999999999


Q ss_pred             HHHHhCcEEEEEcccccCCCCC-cccCCCCCCCcchhhhhccceEEEEEeecCCeEEEEEEeCCCCCcccccccceeeee
Q 047388          261 ISEEFNVAVYMTNQVIADPGGG-VFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIIL  339 (352)
Q Consensus       261 la~~~~~~viv~~h~~~~~~~~-~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~~~R~~~i~Ks~~~~~~~~~~~~~~~~~  339 (352)
                      +|++++++|+++||++.+++.. +|...+.+|+||++|+|++++|+.|+|++|+.|+++++|||.+|+.++.        
T Consensus       251 laeefnvAVfltNQvttdpga~~~f~s~~~kp~gGh~~aHAsttRlilrkgrg~eR~Akl~dSP~mpe~e~~--------  322 (335)
T KOG1434|consen  251 LAEEFNVAVFLTNQVTTDPGAGMTFASQDLKPAGGHSWAHASTTRLILRKGRGDERVAKLYDSPSMPEAEAS--------  322 (335)
T ss_pred             HHHhccEEEEEecceecCCcccccccccccCccccchhhhhhheeEEEEcCCcceeeeecccCCCCCcceEE--------
Confidence            9999999999999999988665 6767778999999999999999999999999999999999999999998        


Q ss_pred             EEEeCCCccCCCC
Q 047388          340 IKITPGGIADAKD  352 (352)
Q Consensus       340 f~I~~~Gi~~~~~  352 (352)
                      |.|+++||.|+.+
T Consensus       323 y~It~~Gi~dss~  335 (335)
T KOG1434|consen  323 YVITPGGIRDSSV  335 (335)
T ss_pred             EEEcCCccccCCC
Confidence            9999999999764

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=100.00  E-value=4.7e-63  Score=457.86  Aligned_cols=312  Identities=72%  Similarity=1.085  Sum_probs=294.4

Q ss_pred             HHHHHhCCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHHHHhhcCCCchhhhHHhhhccccccc
Q 047388           31 IDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITT  110 (352)
Q Consensus        31 ~~~l~~~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~T  110 (352)
                      ++.|+..|+++.++++|+++||+|+++++..++.+|++++|+|++++.++++.+.+.+..+|.+|.++++.+....+++|
T Consensus         1 ~~~~~~~g~~~~~~~~L~~~g~~t~~~~~~~~~~~L~~~~gls~~~~~~i~~~~~~~~~~~~~ta~~~~~~~~~~~~isT   80 (313)
T TIGR02238         1 IDKLQAHGINAADIKKLKSAGICTVNGVIMTTRRALCKIKGLSEAKVDKIKEAASKIINPGFITAFEISQKRKKVLKITT   80 (313)
T ss_pred             CchhhcCCCCHHHHHHHHHcCCCcHHHHHhCCHHHHHHhcCCCHHHHHHHHHHHHhhhcccCccHHHHHHhhccCceeCC
Confidence            35788999999999999999999999999999999999999999999999999999999999999999988888899999


Q ss_pred             CChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCccc
Q 047388          111 GSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGA  190 (352)
Q Consensus       111 G~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~  190 (352)
                      |++.||++|+||+++|.+++|+|+||+||||||++++.+++.|...|+.+++|+|||+|++|+++|+.+++++++++++.
T Consensus        81 G~~~LD~lLgGGi~~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~~~a~~~g~d~~~  160 (313)
T TIGR02238        81 GSQALDGILGGGIESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRAIAERFGVDPDA  160 (313)
T ss_pred             CCHHHHHHhCCCCcCCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHHHHHHHcCCChHH
Confidence            99999999999999999999999999999999999999999998888889999999999999999999999999999999


Q ss_pred             ccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEE
Q 047388          191 VLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVY  270 (352)
Q Consensus       191 ~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~vi  270 (352)
                      +++|+.+.++++.+++.+.+..+...+.+.++++|||||++++|+.++.+++++.+|++.+.+++..|+++|+++|++||
T Consensus       161 ~l~~i~~~~~~~~e~~~~~l~~l~~~i~~~~~~LvVIDSisal~r~~~~~~g~~~~r~~~l~~~~~~L~~la~~~~vavv  240 (313)
T TIGR02238       161 VLDNILYARAYTSEHQMELLDYLAAKFSEEPFRLLIVDSIMALFRVDFSGRGELSERQQKLAQMLSRLNKISEEFNVAVF  240 (313)
T ss_pred             hcCcEEEecCCCHHHHHHHHHHHHHHhhccCCCEEEEEcchHhhhhhccCccchHHHHHHHHHHHHHHHHHHHHcCcEEE
Confidence            99999999999999999998888877877899999999999999998888888999998899999999999999999999


Q ss_pred             EEcccccCCCCC-cccCCCCCCCcchhhhhccceEEEEEeecCCeEEEEEEeCCCCCcccccccceeeeeEEEeCCCccC
Q 047388          271 MTNQVIADPGGG-VFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIAD  349 (352)
Q Consensus       271 v~~h~~~~~~~~-~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~~~R~~~i~Ks~~~~~~~~~~~~~~~~~f~I~~~Gi~~  349 (352)
                      +|||++..+++. +|.+++.+|+||+.|+|++++||+|+|.+++.|+++|+|+|+.|++++.        |.|+++||.|
T Consensus       241 itNqv~~~~~~~~~~~~~~~~p~gG~~~~h~~~~Rl~l~k~~~~~R~~~~~~sp~~p~~~~~--------f~i~~~Gi~~  312 (313)
T TIGR02238       241 VTNQVQADPGATMTFIADPKKPIGGHVLAHASTTRILLRKGRGEERVAKLYDSPDMPEAEAS--------FQITEGGIAD  312 (313)
T ss_pred             EECceEecCCcccccCCCCccCcchhhhhhheeEEEEEEecCCCeEEEEEeeCCCCCCeEEE--------EEEeCCcccC
Confidence            999999976543 5657788999999999999999999998888999999999999999998        9999999988


Q ss_pred             C
Q 047388          350 A  350 (352)
Q Consensus       350 ~  350 (352)
                      +
T Consensus       313 ~  313 (313)
T TIGR02238       313 A  313 (313)
T ss_pred             C
Confidence            5

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.

>PTZ00035 Rad51 protein; Provisional

Probab=100.00  E-value=1.8e-62  Score=458.74  Aligned_cols=327  Identities=64%  Similarity=1.011  Sum_probs=304.9

Q ss_pred             cccccccchhhhcHHHHHhCCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHHHHhhcCCCchhh
Q 047388           18 REDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSD   97 (352)
Q Consensus        18 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (352)
                      ++.+|++...++.++.|+.+||++.++++|+++||+|+++++..++.+|++++|+++++++++++.+++.+..+|.+|.+
T Consensus        10 ~~~~~~~~~~~~~~~~l~~~g~~~~~~~kL~~~g~~t~~~~~~~~~~~L~~~~gis~~~~~~i~~~~~~~~~~~~~ta~~   89 (337)
T PTZ00035         10 EEEEEEEAEGFQEIEKLQSAGINAADIKKLKEAGICTVESVAYATKKDLCNIKGISEAKVEKIKEAASKLVPMGFISATE   89 (337)
T ss_pred             ccchhhcccCCccHHHHhcCCCCHHHHHHHHHcCCCcHHHHHhCCHHHHHHhhCCCHHHHHHHHHHHHHhcccCCCCHHH
Confidence            33445555557799999999999999999999999999999999999999999999999999999999999889999999


Q ss_pred             hHHhhhcccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhH
Q 047388           98 ALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRI  177 (352)
Q Consensus        98 ~~~~~~~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl  177 (352)
                      +++.+.+..+++||++.||++|+|||++|++++|+|+||+||||||++++.+++.|...||.+++|+||++|+.|+++|+
T Consensus        90 ~~~~~~~~~~isTG~~~LD~lLgGGi~~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~eri  169 (337)
T PTZ00035         90 YLEARKNIIRITTGSTQLDKLLGGGIETGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERI  169 (337)
T ss_pred             HHHhhccCccccCCcHHHHHHhCCCCCCCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHHH
Confidence            99888888999999999999999999999999999999999999999999999988888888999999999999999999


Q ss_pred             HHHHHHcCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHH
Q 047388          178 VPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSR  257 (352)
Q Consensus       178 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~  257 (352)
                      .+++++++++++.+++|+.+.++++.+++.+++..+...+...++++|||||++++++.++.+++++.+|++.+.+++..
T Consensus       170 ~~ia~~~g~~~~~~l~nI~~~~~~~~e~~~~~l~~~~~~l~~~~~~lvVIDSital~r~~~~~~~~~~~r~~~l~~~~~~  249 (337)
T PTZ00035        170 VQIAERFGLDPEDVLDNIAYARAYNHEHQMQLLSQAAAKMAEERFALLIVDSATALFRVDYSGRGELAERQQHLGKFLRA  249 (337)
T ss_pred             HHHHHHhCCChHhHhhceEEEccCCHHHHHHHHHHHHHHhhccCccEEEEECcHHhhhhhccCcccHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999998888777777789999999999999999888888888999889999999


Q ss_pred             HHHHHHHhCcEEEEEcccccCCCCC-cccCCCCCCCcchhhhhccceEEEEEeecCCeEEEEEEeCCCCCccccccccee
Q 047388          258 LTKISEEFNVAVYMTNQVIADPGGG-VFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYH  336 (352)
Q Consensus       258 L~~la~~~~~~viv~~h~~~~~~~~-~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~~~R~~~i~Ks~~~~~~~~~~~~~~  336 (352)
                      |+++|+++|++||+|||++..+++. +|.+++.+|+||+.|+|++++||+|++.++..|+++|+|+|++|++++.     
T Consensus       250 L~~la~~~~vavvvtNqv~~~~~~~~~~~~~~~~p~gG~~~~h~~~~Rl~l~k~~~~~R~~~i~ksp~~p~~~~~-----  324 (337)
T PTZ00035        250 LQKLADEFNVAVVITNQVMADVDGASMFVADPKKPIGGHIIAHASTTRLSLRKGRGEQRICKIYDSPNLPESEAV-----  324 (337)
T ss_pred             HHHHHHHcCcEEEEecceEEecCCccccCCCCccCCchHHHHhheeEEEEEEecCCCeeEEEEEECCCCCCeeEE-----
Confidence            9999999999999999999987654 5667888999999999999999999998888999999999999999987     


Q ss_pred             eeeEEEeCCCccCCCC
Q 047388          337 IILIKITPGGIADAKD  352 (352)
Q Consensus       337 ~~~f~I~~~Gi~~~~~  352 (352)
                         |.|+++||.+++|
T Consensus       325 ---f~It~~Gi~~~~~  337 (337)
T PTZ00035        325 ---FAISEGGIIDAKD  337 (337)
T ss_pred             ---EEEeCCccccCCC
Confidence               9999999999876

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=100.00  E-value=8.6e-62  Score=452.72  Aligned_cols=331  Identities=53%  Similarity=0.865  Sum_probs=304.8

Q ss_pred             hhhhcccccccchhhhcHHHHHhCCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHHHHhhcCCC
Q 047388           14 QLVEREDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYI   93 (352)
Q Consensus        14 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (352)
                      +++...++++....+..++.|+.+||++.++++|+++||.|+++++..++.+|++++++++.++++++..+.+.++.+|.
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~l~~~gi~~~~i~kL~~~g~~T~~~~~~~~~~~L~~i~~is~~~~~~~~~~~~~~~~~~~~   90 (342)
T PLN03186         11 QAMQEEEEEEAAHGPFPIEQLQASGIAALDIKKLKDAGIHTVESLAYAPKKDLLQIKGISEAKVEKILEAASKLVPLGFT   90 (342)
T ss_pred             hhccchhhcccccCCccHHHHHhCCCCHHHHHHHHHcCCCcHHHHHhCCHHHHHHhcCCCHHHHHHHHHHHHHhcccccc
Confidence            45555556666666779999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             chhhhHHhhhcccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCC
Q 047388           94 TGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFR  173 (352)
Q Consensus        94 ~~~~~~~~~~~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~  173 (352)
                      ++.+++..+....+++||++.||++|+||+++|++++|+|+||+|||+||+++|.+++.|...|+.+++|+|||+|++|+
T Consensus        91 ta~~~~~~~~~~~~i~tG~~~LD~lL~GG~~~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~  170 (342)
T PLN03186         91 TASQLHAQRQEIIQITTGSRELDKILEGGIETGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFR  170 (342)
T ss_pred             hHHHHhhcccCcceeCCCCHHHHHhhcCCCcCceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCcc
Confidence            99999888777889999999999999999999999999999999999999999999998888888888999999999999


Q ss_pred             hhhHHHHHHHcCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHH
Q 047388          174 PDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQ  253 (352)
Q Consensus       174 ~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~  253 (352)
                      ++|+.+++++++++++.+++|+.+.+.++.+++..++..+...+...++++|||||++++|+.++.+++++.+|++.+.+
T Consensus       171 ~eRl~qia~~~~~~~~~~l~~i~~~~~~~~e~~~~ll~~~~~~~~~~~~~LIVIDSI~alfr~~~~~~g~l~~r~~~L~~  250 (342)
T PLN03186        171 PQRLIQIAERFGLNGADVLENVAYARAYNTDHQSELLLEAASMMAETRFALMIVDSATALYRTEFSGRGELSARQMHLGK  250 (342)
T ss_pred             HHHHHHHHHHcCCChhhhccceEEEecCCHHHHHHHHHHHHHHhhccCCCEEEEeCcHHHHHHHhcCCccHHHHHHHHHH
Confidence            99999999999999999999999999999999998888877777777999999999999999888888888889888999


Q ss_pred             HHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCC-CCCcchhhhhccceEEEEEeecCCeEEEEEEeCCCCCcccccc
Q 047388          254 MLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPK-KPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAIS  332 (352)
Q Consensus       254 i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~-~~~gg~~~~~~~~~~i~L~~~~~~~R~~~i~Ks~~~~~~~~~~  332 (352)
                      ++..|+++|+++|++||+|||+...+++..+.+++. +|+||+.|+|++++||+|++.++..|+++++|||++|++++. 
T Consensus       251 ~l~~L~~lA~~~~vaVviTNqv~~~~~~~~~~~~~~~~P~gG~~~~h~~~tRl~L~k~~~~~R~~~v~ksp~~p~~e~~-  329 (342)
T PLN03186        251 FLRSLQRLADEFGVAVVITNQVVAQVDGSAFFAGPQLKPIGGNIMAHASTTRLALRKGRGENRICKVISSPCLPEAEAR-  329 (342)
T ss_pred             HHHHHHHHHHHcCCEEEEEcCEEEccCCccccCCCccccchhHHHHhhccEEEEEEecCCCeEEEEEEECCCCCCeEEE-
Confidence            999999999999999999999998777642234555 999999999999999999998888999999999999999988 


Q ss_pred             cceeeeeEEEeCCCccCCCC
Q 047388          333 FSYHIILIKITPGGIADAKD  352 (352)
Q Consensus       333 ~~~~~~~f~I~~~Gi~~~~~  352 (352)
                             |.|+++||.++.|
T Consensus       330 -------F~I~~~Gi~~~~~  342 (342)
T PLN03186        330 -------FSISSEGVTDVKD  342 (342)
T ss_pred             -------EEEECCceecCCC
Confidence                   9999999999875

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=100.00  E-value=2.8e-58  Score=427.30  Aligned_cols=314  Identities=56%  Similarity=0.922  Sum_probs=292.0

Q ss_pred             HHHHHhCCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHHHHhhcCCCchhhhHHhhhccccccc
Q 047388           31 IDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITT  110 (352)
Q Consensus        31 ~~~l~~~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~T  110 (352)
                      ++.|+..|+++.++++|+++||.|+++++..++.+|++++++++.++.++++.+.+.+...+.++.+++..+....+++|
T Consensus         1 ~~~~~~~~~~~~~~~~l~~~g~~t~~~~~~~~~~~L~~i~~ls~~~~~~~~~~~~~~~~~~~~t~~~l~~~~~~~~~~~t   80 (316)
T TIGR02239         1 IEKLEGNGITAADIKKLQEAGLHTVESVAYAPKKQLLEIKGISEAKADKILAEAAKLVPMGFTTATEFHQRRQEVIQLTT   80 (316)
T ss_pred             CchhhcCCCCHHHHHHHHHcCCCcHHHHHhCCHHHHHHHhCCCHHHHHHHHHHHHHhcccccccHHHHHhcccccceeCC
Confidence            35788899999999999999999999999999999999999999999999999999999999999999877777889999


Q ss_pred             CChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCccc
Q 047388          111 GSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGA  190 (352)
Q Consensus       111 G~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~  190 (352)
                      |++.||.+|+||+++|++++|+|+||+|||+||++++.+++.|...||.+++|+||++|+.|++.|+.+++++++++++.
T Consensus        81 g~~~lD~ll~gGi~~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~Rl~~ia~~~~~~~~~  160 (316)
T TIGR02239        81 GSKELDKLLGGGIETGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERLLAIAERYGLNPED  160 (316)
T ss_pred             CCHHHHHHhcCCCCCCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHHHHHHHHHcCCChHH
Confidence            99999999999999999999999999999999999999988888778788899999999999999999999999999999


Q ss_pred             ccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEE
Q 047388          191 VLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVY  270 (352)
Q Consensus       191 ~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~vi  270 (352)
                      +++|+.+.+.++.+++...+..+...+...++++|||||++++|+.++.+++++..|+..+.+++..|+++|++++++||
T Consensus       161 ~l~~i~~~~~~~~~~~~~~l~~~~~~~~~~~~~LvVIDSI~al~r~~~~~~~~~~~rq~~l~~~~~~L~~la~~~~vavv  240 (316)
T TIGR02239       161 VLDNVAYARAYNTDHQLQLLQQAAAMMSESRFALLIVDSATALYRTDFSGRGELSARQMHLARFLRSLQRLADEFGVAVV  240 (316)
T ss_pred             hhccEEEEecCChHHHHHHHHHHHHhhccCCccEEEEECcHHHhhhhcCCcchHHHHHHHHHHHHHHHHHHHHHhCCEEE
Confidence            99999999999999988888887777777789999999999999988877777888888889999999999999999999


Q ss_pred             EEcccccCCCCC--cccCCCCCCCcchhhhhccceEEEEEeecCCeEEEEEEeCCCCCcccccccceeeeeEEEeCCCcc
Q 047388          271 MTNQVIADPGGG--VFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIA  348 (352)
Q Consensus       271 v~~h~~~~~~~~--~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~~~R~~~i~Ks~~~~~~~~~~~~~~~~~f~I~~~Gi~  348 (352)
                      +|||++..+++.  .|.+++.+|+||..|+|++++||+|++.++..|+++++|||++|++++.        |.|+++||.
T Consensus       241 ~tNqv~~~~~~~~~~~~g~~~~p~gG~~~~h~~~~ri~l~k~~~~~R~~~v~ksp~~p~~~~~--------f~i~~~Gi~  312 (316)
T TIGR02239       241 ITNQVVAQVDGAGSMFAGDPKKPIGGNIMAHASTTRLSLRKGRGEQRICKIYDSPCLPESEAM--------FAIYEDGIG  312 (316)
T ss_pred             EECceEEecCCccccccCCCCcCCchHHHHhhccEEEEEEecCCCeEEEEEEECCCCCCeEEE--------EEEeCCcee
Confidence            999999877654  3557888999999999999999999998888899999999999999988        999999999


Q ss_pred             CCCC
Q 047388          349 DAKD  352 (352)
Q Consensus       349 ~~~~  352 (352)
                      |++|
T Consensus       313 ~~~~  316 (316)
T TIGR02239       313 DPKE  316 (316)
T ss_pred             cCCC
Confidence            9875

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).

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

Probab=100.00  E-value=3.9e-54  Score=389.17  Aligned_cols=254  Identities=48%  Similarity=0.777  Sum_probs=229.8

Q ss_pred             cCCCchhhhHHhhhcccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388           90 FGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus        90 ~~~~~~~~~~~~~~~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      .+|.||.++++.+.....|+||++.||.+|+||++.|.+|||+|+||+|||+||+|+|+++++|...||.+++|+|||||
T Consensus         2 ~~f~ta~~~~~~~~~~~~i~Tg~~~lD~~L~GGi~~g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe   81 (256)
T PF08423_consen    2 MGFQTAAELLEQRKRWSRISTGCKSLDELLGGGIPTGSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTE   81 (256)
T ss_dssp             TSSEEHHHHHHHHHTS-EE--SSHHHHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESS
T ss_pred             CCcccHHHHHHHhhcCCeeCCCCHHHHHhhCCCCCCCcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCC
Confidence            47899999998888889999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCChhhHHHHHHHcCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHH
Q 047388          170 GTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQ  249 (352)
Q Consensus       170 ~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~  249 (352)
                      +.|+++|+.+++++++.+++++++|+.+.++++..++..++.++...+.+.+++||||||++++|+.++.+++++.+|+.
T Consensus        82 ~~f~~~Rl~~i~~~~~~~~~~~l~~I~v~~~~~~~~l~~~L~~l~~~l~~~~ikLIVIDSIaalfr~e~~~~~~~~~R~~  161 (256)
T PF08423_consen   82 GTFSPERLQQIAERFGLDPEEILDNIFVIRVFDLEELLELLEQLPKLLSESKIKLIVIDSIAALFRSEFSGRGDLAERQR  161 (256)
T ss_dssp             SSS-HHHHHHHHHHTTS-HHHHHHTEEEEE-SSHHHHHHHHHHHHHHHHHSCEEEEEEETSSHHHHHHSGSTTTHHHHHH
T ss_pred             CCCCHHHHHHHhhccccccchhhhceeeeecCCHHHHHHHHHHHHhhccccceEEEEecchHHHHHHHHccchhhHHHHH
Confidence            99999999999999999999999999999999999999999988888888899999999999999999888778899999


Q ss_pred             HHHHHHHHHHHHHHHhCcEEEEEcccccCCCCC-cccCCCCCCCcchhhhhccceEEEEEeecCCeEEEEEEeCCCCCcc
Q 047388          250 KLGQMLSRLTKISEEFNVAVYMTNQVIADPGGG-VFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEA  328 (352)
Q Consensus       250 ~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~-~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~~~R~~~i~Ks~~~~~~  328 (352)
                      .+.++++.|+++|++++++||+|||++..+++. .|.++..+|++|..|+|++++||+|+|.++..|.++|.|+|+.|+.
T Consensus       162 ~L~~~~~~L~~lA~~~~iaVvvTNqv~~~~~~~~~~~~~~~~PalG~~w~h~~~~Rl~l~k~~~~~R~~~i~ksp~~p~~  241 (256)
T PF08423_consen  162 MLARLARILKRLARKYNIAVVVTNQVTTKIDSNSLFDGDRLKPALGHSWSHAVTTRLFLSKGRGSERVATIVKSPSLPEG  241 (256)
T ss_dssp             HHHHHHHHHHHHHHHTT-EEEEEEEECSSTT----SSTTSEEETTHHHHHHHSSEEEEEEECSTTEEEEEEEECSSSSSE
T ss_pred             HHHHHHHHHHHHHHhCCceEEeeceeeecCCcccccccccceecCcchhhhhccEEEEEEeCCCCeEEEEEeECCCCCCc
Confidence            999999999999999999999999999887764 4556778999999999999999999998888999999999999999


Q ss_pred             cccccceeeeeEEEeCCCccCCC
Q 047388          329 EAISFSYHIILIKITPGGIADAK  351 (352)
Q Consensus       329 ~~~~~~~~~~~f~I~~~Gi~~~~  351 (352)
                      ++.        |.|+++||+|++
T Consensus       242 ~~~--------f~It~~Gi~d~~  256 (256)
T PF08423_consen  242 SAS--------FQITEDGIRDVK  256 (256)
T ss_dssp             EEE--------EEEETTEEEE--
T ss_pred             eEE--------EEEeCCCccCCC
Confidence            887        999999999974

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 ....

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=100.00  E-value=1.7e-51  Score=384.69  Aligned_cols=312  Identities=48%  Similarity=0.772  Sum_probs=282.1

Q ss_pred             hhhcHHHHHhCCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHHHHhhc-CCCchhhhHHhhhcc
Q 047388           27 LFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNF-GYITGSDALLRRKAV  105 (352)
Q Consensus        27 ~~~~~~~l~~~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~  105 (352)
                      .+.++..+  +|+.+...++|.++||.|+++++..++.+|.+..|++++.+.++++.+...+.. ++.++.+++..+.+.
T Consensus         4 ~~~~l~~l--~gIg~~~a~~L~~~Gi~t~~dl~~~~~~~L~~~~g~~~~~a~~l~~~a~~~~~~~~~~t~~~l~~~~ks~   81 (317)
T PRK04301          4 KEKDLEDL--PGVGPATAEKLREAGYDTVEAIAVASPKELSEAAGIGESTAAKIIEAAREAADIGGFETALEVLERRKNV   81 (317)
T ss_pred             ccccHhhc--CCCCHHHHHHHHHcCCCCHHHHHcCCHHHHHHhcCCCHHHHHHHHHHHHHhhccccCccHHHHHHhhccC
Confidence            35567776  899999999999999999999999999999999999999999999988877655 688888887766778


Q ss_pred             cccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcC
Q 047388          106 IKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFG  185 (352)
Q Consensus       106 ~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~  185 (352)
                      .+++||++.||++|+||+++|.+++|+|+||+|||+||++++.+++.+...|+.+++|+||++|++|+++|+.+++++++
T Consensus        82 ~~~~Tg~~~lD~~l~GGi~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~~~~~~g  161 (317)
T PRK04301         82 GKITTGSKELDELLGGGIETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQMAEALG  161 (317)
T ss_pred             CccCCCCHHHHHHhcCCccCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHHHHHHcC
Confidence            89999999999999999999999999999999999999999999998888888889999999999999999999999999


Q ss_pred             CCcccccccEEEEecCCHHHHHHHHHHHHHHhhc-CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHH
Q 047388          186 MDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSE-EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEE  264 (352)
Q Consensus       186 ~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~-~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~  264 (352)
                      ++++.+++++.++++.+..++..++..+...+.+ .++++|||||++++++.++.++++..+|++.+.+++..|+++|++
T Consensus       162 ~~~~~~l~~i~~~~~~~~~~~~~~~~~l~~~i~~~~~~~lvVIDSisa~~~~~~~~~~~~~~r~~~l~~~~~~L~~la~~  241 (317)
T PRK04301        162 LDPDEVLDNIHVARAYNSDHQMLLAEKAEELIKEGENIKLVIVDSLTAHFRAEYVGRGNLAERQQKLNKHLHDLLRLADL  241 (317)
T ss_pred             CChHhhhccEEEEeCCCHHHHHHHHHHHHHHHhccCceeEEEEECchHHhhhhccCCccHHHHHHHHHHHHHHHHHHHHH
Confidence            9998889999999998888887777777777776 689999999999999988777667778888788999999999999


Q ss_pred             hCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeecCCeEEEEEEeCCCCCcccccccceeeeeEEEeC
Q 047388          265 FNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITP  344 (352)
Q Consensus       265 ~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~~~R~~~i~Ks~~~~~~~~~~~~~~~~~f~I~~  344 (352)
                      +|++||+|||+...++.  +.+++..|++|..|.|++++||.|++.++..|+++++|+|++|++++.        |.|++
T Consensus       242 ~~vavl~tnqv~~~~~~--~~~~~~~~~~G~~~~~~~~~rl~l~k~~~~~R~~~v~k~~~~~~~~~~--------f~I~~  311 (317)
T PRK04301        242 YNAAVVVTNQVMARPDA--FFGDPTQPIGGHILGHTATFRIYLRKSKGNKRIARLVDSPHLPEGEAV--------FRITE  311 (317)
T ss_pred             hCCEEEEeceEEecccc--ccCccccCCcchHhHhheeEEEEEEecCCCceEEEEEeCCCCCCceEE--------EEEeC
Confidence            99999999999886532  236777899999999999999999998788999999999999999887        99999


Q ss_pred             CCccCC
Q 047388          345 GGIADA  350 (352)
Q Consensus       345 ~Gi~~~  350 (352)
                      +||.+.
T Consensus       312 ~Gi~~~  317 (317)
T PRK04301        312 EGIRDA  317 (317)
T ss_pred             CcccCC
Confidence            999863

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=100.00  E-value=9.6e-51  Score=379.13  Aligned_cols=303  Identities=50%  Similarity=0.807  Sum_probs=274.2

Q ss_pred             CCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHHHHhhc-CCCchhhhHHhhhcccccccCChhh
Q 047388           37 QGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNF-GYITGSDALLRRKAVIKITTGSQAL  115 (352)
Q Consensus        37 ~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~i~TG~~~L  115 (352)
                      +|+++..+++|.++||.|+++++..++.+|.+++|++.+.+.+++..+.+.+.. .+.++.+++..+.....++||++.+
T Consensus         5 ~gig~~~~~~L~~~Gi~ti~dl~~~~~~~L~~~~g~~~~~a~~l~~~~~~~~~~~~~~t~~~~~~~~~s~~~~~Tg~~~l   84 (310)
T TIGR02236         5 PGVGPATAEKLREAGYDTFEAIAVASPKELSEIAGISEGTAAKIIQAARKAADLGGFETADDVLERRKTIGKITTGSKEL   84 (310)
T ss_pred             CCCCHHHHHHHHHcCCCCHHHHHcCCHHHHHhccCCCHHHHHHHHHHHHHHhhccCCCCHHHHHHhhccCCeecCCCHHH
Confidence            899999999999999999999999999999999999998899998888866544 4678888877777788999999999


Q ss_pred             HHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccE
Q 047388          116 DELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNI  195 (352)
Q Consensus       116 D~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i  195 (352)
                      |.+|+||++.|.+++|+|+||+|||+||+++|.+++.|...|+.+++|+||++|++|+++|+.++++.++++.+.+++++
T Consensus        85 D~~l~GGi~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~~~~~~~gl~~~~~~~~i  164 (310)
T TIGR02236        85 DELLGGGIETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIMQMAEARGLDPDEVLKNI  164 (310)
T ss_pred             HHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHHHHHHHcCCCHHHHhhce
Confidence            99999999999999999999999999999999999998888877789999999999999999999999999988888899


Q ss_pred             EEEecCCHHHHHHHHHHHHHHhhcC--CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEc
Q 047388          196 IYARAYTYEHQYNLLLGLAAKMSEE--PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTN  273 (352)
Q Consensus       196 ~~~~~~~~~~~~~~l~~l~~~l~~~--~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~  273 (352)
                      .+.+..+...+..++..+...+.+.  ++++|||||++++++.++.++++..+|++.+.+++..|+.+|++++++||+||
T Consensus       165 ~i~~~~~~~~~~~lld~l~~~i~~~~~~~~lVVIDSisa~~r~e~~~~~~~~~r~~~l~~~~~~L~~~a~~~~~~v~~tn  244 (310)
T TIGR02236       165 YVARAYNSNHQMLLVEKAEDLIKELNNPVKLLIVDSLTSHFRAEYVGRGALAERQQKLNKHLHDLLRLADLYNAAVVVTN  244 (310)
T ss_pred             EEEecCCHHHHHHHHHHHHHHHHhcCCCceEEEEecchHhhhHhhcCchhHHHHHHHHHHHHHHHHHHHHHhCcEEEEec
Confidence            9999988887777777777777665  48999999999999988877777888888888999999999999999999999


Q ss_pred             ccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeecCCeEEEEEEeCCCCCcccccccceeeeeEEEeCCCccC
Q 047388          274 QVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIAD  349 (352)
Q Consensus       274 h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~~~R~~~i~Ks~~~~~~~~~~~~~~~~~f~I~~~Gi~~  349 (352)
                      |+++.+++  +.+++..|+||..|+|++++||.|++.++..|.+++.|||+.|++++.        |+|+++||.+
T Consensus       245 qv~~~~~~--~~~~~~~~~~G~~~~h~~~~rl~l~~~~~~~R~~~~~k~~~~~~~~~~--------f~i~~~Gi~~  310 (310)
T TIGR02236       245 QVMARPDA--FFGDPTRPIGGHILGHAATFRVYLRKGKGDKRIARLVDSPHLPEGEAV--------FRITEKGIED  310 (310)
T ss_pred             eeeecCcc--ccCccccCCcchhhhhheeEEEEEEecCCCeEEEEEEECCCCCCeeEE--------EEEeCCCccC
Confidence            99986543  336677899999999999999999997778899999999999999998        9999999975

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.

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=100.00  E-value=3.3e-41  Score=302.92  Aligned_cols=233  Identities=62%  Similarity=0.983  Sum_probs=206.3

Q ss_pred             cccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCC
Q 047388          108 ITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMD  187 (352)
Q Consensus       108 i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~  187 (352)
                      ++||++.||++|+||+++|++++|+|+||+|||+||++++.+++.+..++|.+.+|+||++|+.+++.|+.+++++++++
T Consensus         1 ~~tG~~~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~~~~~~~~~~   80 (235)
T cd01123           1 LTTGSKALDELLGGGIETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLVQIAERFGLD   80 (235)
T ss_pred             CCCCchhhHhhccCCCCCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHHHHHHHhccC
Confidence            58999999999999999999999999999999999999999988877677778999999999999999999999999999


Q ss_pred             cccccccEEEEecCCHHHHHHHHHHHHHHhhcC-CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhC
Q 047388          188 PGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEE-PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFN  266 (352)
Q Consensus       188 ~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~-~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~  266 (352)
                      ++.+++++.+.+.++..++...+..+...+.+. ++++|||||++++++.++.+.++..+|++.+.+++..|+++|++++
T Consensus        81 ~~~~~~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~liVIDSis~~~~~~~~~~~~~~~r~~~l~~~~~~L~~la~~~~  160 (235)
T cd01123          81 PEEVLDNIYVARAYNSDHQLQLLEELEAILIESSRIKLVIVDSVTALFRAEFDGRGELAERQQHLAKLLRTLKRLADEFN  160 (235)
T ss_pred             hHhHhcCEEEEecCCHHHHHHHHHHHHHHHhhcCCeeEEEEeCcHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHhC
Confidence            888999999999999888888888888888888 9999999999999886665544456777888999999999999999


Q ss_pred             cEEEEEcccccCCCCC-cccCCCCCCCcchhhhhccceEEEEEeecCCeEEEEEEeCCCCCcccccccceeeeeEEEeCC
Q 047388          267 VAVYMTNQVIADPGGG-VFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPG  345 (352)
Q Consensus       267 ~~viv~~h~~~~~~~~-~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~~~R~~~i~Ks~~~~~~~~~~~~~~~~~f~I~~~  345 (352)
                      ++||+|||+....++. .+.++..+|++|..|.|++++|+++++..+..|.++|.|+|..|.....        |+|+++
T Consensus       161 ~avl~tn~~~~~~~~~~~~~~~~~~p~lG~~w~~~v~~Rl~l~~~~~~~r~~~i~k~~~~~~~~~~--------f~It~~  232 (235)
T cd01123         161 VAVVITNQVTARPDGAAMFGGDPKKPAGGNIWAHASTTRLYLRKGRGEERIAKIVDSPHLPEGEAV--------FAITEE  232 (235)
T ss_pred             CEEEEeccEeecCCcccccCCCCeeccCccHhhCCceEEEEEEECCCCceEEEEeeCCCCCCceEE--------EEEeCC
Confidence            9999999998765432 1223455799999999999999999998777899999999999966565        999999


Q ss_pred             Ccc
Q 047388          346 GIA  348 (352)
Q Consensus       346 Gi~  348 (352)
                      ||+
T Consensus       233 Gi~  235 (235)
T cd01123         233 GIR  235 (235)
T ss_pred             ccC
Confidence            985

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 .

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=100.00  E-value=8.3e-40  Score=294.86  Aligned_cols=256  Identities=37%  Similarity=0.480  Sum_probs=220.1

Q ss_pred             CCHHHHHHHHHHHHHHhhcC-CCchhhhHHhhhcccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388           72 LSEAKVEKICEAAEKIVNFG-YITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus        72 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      .+...+.++...+.+....+ +..+............++||+..||.+|+||+|+|.|++|+||+||||||+|+|+++++
T Consensus         5 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~TGs~~LD~~LGGGl~~g~ItEiyG~~gsGKT~lal~~~~~a   84 (279)
T COG0468           5 IDEEKALEAALAQIEKAFGKGSIMALGGDERREDIEAISTGSLALDEALGGGLPRGRITEIYGPESSGKTTLALQLVANA   84 (279)
T ss_pred             chhhhHHHHHHHHHHHhhcccchhhhhHHHHhhccccccccchhHHHHhcCCcccceEEEEecCCCcchhhHHHHHHHHh
Confidence            34444555555544444322 33333333344568899999999999999999999999999999999999999999999


Q ss_pred             cCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEccc
Q 047388          151 QLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSV  230 (352)
Q Consensus       151 ~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl  230 (352)
                      +.      .+++|+|||+|+.|+++|+++++...       ++++.+.++++.+++.+++..+.....+ ++++|||||+
T Consensus        85 q~------~g~~a~fIDtE~~l~p~r~~~l~~~~-------~d~l~v~~~~~~e~q~~i~~~~~~~~~~-~i~LvVVDSv  150 (279)
T COG0468          85 QK------PGGKAAFIDTEHALDPERAKQLGVDL-------LDNLLVSQPDTGEQQLEIAEKLARSGAE-KIDLLVVDSV  150 (279)
T ss_pred             hc------CCCeEEEEeCCCCCCHHHHHHHHHhh-------hcceeEecCCCHHHHHHHHHHHHHhccC-CCCEEEEecC
Confidence            98      56799999999999999999998775       4899999999999999998887777665 7999999999


Q ss_pred             ccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEee
Q 047388          231 IALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKG  310 (352)
Q Consensus       231 ~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~  310 (352)
                      +++++.++.+++.+..|++.+.+.++.|..++++++++||++||+..+++. +| +++..|.||+.+.|+++.|+.+++.
T Consensus       151 aa~~r~~~~~d~~~~~~~r~ls~~l~~L~~~a~~~~~~vi~~NQv~~k~~~-~f-~~~~~~~GG~~L~~~as~rl~l~k~  228 (279)
T COG0468         151 AALVRAEEIEDGHLGLRARLLSKALRKLTRLANKYNTAVIFTNQVRAKIGV-MF-GDPETTTGGNALKFYASVRLDLRRI  228 (279)
T ss_pred             cccchhhhcCcchHHHHHHHHHHHHHHHHHHHHHcCcEEEEECceeeecCc-cc-CCcccCCCchHHHhhhheEEEEeec
Confidence            999999888777889999999999999999999999999999999997754 34 5788999999999999999999998


Q ss_pred             ------cCCeEEEEEEeCCCCCcc-cccccceeeeeEEEeCCCccCCC
Q 047388          311 ------KGEQRVCKVFDAPNLPEA-EAISFSYHIILIKITPGGIADAK  351 (352)
Q Consensus       311 ------~~~~R~~~i~Ks~~~~~~-~~~~~~~~~~~f~I~~~Gi~~~~  351 (352)
                            .+..|.++++|+|..|+. ++.        |.|+.+|+.+..
T Consensus       229 ~~~~~~~g~~r~~~vvk~~~~p~~~~a~--------f~I~~~~~~~~~  268 (279)
T COG0468         229 ESLKEDVGNKRRVKVVKNKVAPPFKEAE--------FDITYGGGIDRE  268 (279)
T ss_pred             cccccccCCeEEEEEEeCCCCCCCceeE--------EEeecCcccccc
Confidence                  789999999999999998 676        999999998864

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

Probab=100.00  E-value=1.3e-37  Score=277.99  Aligned_cols=222  Identities=57%  Similarity=0.856  Sum_probs=193.9

Q ss_pred             cccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCC
Q 047388          108 ITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMD  187 (352)
Q Consensus       108 i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~  187 (352)
                      ++||++.||++|+||+++|++++|+|+||+|||+||++++.+.+.+.+.+|.+.+|+||++|+.+++.++.++++.++.+
T Consensus         1 i~tG~~~lD~~l~GG~~~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~~~~~rl~~~~~~~~~~   80 (226)
T cd01393           1 ISTGSKALDELLGGGIPTGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGAFRPERLVQLAVRFGLD   80 (226)
T ss_pred             CCCCcHHHHHHhCCCCcCCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCCCCHHHHHHHHHHhccc
Confidence            68999999999999999999999999999999999999999988766666677999999999999999999999999888


Q ss_pred             cccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCc
Q 047388          188 PGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNV  267 (352)
Q Consensus       188 ~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~  267 (352)
                      ++.+++|+.+.+..+.+++...+..+.......++++|||||++.+++..+.+.+...+|++.+.++++.|+.+|+++++
T Consensus        81 ~~~~~~~i~~~~~~~~~~~~~~l~~~~~~~~~~~~~lvVIDsis~l~~~~~~~~~~~~~~~~~l~~~~~~L~~~a~~~~~  160 (226)
T cd01393          81 PEEVLDNIYVARPYNGEQQLEIVEELERIMSSGRVDLVVVDSVAALFRKEFIGRGMLAERARLLSQALRKLLRLADKFNV  160 (226)
T ss_pred             hhhhhccEEEEeCCCHHHHHHHHHHHHHHhhcCCeeEEEEcCcchhhhhhhcCCchHHHHHHHHHHHHHHHHHHHHHhCc
Confidence            88888999999999988888887777665556789999999999998876554434567777888999999999999999


Q ss_pred             EEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeecC---CeEEEEEEeCCCCCccccc
Q 047388          268 AVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKG---EQRVCKVFDAPNLPEAEAI  331 (352)
Q Consensus       268 ~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~---~~R~~~i~Ks~~~~~~~~~  331 (352)
                      +||++||++...++.  .+++..|+||..|+|++++||.|++..+   ..|.++++|+|..|++++.
T Consensus       161 ~vi~tnq~~~~~~~~--~~~~~~p~~G~~~~~~~~~ri~l~~~~~~~~~~r~~~~~k~~~~~~~~~~  225 (226)
T cd01393         161 AVVFTNQVRAKVDVM--FGDPETPAGGNALAHASTTRLDLRKGRGIIGERRIAKVVKSPALPEAEAE  225 (226)
T ss_pred             EEEEEEEEeeecccc--cCCCccccCchhhhCcccEEEEEEecCCccCcEEEEEEEeCCCCCCcccc
Confidence            999999999865432  2345679999999999999999998765   6899999999999998775

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.

>KOG1564 consensus DNA repair protein RHP57 [Replication, recombination and repair]

Probab=100.00  E-value=9.4e-38  Score=272.78  Aligned_cols=286  Identities=29%  Similarity=0.397  Sum_probs=220.2

Q ss_pred             hhhhhcCChhhHHhhhCCCHHHHHHHHHHHHHH-hhcCCCchhhhHHhhhcccccccCChhhHHhhcCCCCCCcEEEEec
Q 047388           55 CNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKI-VNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFG  133 (352)
Q Consensus        55 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G  133 (352)
                      ..|++..++.+|.++...+..+...++..+... ...-....  ......+...++||+..||+.|+||++.+.||+|+|
T Consensus        32 ~vdfltlt~~sl~r~~h~s~~e~lr~~~~li~q~~~~~~e~~--~~~s~~~~~~lttgc~~LD~~L~GGi~~~giTEi~G  109 (351)
T KOG1564|consen   32 KVDFLTLTQQSLHRIVHKSTPEDLRVLKDLIMQNLKLKPENL--CSRSKTNRSKLTTGCVALDECLRGGIPTDGITEICG  109 (351)
T ss_pred             cccceecChhHHHHHHHhccHHHHHHHHHHHHHHHHhcchhh--hccccCCchhcccccHHHHHHhcCCcccccHHHHhh
Confidence            345666677777777665544433333222211 11001110  001112235699999999999999999999999999


Q ss_pred             CCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCc--c---ccccc----EEEEecCCHH
Q 047388          134 EFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDP--G---AVLDN----IIYARAYTYE  204 (352)
Q Consensus       134 ~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~--~---~~~~~----i~~~~~~~~~  204 (352)
                      ++|+|||+||+|++..+++|...||.+++++||.||.+|+..|+.+++..+.-.+  +   .+.+|    |++..+.+.+
T Consensus       110 eSg~GKtQL~lQL~L~VQLp~~~GGL~~~~vYI~TE~~fP~rRL~qL~~~~~~rp~~~~~~~~~~Npgd~IFv~~~~d~d  189 (351)
T KOG1564|consen  110 ESGCGKTQLLLQLSLCVQLPRSHGGLGGGAVYICTESPFPTRRLHQLSHTLPQRPNPEKELNYNDNPGDHIFVENVHDVD  189 (351)
T ss_pred             ccCCcHHHHHHHHHHHhhCchhhCCCCCceEEEEcCCCCcHHHHHHHHHhcccCCCcchhhhhccCCCceEEEEeccchh
Confidence            9999999999999999999999999999999999999999999988887653222  1   12344    8888888888


Q ss_pred             HHHHHHH-HHHHHhhcCCceEEEEcccccchhcccCC-CcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCC
Q 047388          205 HQYNLLL-GLAAKMSEEPFRLLIVDSVIALFRVDFTG-RGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGG  282 (352)
Q Consensus       205 ~~~~~l~-~l~~~l~~~~~~lvvIDsl~~l~~~~~~~-~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~  282 (352)
                      .+.+++. ++...+.+.++++|||||+++.|+.++.. +.++..|.+.+.++...|+.+|.+++++||++||++...+..
T Consensus       190 ~l~~iv~~qlPiL~~r~~i~LVIiDSVAa~fR~E~d~~~Sdl~~r~~~l~rla~~Lr~LA~~~~~aVV~~NQVtd~~~~~  269 (351)
T KOG1564|consen  190 HLLHIVNRQLPILLNRKKIKLVIIDSVAALFRSEFDYNPSDLKKRARHLFRLAGKLRQLASKFDLAVVCANQVTDRVETS  269 (351)
T ss_pred             hHHHHHhhhccceeccCcceEEEEehhhHHHHHHhccChhhhhhHHHHHHHHHHHHHHHHHhcCccEEEeeccccccccc
Confidence            8888765 55666777799999999999999987752 235668888999999999999999999999999999864321


Q ss_pred             -----cccCC--------CCCCCcchhhhhccceEEEEEeec---------CCeEEEEEEeCCCCCcccccccceeeeeE
Q 047388          283 -----VFISD--------PKKPAGGHVLAHAVTIRLMFRKGK---------GEQRVCKVFDAPNLPEAEAISFSYHIILI  340 (352)
Q Consensus       283 -----~~~~~--------~~~~~gg~~~~~~~~~~i~L~~~~---------~~~R~~~i~Ks~~~~~~~~~~~~~~~~~f  340 (352)
                           .+.+|        -..|.+|-.|+|...+|+.+.|..         ...|.++|+-||+.|+..+.        |
T Consensus       270 ~~~~~l~~~d~r~~w~sgw~vPsLGL~WaN~v~tRl~l~r~~k~~~sa~~~~~~R~l~VvySp~~p~~~~~--------~  341 (351)
T KOG1564|consen  270 DDLSGLRIGDYRYLWSSGWVVPSLGLTWANCVSTRLLLSRSTKNCDSAVSRSAKRTLRVVYSPYLPPSSCE--------F  341 (351)
T ss_pred             cccCCccccchhhccccccccccccceeccccceeeeeeeccccccchhhcccceEEEEEecCCCCCcceE--------E
Confidence                 11111        157999999999999999999831         14699999999999999998        9


Q ss_pred             EEeCCCccCC
Q 047388          341 KITPGGIADA  350 (352)
Q Consensus       341 ~I~~~Gi~~~  350 (352)
                      .|+.+||..+
T Consensus       342 ~It~eGI~~~  351 (351)
T KOG1564|consen  342 MITAEGICAV  351 (351)
T ss_pred             EEecceEecC
Confidence            9999999764

>KOG1433 consensus DNA repair protein RAD51/RHP55 [Replication, recombination and repair]

Probab=100.00  E-value=4.5e-39  Score=294.12  Aligned_cols=308  Identities=48%  Similarity=0.704  Sum_probs=273.2

Q ss_pred             cccchhhhcHHHHHhCCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHHHHhhcCCCchhhhHHh
Q 047388           22 DDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLR  101 (352)
Q Consensus        22 ~~~~~~~~~~~~l~~~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  101 (352)
                      ++.+.++.++..+...++++.++..|+.+++.++.++.....+++..+.+++.....+....+....+.       + +.
T Consensus        15 ~~~~~~~~~~~~~~~~~ita~~v~~l~~~~l~~v~~l~~~~~~el~~i~~~s~~~~~k~~~~l~~~~~~-------~-~~   86 (326)
T KOG1433|consen   15 EEIGLSPAPVRFLLAGGITAEDVLLLSEGELSTVEGLAYAGKEELLLIIGLSEAKSGKTVLGLHKLVPM-------L-QL   86 (326)
T ss_pred             HhcccCccchhhhhcccccHhhhhhhcccceEEEeccccCcchhheeeeeecccccccHHHHHHHhhHH-------H-Hh
Confidence            444445558999999999999999999999999999999999999999999988777776666655442       2 44


Q ss_pred             hhcccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHH
Q 047388          102 RKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIA  181 (352)
Q Consensus       102 ~~~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~  181 (352)
                      +.....++||+.+||++|+||++.|.+++|+||||+|||+||+.++..+      |+..++++|||++..|.+.++..++
T Consensus        87 ~~~~~~l~Tg~~~lD~lL~gGi~~g~~TEi~G~p~~GKtQlc~~~~v~~------~gge~~~l~IDs~s~~~~~~~~~ia  160 (326)
T KOG1433|consen   87 RSELGFLSTGSKALDKLLGGGIETGSLTELVGPPGSGKTQLCHTLAVTC------GGGEGKVLYIDTESTFRLERLTEIA  160 (326)
T ss_pred             hccceeeccchhhhhHhhccCcccCceeEEecCCCccHHHHHHHHHHhc------cCCcceEEEEecchhcccchhhhhh
Confidence            5667889999999999999999999999999999999999999888765      4578999999999999999999999


Q ss_pred             HHcCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHH
Q 047388          182 ERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKI  261 (352)
Q Consensus       182 ~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~l  261 (352)
                      .+++.....+.+++.+.+.++..+.......+...+.+....++++||.++.++.++.+++++.+|+..+...++.|+++
T Consensus       161 ~~~~~~~~~~~~~l~~~~~~~~~~~l~~~~~a~~~~~~~~~~l~~vds~ta~~~~~~~g~~~~~a~~~~~~~~~~~l~~l  240 (326)
T KOG1433|consen  161 GRSGLRGRDTLSNLMLARAYNLDHQLQLIQEAEIMINQSRVKLLIVDSATALYRTTFKGRGELSARQMLLAKFLRSLKKL  240 (326)
T ss_pred             hhhhhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhccceeEEEecccccccccccccccchHHHHHHHHHHHHHHHHH
Confidence            99988876666777777777777777777766666666788999999999999999988888999999999999999999


Q ss_pred             HHHhCcEEEEEcccccCCCCC-cccCCCCCCCcchhhhhccceEEEEEeecCCeEEEEEEeCCCCCcccccccceeeeeE
Q 047388          262 SEEFNVAVYMTNQVIADPGGG-VFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILI  340 (352)
Q Consensus       262 a~~~~~~viv~~h~~~~~~~~-~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~~~R~~~i~Ks~~~~~~~~~~~~~~~~~f  340 (352)
                      +++++++||++||++.+.++. +|..++.+|++|..|+|.+++|+.+++.+++.|++++.++|..|++++.        |
T Consensus       241 a~~~g~~vvitn~v~~~~d~~~~f~~~~~~~~~~~~~~H~~~tr~~~~~~~g~~~~~k~~~s~~l~e~~~~--------~  312 (326)
T KOG1433|consen  241 ADEFGVAVVITNQVTAQVDGAIMFGSDPKKPIGGNIWAHAVTTRLGLRKGKGERRICKIADSPCLPEAEAV--------F  312 (326)
T ss_pred             HHhcCceEEEecccccccccccccCcccccccccchHHHHHHHHHHHHhccccchhhhhhcCCCCCcchhH--------H
Confidence            999999999999999998886 8888889999999999999999999998889999999999999999999        9


Q ss_pred             EEeCCCccCCC
Q 047388          341 KITPGGIADAK  351 (352)
Q Consensus       341 ~I~~~Gi~~~~  351 (352)
                      +|.+.|+.+..
T Consensus       313 ~i~~~g~~~~~  323 (326)
T KOG1433|consen  313 AITEDGISDQR  323 (326)
T ss_pred             HHHhhhhhhhh
Confidence            99999998854

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=100.00  E-value=1.6e-36  Score=270.81  Aligned_cols=223  Identities=33%  Similarity=0.488  Sum_probs=186.7

Q ss_pred             cccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcC
Q 047388          106 IKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFG  185 (352)
Q Consensus       106 ~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~  185 (352)
                      ++++||+++||++|+||+++|.+++|+|+||+|||+||++++.+++.      .+.+|+||++| .++++++.+++..  
T Consensus         3 ~~i~tGi~~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~la~~~~~------~~~~v~yi~~e-~~~~~r~~~~~~~--   73 (225)
T PRK09361          3 ERLPTGCKMLDELLGGGFERGTITQIYGPPGSGKTNICLQLAVEAAK------NGKKVIYIDTE-GLSPERFKQIAGE--   73 (225)
T ss_pred             ccccCCcHHHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHH------CCCeEEEEECC-CCCHHHHHHHHhh--
Confidence            46999999999999999999999999999999999999999999876      57899999999 7888888887765  


Q ss_pred             CCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHh
Q 047388          186 MDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEF  265 (352)
Q Consensus       186 ~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~  265 (352)
                       +++.+++++.+.++.+..++.+.+..+...+. .++++|||||++++++.++.+.++..++.+.+.+++..|+++|+++
T Consensus        74 -~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~-~~~~lvVIDsi~al~~~~~~~~~~~~~~~~~l~~~l~~L~~~a~~~  151 (225)
T PRK09361         74 -DFEELLSNIIIFEPSSFEEQSEAIRKAEKLAK-ENVGLIVLDSATSLYRLELEDEEDNSKLNRELGRQLTHLLKLARKH  151 (225)
T ss_pred             -ChHhHhhCeEEEeCCCHHHHHHHHHHHHHHHH-hcccEEEEeCcHHHhHHHhcCCccHHHHHHHHHHHHHHHHHHHHHh
Confidence             45556788989988888887777776666554 6899999999999987654333344555566788888899999999


Q ss_pred             CcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeecCCeEEEEEEeCCCCCcccccccceeeeeEEEeCC
Q 047388          266 NVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPG  345 (352)
Q Consensus       266 ~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~~~R~~~i~Ks~~~~~~~~~~~~~~~~~f~I~~~  345 (352)
                      |++||++||+....++.     +.+|++|..|+|+++.++.|++..++.|.+.+.|+|..+++...       +|+|+++
T Consensus       152 ~v~vi~tnq~~~~~~~~-----~~~~~gg~~~~~~~d~ii~l~~~~~~~r~~~i~k~~~~~~~~~~-------~f~It~~  219 (225)
T PRK09361        152 DLAVVITNQVYSDIDSD-----GLRPLGGHTLEHWSKTILRLEKFRNGKRRATLEKHRSRPEGESA-------EFRITDR  219 (225)
T ss_pred             CCEEEEEccceecCCCC-----cccCCCcchhhhhccEEEEEEEccCCeEEEEEEECCCCCCCCeE-------EEEEeCC
Confidence            99999999998754321     34588999999999999999997778899999999988875543       5999999


Q ss_pred             CccCCC
Q 047388          346 GIADAK  351 (352)
Q Consensus       346 Gi~~~~  351 (352)
                      ||+.++
T Consensus       220 Gi~~~~  225 (225)
T PRK09361        220 GIEIID  225 (225)
T ss_pred             cEecCC
Confidence            998764

>cd01394 radB RadB

Probab=100.00  E-value=2.2e-34  Score=255.78  Aligned_cols=218  Identities=33%  Similarity=0.472  Sum_probs=172.9

Q ss_pred             cccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCC
Q 047388          108 ITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMD  187 (352)
Q Consensus       108 i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~  187 (352)
                      ++||+++||.+|+|||++|.+++|+|+||+|||+||+++|.+++.      .+++|+|+++|..+. +++++++...   
T Consensus         1 i~TGi~~LD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~~a~~~~~------~g~~v~yi~~e~~~~-~~~~~~~~~~---   70 (218)
T cd01394           1 LPTGCKGLDELLGGGVERGTVTQVYGPPGTGKTNIAIQLAVETAG------QGKKVAYIDTEGLSS-ERFRQIAGDR---   70 (218)
T ss_pred             CCcchhHHHHHhcCCccCCeEEEEECCCCCCHHHHHHHHHHHHHh------cCCeEEEEECCCCCH-HHHHHHHhHC---
Confidence            689999999999999999999999999999999999999998875      678999999998765 6677766543   


Q ss_pred             cccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCc
Q 047388          188 PGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNV  267 (352)
Q Consensus       188 ~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~  267 (352)
                      .+.+..++.+.++.+..++...+..+...+. .++++|||||++++++.+.........+++.+.+++..|+.+|+++++
T Consensus        71 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~lvvIDsi~~l~~~~~~~~~~~~~~~~~l~~~~~~L~~~a~~~~~  149 (218)
T cd01394          71 PERAASSIIVFEPMDFNEQGRAIQETETFAD-EKVDLVVVDSATALYRLELGDDDTTIKNYRELAKQLTFLLWLARKHDV  149 (218)
T ss_pred             hHhhhcCEEEEeCCCHHHHHHHHHHHHHHHh-cCCcEEEEechHHhhhHHhcCccchHHHHHHHHHHHHHHHHHHHHhCC
Confidence            2334567888888777666666666654443 358999999999998755432212234455677888899999999999


Q ss_pred             EEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeecCCeEEEEEEeCCCCCcccccccceeeeeEEEeCCCc
Q 047388          268 AVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGI  347 (352)
Q Consensus       268 ~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~~~R~~~i~Ks~~~~~~~~~~~~~~~~~f~I~~~Gi  347 (352)
                      +||++||++...++     .+..|.||..|+|++|++|.|++..+..|.+.+.|+|..++++..       .|+|+++||
T Consensus       150 ~vi~t~q~~~~~~~-----~~~~p~~g~~~~~~~d~~i~l~~~~~~~r~~~~~~~~~~~~~~~~-------~f~It~~Gi  217 (218)
T cd01394         150 AVVITNQVYSDVGS-----GSVRPLGGHTLEHWSKVILRLEKLRVGTRRAVLEKHRFRPEGSSV-------YFRITDKGI  217 (218)
T ss_pred             EEEEecCCEEcCCC-----CcccccCCcchhcceeEEEEEEEcCCCeEEEEEeeCCCCCCCceE-------EEEEeCCcc
Confidence            99999999875532     234688999999999999999987766676667788887766533       599999998


Q ss_pred             c
Q 047388          348 A  348 (352)
Q Consensus       348 ~  348 (352)
                      +
T Consensus       218 ~  218 (218)
T cd01394         218 E  218 (218)
T ss_pred             C
Confidence            5

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

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=100.00  E-value=2.4e-33  Score=247.50  Aligned_cols=209  Identities=34%  Similarity=0.547  Sum_probs=174.0

Q ss_pred             hHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCccccccc
Q 047388          115 LDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDN  194 (352)
Q Consensus       115 LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~  194 (352)
                      ||++|+||+|+|.+++|+|+||+|||+||++++.+.+.      .+.+|+||++|. +++.++.++++.+   ++.+.++
T Consensus         1 lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~~~~~~~~------~g~~v~yi~~e~-~~~~rl~~~~~~~---~~~~~~~   70 (209)
T TIGR02237         1 IDELLGGGVERGTITQIYGPPGSGKTNICMILAVNAAR------QGKKVVYIDTEG-LSPERFKQIAEDR---PERALSN   70 (209)
T ss_pred             ChhhhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHh------CCCeEEEEECCC-CCHHHHHHHHHhC---hHHHhcC
Confidence            79999999999999999999999999999999998875      578999999998 8899999988765   4455688


Q ss_pred             EEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcc
Q 047388          195 IIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQ  274 (352)
Q Consensus       195 i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h  274 (352)
                      +.++++.+..++...+..+...+...++++|||||++++++.+..+.  ...|.+.+.+++..|+++++++++++|+|||
T Consensus        71 i~~~~~~~~~~~~~~~~~l~~~~~~~~~~lvVIDSis~l~~~~~~~~--~~~~~~~l~~~~~~L~~~~~~~~v~vl~t~~  148 (209)
T TIGR02237        71 FIVFEVFDFDEQGVAIQKTSKFIDRDSASLVVVDSFTALYRLELSDD--RISRNRELARQLTLLLSLARKKNLAVVITNQ  148 (209)
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHhhcCccEEEEeCcHHHhHHHhCCc--cHHHHHHHHHHHHHHHHHHHHcCCEEEEEcc
Confidence            99999988888877777777777777899999999999987654332  1244456677888899999999999999999


Q ss_pred             cccCCCCCcccCCCCCCCcchhhhhccceEEEEEeecCCeEEEEEEeCCCCCcccccccceeeeeEEEeCCCcc
Q 047388          275 VIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIA  348 (352)
Q Consensus       275 ~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~~~R~~~i~Ks~~~~~~~~~~~~~~~~~f~I~~~Gi~  348 (352)
                      +....++     ....|++|..|++++|+++.|++.+ ..|.+.+.|+|..+.+...       .|.|+++||+
T Consensus       149 ~~~~~~~-----~~~~~~gg~~~~~~~d~vi~l~~~~-~~r~~~i~k~~~~~~~~~~-------~f~It~~Gi~  209 (209)
T TIGR02237       149 VYTDVNN-----GTLRPLGGHLLEHWSKVILRLEKFR-GRRLATLEKHRSRPEGESV-------YFRITDDGIE  209 (209)
T ss_pred             cEEecCC-----CCCcCCCcchhheeeeEEEEEEecC-CEEEEEEEECCCCCCCCeE-------EEEEeCCccC
Confidence            9865432     2245899999999999999999874 5688889999998875433       5999999985

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

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=5.4e-34  Score=262.48  Aligned_cols=261  Identities=21%  Similarity=0.325  Sum_probs=207.0

Q ss_pred             CCCchhhhhcCChhhHHhhhCCCHHH--HHHHHHHH-------HHHhhcCC--CchhhhHH-hhhcccccccCChhhHHh
Q 047388           51 GIYTCNGLMMHTKKHLTGIKGLSEAK--VEKICEAA-------EKIVNFGY--ITGSDALL-RRKAVIKITTGSQALDEL  118 (352)
Q Consensus        51 g~~t~~~~~~~~~~~l~~~~~~~~~~--~~~~~~~~-------~~~~~~~~--~~~~~~~~-~~~~~~~i~TG~~~LD~~  118 (352)
                      -.+.|.+|...+++|+.+|.++..+.  ++......       ......+-  .....+.+ ...+..+++||+.+||++
T Consensus         6 t~f~C~~CG~~s~KW~GkCp~Cg~Wns~vE~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~Ri~tg~~EldRV   85 (456)
T COG1066           6 TAFVCQECGYVSPKWLGKCPACGAWNTLVEEVLAASPGGAPNKRRSGKAGSEPSKVLKLSDIELEEEPRISTGIEELDRV   85 (456)
T ss_pred             cEEEcccCCCCCccccccCCCCCCccceEEeeccccccccccccccccccCCcccceeeccceeeecccccCChHHHHhh
Confidence            45789999999999999999998653  11110000       00000000  00011111 234567999999999999


Q ss_pred             hcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEE
Q 047388          119 LGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYA  198 (352)
Q Consensus       119 L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~  198 (352)
                      ||||+-+|++++|.|+||.|||||++|++...+.      .+ +|+|+++|.+  ..+++.++++++++.    +++++.
T Consensus        86 LGGG~V~Gs~iLIgGdPGIGKSTLLLQva~~lA~------~~-~vLYVsGEES--~~QiklRA~RL~~~~----~~l~l~  152 (456)
T COG1066          86 LGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAK------RG-KVLYVSGEES--LQQIKLRADRLGLPT----NNLYLL  152 (456)
T ss_pred             hcCCcccccEEEEccCCCCCHHHHHHHHHHHHHh------cC-cEEEEeCCcC--HHHHHHHHHHhCCCc----cceEEe
Confidence            9999999999999999999999999999998875      34 9999999988  777899999999876    788888


Q ss_pred             ecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCC-CcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          199 RAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTG-RGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       199 ~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~-~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      ...+.++...       .+.+.+|+++|||||+.++.++..+ .|..+|    +++....|.++||+.|++++++.|+++
T Consensus       153 aEt~~e~I~~-------~l~~~~p~lvVIDSIQT~~s~~~~SapGsVsQ----VRe~t~~L~~~AK~~~i~~fiVGHVTK  221 (456)
T COG1066         153 AETNLEDIIA-------ELEQEKPDLVVIDSIQTLYSEEITSAPGSVSQ----VREVAAELMRLAKTKNIAIFIVGHVTK  221 (456)
T ss_pred             hhcCHHHHHH-------HHHhcCCCEEEEeccceeecccccCCCCcHHH----HHHHHHHHHHHHHHcCCeEEEEEEEcc
Confidence            7777665443       3445789999999999999987653 355543    468999999999999999999999999


Q ss_pred             CCCCCcccCCCCCCCcchhhhhccceEEEEEeecC-CeEEEEEEeCCCCCcccccccceeeeeEEEeCCCccCCCC
Q 047388          278 DPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKG-EQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADAKD  352 (352)
Q Consensus       278 ~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~-~~R~~~i~Ks~~~~~~~~~~~~~~~~~f~I~~~Gi~~~~~  352 (352)
                        +|.        .||.+.++|++|++++|+.+++ ..|+++-+|||+++.++.       +.|+.+++|++.+.+
T Consensus       222 --eG~--------IAGPrvLEHmVDtVlyFEGd~~~~~RiLR~vKNRFG~t~Ei-------GvFeM~~~GL~eV~n  280 (456)
T COG1066         222 --EGA--------IAGPRVLEHMVDTVLYFEGDRHSRYRILRSVKNRFGATNEL-------GVFEMTENGLREVSN  280 (456)
T ss_pred             --ccc--------ccCchheeeeeeEEEEEeccCCCceeeeehhcccCCcccce-------eEEEEecCCeeEecC
Confidence              776        8999999999999999998654 679999999999999987       479999999998754

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

Probab=100.00  E-value=2.2e-32  Score=252.13  Aligned_cols=242  Identities=30%  Similarity=0.384  Sum_probs=186.5

Q ss_pred             HHHHHHHhhcCCCchhhhH---HhhhcccccccCChhhHHhhc-CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCcc
Q 047388           81 CEAAEKIVNFGYITGSDAL---LRRKAVIKITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNM  156 (352)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~---~~~~~~~~i~TG~~~LD~~L~-GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~  156 (352)
                      ++.+.+.....|..++-+.   .......+++||++.||.+|+ ||+|+|.+|+|+||||+|||+||++++.+++.    
T Consensus         6 ~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~isTGi~~LD~~Lg~GGlp~G~iteI~Gp~GsGKTtLal~~~~~~~~----   81 (325)
T cd00983           6 LELALKQIEKKFGKGSIMKLGDDAVQDVEVIPTGSLSLDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQK----   81 (325)
T ss_pred             HHHHHHHHHHHhCCcceEECccccccCCceecCCCHHHHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHH----
Confidence            3334444444444444332   123467899999999999999 99999999999999999999999999999886    


Q ss_pred             CCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchh-
Q 047388          157 RGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFR-  235 (352)
Q Consensus       157 gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~-  235 (352)
                        .++.|+|||+|+.+++.    .++++|++.    +++.+.++.+.++....+.   ..+.+..+++|||||++++++ 
T Consensus        82 --~g~~~vyId~E~~~~~~----~a~~lGvd~----~~l~v~~p~~~eq~l~i~~---~li~s~~~~lIVIDSvaal~~~  148 (325)
T cd00983          82 --LGGTVAFIDAEHALDPV----YAKKLGVDL----DNLLISQPDTGEQALEIAD---SLVRSGAVDLIVVDSVAALVPK  148 (325)
T ss_pred             --cCCCEEEECccccHHHH----HHHHcCCCH----HHheecCCCCHHHHHHHHH---HHHhccCCCEEEEcchHhhccc
Confidence              68899999999987764    677888886    6788888888777665554   345567899999999999986 


Q ss_pred             cccCCCc---chHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeec-
Q 047388          236 VDFTGRG---ELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGK-  311 (352)
Q Consensus       236 ~~~~~~g---~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~-  311 (352)
                      .++.++.   ....+.+.+.+.++.|..+++++++++|+|||+...++ .+| +++..+.||..|.|.+..|+.+++.. 
T Consensus       149 ~E~~~~~~~~~~~~qaR~l~~~Lr~L~~~~~k~~~~vI~tNQvr~~ig-~~~-g~~e~~~GG~~L~~~ss~rl~lrk~~~  226 (325)
T cd00983         149 AEIEGEMGDSHVGLQARLMSQALRKLTGSINKSNTTVIFINQLREKIG-VMF-GNPETTTGGNALKFYSSVRLDIRRIET  226 (325)
T ss_pred             ccccccccccchHHHHHHHHHHHHHHHHHHHhCCCEEEEEEccccccc-ccc-CCCccCCCchHHhhhcceEEEEEeecc
Confidence            4554321   11223345678889999999999999999999998653 344 57788999999999999999999853 


Q ss_pred             --------CCeEEEEEEeCCCCCcccccccceeeeeEEEeC-CCcc
Q 047388          312 --------GEQRVCKVFDAPNLPEAEAISFSYHIILIKITP-GGIA  348 (352)
Q Consensus       312 --------~~~R~~~i~Ks~~~~~~~~~~~~~~~~~f~I~~-~Gi~  348 (352)
                              |..+.++++||+..|+....       +|.|.= .||.
T Consensus       227 ~k~~~~~~G~~~~~~v~Knk~~~p~~~~-------~~~i~~~~Gi~  265 (325)
T cd00983         227 IKDGDEVIGNRTKVKVVKNKVAPPFKTA-------EFDILFGEGIS  265 (325)
T ss_pred             cccCCcccccEEEEEEEecccCCCCCce-------EEEEEcCcccc
Confidence                    34578999999999886543       476653 3664

RecA couples ATP hydrolysis to DNA strand exchange.

>PRK09354 recA recombinase A; Provisional

Probab=100.00  E-value=4.2e-32  Score=251.92  Aligned_cols=244  Identities=30%  Similarity=0.392  Sum_probs=189.7

Q ss_pred             HHHHHHHHhhcCCCchhhhH--H-hhhcccccccCChhhHHhhc-CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCc
Q 047388           80 ICEAAEKIVNFGYITGSDAL--L-RRKAVIKITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTN  155 (352)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~--~-~~~~~~~i~TG~~~LD~~L~-GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~  155 (352)
                      .++.+.+.....|..++-+.  + ......+++||++.||.+|+ ||+|+|.+|+|+||+||||||||++++.+++.   
T Consensus        10 ~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~isTGi~~LD~~LG~GGip~G~IteI~G~~GsGKTtLal~~~~~~~~---   86 (349)
T PRK09354         10 ALEAALKQIEKQFGKGSIMRLGDDAAMDVEVISTGSLALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQK---   86 (349)
T ss_pred             HHHHHHHHHHHHhCCCCceEcccccccCCceecCCcHHHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHH---
Confidence            44444444444554443332  1 12357799999999999999 99999999999999999999999999999886   


Q ss_pred             cCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchh
Q 047388          156 MRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFR  235 (352)
Q Consensus       156 ~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~  235 (352)
                         .++.|+|||+|+.+++.    .++++|++.    +++.+.++.+.++....+.   ..+.+..+++|||||++++++
T Consensus        87 ---~G~~~~yId~E~s~~~~----~a~~lGvdl----d~lli~qp~~~Eq~l~i~~---~li~s~~~~lIVIDSvaaL~~  152 (349)
T PRK09354         87 ---AGGTAAFIDAEHALDPV----YAKKLGVDI----DNLLVSQPDTGEQALEIAD---TLVRSGAVDLIVVDSVAALVP  152 (349)
T ss_pred             ---cCCcEEEECCccchHHH----HHHHcCCCH----HHeEEecCCCHHHHHHHHH---HHhhcCCCCEEEEeChhhhcc
Confidence               68999999999987763    678889987    6788888877777655544   455667899999999999985


Q ss_pred             -cccCCCc---chHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeec
Q 047388          236 -VDFTGRG---ELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGK  311 (352)
Q Consensus       236 -~~~~~~g---~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~  311 (352)
                       .++.++.   ....+.+.+.+.++.|..+++++++++|+|||+...++ .+| +++..|.||+.+.|.+.+|+.++|..
T Consensus       153 ~~E~eg~~gd~~~~~qar~ms~~Lr~L~~~l~k~~itvI~tNQvr~~ig-~~~-g~pe~~~GG~aL~~~ss~rl~lrr~~  230 (349)
T PRK09354        153 KAEIEGEMGDSHVGLQARLMSQALRKLTGNISKSNTTVIFINQIREKIG-VMF-GNPETTTGGNALKFYASVRLDIRRIG  230 (349)
T ss_pred             hhhhcCCccccchhHHHHHHHHHHHHHHHHHHHcCcEEEEEEeeeeccc-ccc-CCCCcCCCchhhHhhheeeeEEeccc
Confidence             5554431   11223345667788899999999999999999998653 334 67788999999999999999999853


Q ss_pred             ---------CCeEEEEEEeCCCCCcccccccceeeeeEEEe-CCCccC
Q 047388          312 ---------GEQRVCKVFDAPNLPEAEAISFSYHIILIKIT-PGGIAD  349 (352)
Q Consensus       312 ---------~~~R~~~i~Ks~~~~~~~~~~~~~~~~~f~I~-~~Gi~~  349 (352)
                               |..+.++++|++..|+....       .|.|. .+||.-
T Consensus       231 ~iK~~~~~~G~~~r~~vvKnk~~~p~~~a-------~~~i~~~~Gi~~  271 (349)
T PRK09354        231 TIKDGDEVIGNRTKVKVVKNKVAPPFKQA-------EFDIMYGEGISR  271 (349)
T ss_pred             ccccCCceecceEEEEEEecccCCCCCce-------EEEEEcCCccch
Confidence                     34568999999999886443       48888 888864

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=100.00  E-value=2e-32  Score=275.59  Aligned_cols=217  Identities=28%  Similarity=0.459  Sum_probs=183.5

Q ss_pred             hhcccccccCChhhHHhhc-CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHH
Q 047388          102 RKAVIKITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPI  180 (352)
Q Consensus       102 ~~~~~~i~TG~~~LD~~L~-GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~  180 (352)
                      +.+...++||++.||.+|+ ||+++|.+++|+|++|+|||+||++++.+++.      .+++|+||++|+++++.    +
T Consensus        35 ~~~v~~isTGi~~LD~lLg~GGip~GsiteI~G~~GsGKTtLal~~~~~a~~------~G~~v~yId~E~t~~~~----~  104 (790)
T PRK09519         35 RQPISVIPTGSIALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQA------AGGVAAFIDAEHALDPD----Y  104 (790)
T ss_pred             ccCCceecCCcHHHHHhhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHH------cCCcEEEECCccchhHH----H
Confidence            4567799999999999998 99999999999999999999999999998876      68899999999997754    7


Q ss_pred             HHHcCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccch-hcccCCCc---chHHHHHHHHHHHH
Q 047388          181 AERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALF-RVDFTGRG---ELADRQQKLGQMLS  256 (352)
Q Consensus       181 ~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~-~~~~~~~g---~~~~r~~~l~~i~~  256 (352)
                      ++++|++.    +++.+.++.+.++....   +...+.+.++++|||||+++++ +.++.|+.   .+..+++.+.++++
T Consensus       105 A~~lGvDl----~~llv~~~~~~E~~l~~---i~~lv~~~~~~LVVIDSI~aL~~r~E~~g~~g~~~~~~q~rl~~q~L~  177 (790)
T PRK09519        105 AKKLGVDT----DSLLVSQPDTGEQALEI---ADMLIRSGALDIVVIDSVAALVPRAELEGEMGDSHVGLQARLMSQALR  177 (790)
T ss_pred             HHHcCCCh----hHeEEecCCCHHHHHHH---HHHHhhcCCCeEEEEcchhhhcchhhccCCCCcccHHHHHHHHHHHHH
Confidence            88899988    56778888877765544   3345566789999999999999 47776542   23444555678899


Q ss_pred             HHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEee---------cCCeEEEEEEeCCCCCc
Q 047388          257 RLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKG---------KGEQRVCKVFDAPNLPE  327 (352)
Q Consensus       257 ~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~---------~~~~R~~~i~Ks~~~~~  327 (352)
                      .|..+++++|+++|+|||+...++ .+| +++.+|.||+.|.|++++||.|+|.         .|+.|+++|+||+++|.
T Consensus       178 ~L~~~l~~~nvtvi~TNQv~~~~g-~~f-g~p~~~~GG~~l~h~ss~Ri~lrk~~~ik~~~~~~G~~~~~kv~ks~cLpe  255 (790)
T PRK09519        178 KMTGALNNSGTTAIFINQLRDKIG-VMF-GSPETTTGGKALKFYASVRMDVRRVETLKDGTNAVGNRTRVKVVKNKCLAE  255 (790)
T ss_pred             HHHHHHHhCCCEEEEEecceecCC-CcC-CCCCcCCCCcccceeccEEEEeeeccccccCccccceEEEEEEEECCCCCC
Confidence            999999999999999999998764 345 7889999999999999999999974         36789999999999999


Q ss_pred             ccccccceeeeeEEEeCC
Q 047388          328 AEAISFSYHIILIKITPG  345 (352)
Q Consensus       328 ~~~~~~~~~~~~f~I~~~  345 (352)
                      +++.        |.|+.+
T Consensus       256 ~e~v--------~~i~tG  265 (790)
T PRK09519        256 GTRI--------FDPVTG  265 (790)
T ss_pred             ceEE--------EEecCC
Confidence            9998        888754

>TIGR02012 tigrfam_recA protein RecA

Probab=100.00  E-value=1.4e-31  Score=246.60  Aligned_cols=221  Identities=30%  Similarity=0.445  Sum_probs=178.4

Q ss_pred             hcccccccCChhhHHhhc-CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHH
Q 047388          103 KAVIKITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIA  181 (352)
Q Consensus       103 ~~~~~i~TG~~~LD~~L~-GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~  181 (352)
                      ....++|||++.||.+|+ ||+|+|.+++|+||||+||||||++++.+++.      .+++|+|||+|+.+++.    .+
T Consensus        31 ~~~~~i~TGi~~LD~~Lg~GGlp~G~iteI~G~~GsGKTtLaL~~~~~~~~------~g~~v~yId~E~~~~~~----~a  100 (321)
T TIGR02012        31 MDVETISTGSLSLDLALGVGGLPRGRIIEIYGPESSGKTTLALHAIAEAQK------AGGTAAFIDAEHALDPV----YA  100 (321)
T ss_pred             ccCceecCCCHHHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHH------cCCcEEEEcccchhHHH----HH
Confidence            457799999999999999 99999999999999999999999999999887      68899999999987764    57


Q ss_pred             HHcCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchh-cccCCC-c--chHHHHHHHHHHHHH
Q 047388          182 ERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFR-VDFTGR-G--ELADRQQKLGQMLSR  257 (352)
Q Consensus       182 ~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~-~~~~~~-g--~~~~r~~~l~~i~~~  257 (352)
                      +++|++.    +++.+.++.+.++....+   ...+.+..+++|||||++++++ .++.+. +  ....+.+.+.++++.
T Consensus       101 ~~lGvd~----~~l~v~~p~~~eq~l~~~---~~li~~~~~~lIVIDSv~al~~~~E~e~~~g~~~~~~~aR~m~~~lr~  173 (321)
T TIGR02012       101 RKLGVDI----DNLLVSQPDTGEQALEIA---ETLVRSGAVDIIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQALRK  173 (321)
T ss_pred             HHcCCCH----HHeEEecCCCHHHHHHHH---HHHhhccCCcEEEEcchhhhccchhhcccccccchhHHHHHHHHHHHH
Confidence            8889887    678888887776665444   3445566899999999999985 344432 1  112233455688899


Q ss_pred             HHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeec---------CCeEEEEEEeCCCCCcc
Q 047388          258 LTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGK---------GEQRVCKVFDAPNLPEA  328 (352)
Q Consensus       258 L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~---------~~~R~~~i~Ks~~~~~~  328 (352)
                      |..+++++|+++|+|||+...++ .+| +++..+.||..+.|.+..++.++|..         |..+.++++||+..|+.
T Consensus       174 L~~~l~~~~~tvi~tNQvr~~~g-~~~-~~~e~~~GG~aL~~~ss~r~~lrr~~~iK~~~~~~g~~~~~~v~Knk~~~p~  251 (321)
T TIGR02012       174 LTGALSKSNTTAIFINQIREKIG-VMF-GNPETTTGGRALKFYASVRLDIRRIGQVKQGEEVVGNRTKVKVVKNKVAPPF  251 (321)
T ss_pred             HHHHHHhCCCEEEEEecceeccC-ccc-CCCccCcCccHHHHHHhHhHhhhhhhccccCCceeccEEEEEEEECCCCCCC
Confidence            99999999999999999998653 334 56778999999999999999998742         25678999999999886


Q ss_pred             cccccceeeeeEEEe-CCCccC
Q 047388          329 EAISFSYHIILIKIT-PGGIAD  349 (352)
Q Consensus       329 ~~~~~~~~~~~f~I~-~~Gi~~  349 (352)
                      ...       +|.|. .+||.-
T Consensus       252 ~~~-------~~~i~~~~Gi~~  266 (321)
T TIGR02012       252 KEA-------EFDILYGEGISK  266 (321)
T ss_pred             Cce-------EEEEEcCCccch
Confidence            543       59988 888864

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.

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=99.97  E-value=8.8e-31  Score=247.68  Aligned_cols=259  Identities=22%  Similarity=0.330  Sum_probs=191.2

Q ss_pred             CchhhhhcCChhhHHhhhCCCHHHH-HHHHHHHHHHhh----cCC--CchhhhHH-hhhcccccccCChhhHHhhcCCCC
Q 047388           53 YTCNGLMMHTKKHLTGIKGLSEAKV-EKICEAAEKIVN----FGY--ITGSDALL-RRKAVIKITTGSQALDELLGGGIE  124 (352)
Q Consensus        53 ~t~~~~~~~~~~~l~~~~~~~~~~~-~~~~~~~~~~~~----~~~--~~~~~~~~-~~~~~~~i~TG~~~LD~~L~GGl~  124 (352)
                      +.|.+|...+++++.+|.++..++- .+-.........    ...  .....+.+ ......+++||+++||++|+||++
T Consensus         1 ~~c~~cg~~~~~~~g~cp~c~~w~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ri~TGi~eLD~vLgGGi~   80 (372)
T cd01121           1 YVCSECGYVSPKWLGKCPECGEWNTLVEEIEPSSSSGSGGRSSGGSASKVIPLSDIEAEEEERIPTGIEELDRVLGGGLV   80 (372)
T ss_pred             CCCCCCCCCCCCccEECcCCCCceeeeehhccccccccccccccccCCCceEhhhccccccCccccCCHHHHHhhcCCcc
Confidence            3577888889999999988876531 110000000000    000  11111111 123457899999999999999999


Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCCHH
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYE  204 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~  204 (352)
                      +|++++|.|+||+|||+|+++++.+...      .+++|+|+++|++  ...+...+++++++.    +++.+....+.+
T Consensus        81 ~GslvLI~G~pG~GKStLllq~a~~~a~------~g~~VlYvs~EEs--~~qi~~Ra~rlg~~~----~~l~l~~e~~le  148 (372)
T cd01121          81 PGSVILIGGDPGIGKSTLLLQVAARLAK------RGGKVLYVSGEES--PEQIKLRADRLGIST----ENLYLLAETNLE  148 (372)
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHh------cCCeEEEEECCcC--HHHHHHHHHHcCCCc----ccEEEEccCcHH
Confidence            9999999999999999999999988765      5679999999976  566777888888876    566666554443


Q ss_pred             HHHHHHHHHHHHhhcCCceEEEEcccccchhcccCC-CcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCc
Q 047388          205 HQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTG-RGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGV  283 (352)
Q Consensus       205 ~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~-~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~  283 (352)
                      .+.       +.+...++++|||||++.++..+..+ .+...    .+.+++..|.++++++++++|+++|+++  ++. 
T Consensus       149 ~I~-------~~i~~~~~~lVVIDSIq~l~~~~~~~~~g~~~----qvr~~~~~L~~lak~~~itvilvghvtk--~g~-  214 (372)
T cd01121         149 DIL-------ASIEELKPDLVIIDSIQTVYSSELTSAPGSVS----QVRECTAELMRFAKERNIPIFIVGHVTK--EGS-  214 (372)
T ss_pred             HHH-------HHHHhcCCcEEEEcchHHhhccccccCCCCHH----HHHHHHHHHHHHHHHcCCeEEEEeeccC--CCc-
Confidence            322       33345689999999999998765432 22222    3567888999999999999999999987  342 


Q ss_pred             ccCCCCCCCcchhhhhccceEEEEEeecC-CeEEEEEEeCCCCCcccccccceeeeeEEEeCCCccCCC
Q 047388          284 FISDPKKPAGGHVLAHAVTIRLMFRKGKG-EQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADAK  351 (352)
Q Consensus       284 ~~~~~~~~~gg~~~~~~~~~~i~L~~~~~-~~R~~~i~Ks~~~~~~~~~~~~~~~~~f~I~~~Gi~~~~  351 (352)
                             .+|+..++|++|++|.|+.++. ..|+++++|+|+.+.++.       +.|+|+++||+.+.
T Consensus       215 -------~aG~~~leh~vD~Vi~le~~~~~~~R~Lri~KnR~g~~~ei-------~~F~i~~~Gl~~v~  269 (372)
T cd01121         215 -------IAGPKVLEHMVDTVLYFEGDRHSEYRILRSVKNRFGSTNEL-------GVFEMRENGLREVS  269 (372)
T ss_pred             -------ccCcccchhhceEEEEEEcCCCCcEEEEEEEeCCCCCCCCE-------EEEEECCCCeEEcc
Confidence                   5677899999999999998664 579999999999987764       47999999999654

This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=99.97  E-value=1.7e-30  Score=235.92  Aligned_cols=217  Identities=20%  Similarity=0.294  Sum_probs=167.6

Q ss_pred             ccccCChhhHHhh--------------cCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCC
Q 047388          107 KITTGSQALDELL--------------GGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTF  172 (352)
Q Consensus       107 ~i~TG~~~LD~~L--------------~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~  172 (352)
                      +++||++.||++|              +||||+|++++|+|+||+|||+||+|++.+.+.      .+.+|+|+++|++.
T Consensus         3 ~~~tGi~glD~~l~~~~~~~~~~~~~~~GGip~gs~~lI~G~pGtGKT~l~~qf~~~~a~------~Ge~vlyis~Ee~~   76 (259)
T TIGR03878         3 GVPTGVEGLDELFFKVEIEEGKIVRKPLGGIPAYSVINITGVSDTGKSLMVEQFAVTQAS------RGNPVLFVTVESPA   76 (259)
T ss_pred             CccCCchhHHHhhccccccccccccccCCCeECCcEEEEEcCCCCCHHHHHHHHHHHHHh------CCCcEEEEEecCCc
Confidence            6899999999999              599999999999999999999999999998776      67899999999753


Q ss_pred             C--hhhHHHHHHHcCCCcccccccEEEEecCCHH----HHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHH
Q 047388          173 R--PDRIVPIAERFGMDPGAVLDNIIYARAYTYE----HQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELAD  246 (352)
Q Consensus       173 ~--~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~----~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~  246 (352)
                      .  ..++...+.++|++.+.+.+++.+.+.....    ...+++..+...+.+.++++|||||+++++...     +   
T Consensus        77 ~~~~~~l~~~a~~~g~d~~~~~~~l~~id~~~~~~~~~~~~~l~~~l~~~i~~~~~~~vVIDSls~l~~~~-----~---  148 (259)
T TIGR03878        77 NFVYTSLKERAKAMGVDFDKIEENIILIDAASSTELRENVPNLLATLAYAIKEYKVKNTVIDSITGLYEAK-----E---  148 (259)
T ss_pred             hHHHHHHHHHHHHcCCCHHHHhCCEEEEECCCchhhhhhHHHHHHHHHHHHHhhCCCEEEEcCchHhcccc-----h---
Confidence            2  1356677888999887777888888765432    234455666667777899999999999875421     1   


Q ss_pred             HHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEee--------------cC
Q 047388          247 RQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKG--------------KG  312 (352)
Q Consensus       247 r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~--------------~~  312 (352)
                        ....+++..|..+++++++|+++++|.....+.  +.+   .++++..+.+.+|.+|.|+..              .+
T Consensus       149 --~~~r~~~~~L~~~lk~~~~t~ll~~e~~~~~~~--~~~---~~~~~~~~~~l~D~vI~L~~~~~~~~~~~~~~~~~~~  221 (259)
T TIGR03878       149 --MMAREIVRQLFNFMKKWYQTALFVSQKRSGHEE--LSA---EAAGGYAVSHIVDGTIVLAKQLIMSRFDASLYKKPIG  221 (259)
T ss_pred             --HHHHHHHHHHHHHHHHcCCeEEEEeccccCccc--ccc---cccCCcceeEeeccEEEEeeeeccchhhhhhcccccc
Confidence              112366777888888999999999997652211  111   256666789999999999841              12


Q ss_pred             -CeEEEEEEeCCCCCcccccccceeeeeEEEeCCCccCC
Q 047388          313 -EQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADA  350 (352)
Q Consensus       313 -~~R~~~i~Ks~~~~~~~~~~~~~~~~~f~I~~~Gi~~~  350 (352)
                       ..|.+.|.|+|..++...      |++|.|+++||..+
T Consensus       222 ~~~R~l~I~KmRg~~h~~~------~~~~~It~~Gi~~i  254 (259)
T TIGR03878       222 EIVRLFRIDGCRMCGHDTK------THVLEIDETGLVKI  254 (259)
T ss_pred             ceEEEEEEEEccCCCCCCc------eeEEEEcCCceEEe
Confidence             458999999999876544      47899999998765

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>PRK11823 DNA repair protein RadA; Provisional

Probab=99.97  E-value=3.3e-30  Score=250.22  Aligned_cols=258  Identities=22%  Similarity=0.330  Sum_probs=191.2

Q ss_pred             CCchhhhhcCChhhHHhhhCCCHHHH-HHHHHHHHHHhhcCCCchhhhHHhhhcccccccCChhhHHhhcCCCCCCcEEE
Q 047388           52 IYTCNGLMMHTKKHLTGIKGLSEAKV-EKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITE  130 (352)
Q Consensus        52 ~~t~~~~~~~~~~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~L~GGl~~G~i~~  130 (352)
                      .+.|.+|...++++..+|..+..++- .+-................+.  ...+..+++||+++||++|+||+++|++++
T Consensus         7 ~y~C~~Cg~~~~~~~g~Cp~C~~w~t~~e~~~~~~~~~~~~~~~~~~~--~~~~~~ri~TGi~~LD~~LgGGi~~Gs~~l   84 (446)
T PRK11823          7 AYVCQECGAESPKWLGRCPECGAWNTLVEEVAASKAGSSKPVQPLSDI--EAEEEPRISTGIGELDRVLGGGLVPGSVVL   84 (446)
T ss_pred             eEECCcCCCCCcccCeeCcCCCCccceeeecccccccCCCCceehhhc--ccccCCcccCCcHHHHHHhcCCccCCEEEE
Confidence            46789999999999999998876531 110000000000011111111  123457899999999999999999999999


Q ss_pred             EecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCCHHHHHHHH
Q 047388          131 AFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLL  210 (352)
Q Consensus       131 I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l  210 (352)
                      |+|+||+|||||++|++.+.+.      .+++|+|+++|++  ...+...+++++++.    +++.+....+.+.+    
T Consensus        85 I~G~pG~GKTtL~lq~a~~~a~------~g~~vlYvs~Ees--~~qi~~ra~rlg~~~----~~l~~~~e~~l~~i----  148 (446)
T PRK11823         85 IGGDPGIGKSTLLLQVAARLAA------AGGKVLYVSGEES--ASQIKLRAERLGLPS----DNLYLLAETNLEAI----  148 (446)
T ss_pred             EECCCCCCHHHHHHHHHHHHHh------cCCeEEEEEcccc--HHHHHHHHHHcCCCh----hcEEEeCCCCHHHH----
Confidence            9999999999999999998774      5789999999987  556777788899876    45666655444332    


Q ss_pred             HHHHHHhhcCCceEEEEcccccchhcccCC-CcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCC
Q 047388          211 LGLAAKMSEEPFRLLIVDSVIALFRVDFTG-RGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPK  289 (352)
Q Consensus       211 ~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~-~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~  289 (352)
                         .+.+.+.++++|||||++.++..++.+ .++.    ..+.+++..|.++++++++++++++|+++  ++.       
T Consensus       149 ---~~~i~~~~~~lVVIDSIq~l~~~~~~~~~g~~----~qvr~~~~~L~~~ak~~~itvilv~hvtk--~~~-------  212 (446)
T PRK11823        149 ---LATIEEEKPDLVVIDSIQTMYSPELESAPGSV----SQVRECAAELMRLAKQRGIAVFLVGHVTK--EGA-------  212 (446)
T ss_pred             ---HHHHHhhCCCEEEEechhhhccccccCCCCCH----HHHHHHHHHHHHHHHHcCCEEEEEeeccC--CCC-------
Confidence               233445689999999999998765532 1222    23457888899999999999999999987  332       


Q ss_pred             CCCcchhhhhccceEEEEEee-cCCeEEEEEEeCCCCCcccccccceeeeeEEEeCCCccCCC
Q 047388          290 KPAGGHVLAHAVTIRLMFRKG-KGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADAK  351 (352)
Q Consensus       290 ~~~gg~~~~~~~~~~i~L~~~-~~~~R~~~i~Ks~~~~~~~~~~~~~~~~~f~I~~~Gi~~~~  351 (352)
                       .+|+..|+|++|+++.|+.+ ....|.++++|+|+.+.++.       +.|+|+++||+.+.
T Consensus       213 -~ag~~~lehlvD~Vi~le~~~~~~~R~l~i~K~R~g~~~e~-------~~f~it~~Gi~~v~  267 (446)
T PRK11823        213 -IAGPRVLEHMVDTVLYFEGDRHSRYRILRAVKNRFGATNEI-------GVFEMTEQGLREVS  267 (446)
T ss_pred             -cCCcchhhhhCeEEEEEEcCCCCceEEEEEccCCCCCCCce-------EEEEEcCCCceECC
Confidence             45667899999999999863 34679999999999988764       35999999998654

>TIGR00416 sms DNA repair protein RadA

Probab=99.97  E-value=3.5e-30  Score=250.08  Aligned_cols=260  Identities=20%  Similarity=0.286  Sum_probs=192.1

Q ss_pred             CCchhhhhcCChhhHHhhhCCCHHHHHHH-HHH---HH--HHhh---cCC---CchhhhHH-hhhcccccccCChhhHHh
Q 047388           52 IYTCNGLMMHTKKHLTGIKGLSEAKVEKI-CEA---AE--KIVN---FGY---ITGSDALL-RRKAVIKITTGSQALDEL  118 (352)
Q Consensus        52 ~~t~~~~~~~~~~~l~~~~~~~~~~~~~~-~~~---~~--~~~~---~~~---~~~~~~~~-~~~~~~~i~TG~~~LD~~  118 (352)
                      .+.|.+|.+.+++++.+|.++..++-..- ...   ..  ....   ...   .....+.+ ...+..+++||+++||++
T Consensus         7 ~y~C~~Cg~~~~~~~g~Cp~C~~w~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ri~TGi~~LD~v   86 (454)
T TIGR00416         7 KFVCQHCGADSPKWQGKCPACHAWNTITEERLHRSLGAQKNRRNSGKAGIPQAQKSQTISAIELEEVPRFSSGFGELDRV   86 (454)
T ss_pred             eEECCcCCCCCccccEECcCCCCccccchhhcccccccccccccccccccccCccceEhhhccccccCccccCcHHHHHH
Confidence            56789999999999999999876541111 000   00  0000   000   00111111 123467899999999999


Q ss_pred             hcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEE
Q 047388          119 LGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYA  198 (352)
Q Consensus       119 L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~  198 (352)
                      |+||+++|++++|+|+||+|||||++|++.+...      .+++|+|+++|++  ...+...+++++++.    +++++.
T Consensus        87 LgGGi~~GsvilI~G~pGsGKTTL~lq~a~~~a~------~g~kvlYvs~EEs--~~qi~~ra~rlg~~~----~~l~~~  154 (454)
T TIGR00416        87 LGGGIVPGSLILIGGDPGIGKSTLLLQVACQLAK------NQMKVLYVSGEES--LQQIKMRAIRLGLPE----PNLYVL  154 (454)
T ss_pred             hcCCccCCeEEEEEcCCCCCHHHHHHHHHHHHHh------cCCcEEEEECcCC--HHHHHHHHHHcCCCh----HHeEEc
Confidence            9999999999999999999999999999988765      4678999999987  556777888888876    577776


Q ss_pred             ecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCC-CcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          199 RAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTG-RGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       199 ~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~-~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      ...+.+.       +...+.+.++++|||||++.++..+..+ .++..    .+.+++..|.++|+++|+|+++++|+++
T Consensus       155 ~e~~~~~-------I~~~i~~~~~~~vVIDSIq~l~~~~~~~~~g~~~----q~r~~~~~L~~~ak~~giTvllt~hvtk  223 (454)
T TIGR00416       155 SETNWEQ-------ICANIEEENPQACVIDSIQTLYSPDISSAPGSVS----QVRECTAELMRLAKTRGIAIFIVGHVTK  223 (454)
T ss_pred             CCCCHHH-------HHHHHHhcCCcEEEEecchhhcccccccCCCCHH----HHHHHHHHHHHHHHHhCCEEEEEecccc
Confidence            5554432       3334455689999999999998765432 22222    2357788899999999999999999987


Q ss_pred             CCCCCcccCCCCCCCcchhhhhccceEEEEEeecC-CeEEEEEEeCCCCCcccccccceeeeeEEEeCCCccCCC
Q 047388          278 DPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKG-EQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADAK  351 (352)
Q Consensus       278 ~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~-~~R~~~i~Ks~~~~~~~~~~~~~~~~~f~I~~~Gi~~~~  351 (352)
                        ++.        .+|...++|++|++|.|+..++ ..|.++++|+|..+.++.       +.|+|++.||+.+.
T Consensus       224 --eg~--------~aG~~~le~lvD~VI~Le~~~~~~~R~L~v~K~R~g~~~e~-------~~f~it~~Gl~~v~  281 (454)
T TIGR00416       224 --EGS--------IAGPKVLEHMVDTVLYFEGDRDSRFRILRSVKNRFGATNEI-------GIFEMTEQGLREVL  281 (454)
T ss_pred             --CCc--------cCCcccEeeeceEEEEEeccCCCcEEEEEEecCCCCCCCcE-------EEEEEecCCceecC
Confidence              442        4566789999999999997653 579999999999888654       47999999998654

The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).

>PRK04328 hypothetical protein; Provisional

Probab=99.97  E-value=2.5e-29  Score=227.18  Aligned_cols=209  Identities=19%  Similarity=0.234  Sum_probs=163.4

Q ss_pred             cccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcC
Q 047388          106 IKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFG  185 (352)
Q Consensus       106 ~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~  185 (352)
                      ++++||++.||++|+||+|+|++++|.|+||+|||+||++++.+.+.      .+.+++|+++|.+  +..+.+.++++|
T Consensus         3 ~rv~tGi~~LD~lL~GGip~gs~ili~G~pGsGKT~l~~~fl~~~~~------~ge~~lyis~ee~--~~~i~~~~~~~g   74 (249)
T PRK04328          3 KRVKTGIPGMDEILYGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQ------MGEPGVYVALEEH--PVQVRRNMRQFG   74 (249)
T ss_pred             ceecCCchhHHHHhcCCCcCCcEEEEEcCCCCCHHHHHHHHHHHHHh------cCCcEEEEEeeCC--HHHHHHHHHHcC
Confidence            46999999999999999999999999999999999999999998776      6889999999986  777899999999


Q ss_pred             CCcccccc--cEEEEecCC----------------HHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHH
Q 047388          186 MDPGAVLD--NIIYARAYT----------------YEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADR  247 (352)
Q Consensus       186 ~~~~~~~~--~i~~~~~~~----------------~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r  247 (352)
                      ++.+.+.+  ++.+.+.+.                .....+++..+...+.+.+++++||||++.++..+.     ... 
T Consensus        75 ~d~~~~~~~~~l~iid~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~vVIDSlt~l~~~~~-----~~~-  148 (249)
T PRK04328         75 WDVRKYEEEGKFAIVDAFTGGIGSAAKREKYVVKDPDDVRELIDVLRQAIKDIGAKRVVIDSVSTLYLTKP-----AMA-  148 (249)
T ss_pred             CCHHHHhhcCCEEEEeccccccccccccccccccCcccHHHHHHHHHHHHHhhCCCEEEEeChhHhhcCCh-----HHH-
Confidence            98765543  355554432                233445566667777777899999999999864211     112 


Q ss_pred             HHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeec--C-CeEEEEEEeCCC
Q 047388          248 QQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGK--G-EQRVCKVFDAPN  324 (352)
Q Consensus       248 ~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~--~-~~R~~~i~Ks~~  324 (352)
                          .+++..|.++++++|+|+++|+|+...  ..        +.++..+++.+|.+|.|+...  + ..|.+.|.|+|.
T Consensus       149 ----r~~~~~l~~~lk~~g~t~llt~e~~~~--~~--------~~~~~~~~~~~D~vI~L~~~~~~~~~~R~l~I~K~Rg  214 (249)
T PRK04328        149 ----RSIVMQLKRVLSGLGCTAIFVSQVSVG--ER--------GFGGPGVEHAVDGIIRLDLDEIDGELKRSLIVWKMRG  214 (249)
T ss_pred             ----HHHHHHHHHHHHhCCCEEEEEECcccc--cc--------ccCCCCcEEEEEEEEEEEEEecCCcEEEEEEEEEccC
Confidence                255677777788999999999998752  11        233455688999999998643  2 368999999999


Q ss_pred             CCcccccccceeeeeEEEeCCCcc
Q 047388          325 LPEAEAISFSYHIILIKITPGGIA  348 (352)
Q Consensus       325 ~~~~~~~~~~~~~~~f~I~~~Gi~  348 (352)
                      .++...      |++|.|+++||+
T Consensus       215 ~~~~~~------~~~~~It~~Gi~  232 (249)
T PRK04328        215 TKHSMR------RHPFEITDKGIV  232 (249)
T ss_pred             CCCCCc------eEEEEEcCCCEE
Confidence            887654      367999999986

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=99.97  E-value=4.4e-29  Score=224.24  Aligned_cols=208  Identities=19%  Similarity=0.225  Sum_probs=161.2

Q ss_pred             ccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCC
Q 047388          107 KITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGM  186 (352)
Q Consensus       107 ~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~  186 (352)
                      +++||++.||++|+||+|+|++++|.|+||+|||+|++|++...+.      .+.+++|+++|.+  +..+.+.++++|+
T Consensus         2 ri~tGi~~LD~~l~GG~~~gs~~lI~G~pGsGKT~la~~~l~~~~~------~ge~~lyvs~ee~--~~~i~~~~~~~g~   73 (237)
T TIGR03877         2 RVKTGIPGMDEILHGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQ------MGEPGIYVALEEH--PVQVRRNMAQFGW   73 (237)
T ss_pred             ccccCcHhHHHHhcCCCcCCeEEEEEcCCCCCHHHHHHHHHHHHHH------cCCcEEEEEeeCC--HHHHHHHHHHhCC
Confidence            5899999999999999999999999999999999999999988775      6889999999986  7778888889998


Q ss_pred             Cccccc--ccEEEEecCC----------------HHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHH
Q 047388          187 DPGAVL--DNIIYARAYT----------------YEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQ  248 (352)
Q Consensus       187 ~~~~~~--~~i~~~~~~~----------------~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~  248 (352)
                      +.+.+.  .++.+.+++.                .....+++..+.+.+...++++|||||++.++...     ....  
T Consensus        74 ~~~~~~~~g~l~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~vVIDSls~l~~~~-----~~~~--  146 (237)
T TIGR03877        74 DVRKYEEEGKFAIVDAFTGGIGEAAEREKYVVKDPTDVRELIDVLRQAIRDINAKRVVIDSVTTLYITK-----PAMA--  146 (237)
T ss_pred             CHHHHhhcCCEEEEeccccccccccccccccccCcccHHHHHHHHHHHHHHhCCCEEEEcChhHhhcCC-----hHHH--
Confidence            875433  2455554321                22344556666677777789999999999986421     1112  


Q ss_pred             HHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeec---CCeEEEEEEeCCCC
Q 047388          249 QKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGK---GEQRVCKVFDAPNL  325 (352)
Q Consensus       249 ~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~---~~~R~~~i~Ks~~~  325 (352)
                         .+++..|+++++++|+|+|+++|..... .         +.++..+++++|.+|.|+...   ...|.+.|.|+|..
T Consensus       147 ---r~~l~~l~~~lk~~~~t~llt~~~~~~~-~---------~~~~~~~~~~~D~vI~L~~~~~~~~~~R~l~i~K~Rg~  213 (237)
T TIGR03877       147 ---RSIVMQLKRVLSGLGCTSIFVSQVSVGE-R---------GFGGPGVEHAVDGIIRLDLDEIDGELKRSLIVWKMRGT  213 (237)
T ss_pred             ---HHHHHHHHHHHHhCCCEEEEEECccccc-c---------cccccceEEEEeEEEEEEEEeeCCceEEEEEEEECCCC
Confidence               2567778888899999999999987521 1         223345789999999998642   24689999999998


Q ss_pred             CcccccccceeeeeEEEeCCCcc
Q 047388          326 PEAEAISFSYHIILIKITPGGIA  348 (352)
Q Consensus       326 ~~~~~~~~~~~~~~f~I~~~Gi~  348 (352)
                      ++...      |++|+|+++||+
T Consensus       214 ~~~~~------~~~~~It~~Gi~  230 (237)
T TIGR03877       214 KHSMR------RHPFEITDKGII  230 (237)
T ss_pred             CCCCc------eEEEEEcCCCEE
Confidence            87654      367999999997

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.

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=99.96  E-value=7.7e-29  Score=221.33  Aligned_cols=208  Identities=26%  Similarity=0.343  Sum_probs=156.7

Q ss_pred             cccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCC-CCeEEEEeCCCCCChhhHHHHHHHcCC
Q 047388          108 ITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGG-NGKVAYIDTEGTFRPDRIVPIAERFGM  186 (352)
Q Consensus       108 i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~-~~~vl~i~~e~~~~~~rl~~~~~~~~~  186 (352)
                      ++||++.||++|+||+|+|++++|.|+||+|||+|++|++.+.+.      . +.+|+|++++.+  ++.+.+.++++|+
T Consensus         1 V~TGI~~LD~~l~GGip~gs~~li~G~~GsGKT~l~~q~l~~~~~------~~ge~vlyvs~ee~--~~~l~~~~~s~g~   72 (226)
T PF06745_consen    1 VPTGIPGLDELLGGGIPKGSVVLISGPPGSGKTTLALQFLYNGLK------NFGEKVLYVSFEEP--PEELIENMKSFGW   72 (226)
T ss_dssp             E--SSTTHHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHHHH------HHT--EEEEESSS---HHHHHHHHHTTTS
T ss_pred             CCCCchhHHHhhcCCCCCCcEEEEEeCCCCCcHHHHHHHHHHhhh------hcCCcEEEEEecCC--HHHHHHHHHHcCC
Confidence            589999999999999999999999999999999999999998877      6 899999999987  7888899999999


Q ss_pred             Cccccccc--EEEEecCCH------HHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHH
Q 047388          187 DPGAVLDN--IIYARAYTY------EHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRL  258 (352)
Q Consensus       187 ~~~~~~~~--i~~~~~~~~------~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L  258 (352)
                      +.+.+.++  +.+.+....      .....++..+...+...++++|||||++.+... .+   +..     +..++..|
T Consensus        73 d~~~~~~~g~l~~~d~~~~~~~~~~~~~~~l~~~i~~~i~~~~~~~vVIDsls~l~~~-~~---~~~-----~r~~l~~l  143 (226)
T PF06745_consen   73 DLEEYEDSGKLKIIDAFPERIGWSPNDLEELLSKIREAIEELKPDRVVIDSLSALLLY-DD---PEE-----LRRFLRAL  143 (226)
T ss_dssp             -HHHHHHTTSEEEEESSGGGST-TSCCHHHHHHHHHHHHHHHTSSEEEEETHHHHTTS-SS---GGG-----HHHHHHHH
T ss_pred             cHHHHhhcCCEEEEecccccccccccCHHHHHHHHHHHHHhcCCCEEEEECHHHHhhc-CC---HHH-----HHHHHHHH
Confidence            88766554  777765543      234455566666777778899999999999221 11   111     23667777


Q ss_pred             HHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhh-ccceEEEEEeec-C--CeEEEEEEeCCCCCcccccccc
Q 047388          259 TKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAH-AVTIRLMFRKGK-G--EQRVCKVFDAPNLPEAEAISFS  334 (352)
Q Consensus       259 ~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~-~~~~~i~L~~~~-~--~~R~~~i~Ks~~~~~~~~~~~~  334 (352)
                      ....++++++++++.|.....+          +.....+.+ .+|.+|.|+... +  ..|.++|.|+|..++...    
T Consensus       144 ~~~l~~~~~t~llt~~~~~~~~----------~~~~~~i~~~l~D~vI~L~~~~~~~~~~R~l~I~K~Rg~~~~~~----  209 (226)
T PF06745_consen  144 IKFLKSRGVTTLLTSEMPSGSE----------DDGTFGIEHYLADGVIELRYEEEGGRIRRRLRIVKMRGSRHSTG----  209 (226)
T ss_dssp             HHHHHHTTEEEEEEEEESSSSS----------SSSSTSHHHHHSSEEEEEEEEEETTEEEEEEEEEEETTS----B----
T ss_pred             HHHHHHCCCEEEEEEccccCcc----------cccccchhhhcccEEEEEEEEeeCCEEEEEEEEEEcCCCCCCCc----
Confidence            8878999999999998654211          344556777 999999999643 2  468999999999886544    


Q ss_pred             eeeeeEEEeCCCcc
Q 047388          335 YHIILIKITPGGIA  348 (352)
Q Consensus       335 ~~~~~f~I~~~Gi~  348 (352)
                        |++|+|+++||+
T Consensus       210 --~~~f~I~~~Gi~  221 (226)
T PF06745_consen  210 --IHPFEITPGGIE  221 (226)
T ss_dssp             --EEEEEEETTEEE
T ss_pred             --EEEEEEECCeEE
Confidence              578999999986

More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....

>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=99.95  E-value=1.3e-26  Score=213.11  Aligned_cols=208  Identities=31%  Similarity=0.451  Sum_probs=157.1

Q ss_pred             hcccccccCChhhHHhhc-CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHH
Q 047388          103 KAVIKITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIA  181 (352)
Q Consensus       103 ~~~~~i~TG~~~LD~~L~-GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~  181 (352)
                      .....+|||++.||.+|+ ||+|+|.+++|+|++++|||+|+++++.+++.      .++.|+|||.|+.+++.    .+
T Consensus        29 ~~~~~i~TG~~~LD~aLg~GG~p~G~ivEi~G~~ssGKttLaL~~ia~~q~------~g~~~a~ID~e~~ld~~----~a   98 (322)
T PF00154_consen   29 QNIEVISTGSPALDYALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQK------QGGICAFIDAEHALDPE----YA   98 (322)
T ss_dssp             CSS-EE--S-HHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHH------TT-EEEEEESSS---HH----HH
T ss_pred             cccceEecCCcccchhhccCccccCceEEEeCCCCCchhhhHHHHHHhhhc------ccceeEEecCcccchhh----HH
Confidence            456789999999999998 99999999999999999999999999998876      68899999999998876    67


Q ss_pred             HHcCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhc-ccCC---CcchHHHHHHHHHHHHH
Q 047388          182 ERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRV-DFTG---RGELADRQQKLGQMLSR  257 (352)
Q Consensus       182 ~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~-~~~~---~g~~~~r~~~l~~i~~~  257 (352)
                      +++|++.    +++.+.++.+.++...+.++   .++...+++|||||+.++.+. +..+   ...++.+.+.+.++++.
T Consensus        99 ~~lGvdl----~rllv~~P~~~E~al~~~e~---lirsg~~~lVVvDSv~al~p~~E~e~~~~~~~~g~~Ar~ms~~lr~  171 (322)
T PF00154_consen   99 ESLGVDL----DRLLVVQPDTGEQALWIAEQ---LIRSGAVDLVVVDSVAALVPKAELEGEIGDQQVGLQARLMSQALRK  171 (322)
T ss_dssp             HHTT--G----GGEEEEE-SSHHHHHHHHHH---HHHTTSESEEEEE-CTT-B-HHHHTTSTSSTSSSHHHHHHHHHHHH
T ss_pred             HhcCccc----cceEEecCCcHHHHHHHHHH---HhhcccccEEEEecCcccCCHHHHhhccccccCcchHHHHHHHHHH
Confidence            7789998    78888888877766655544   455567899999999999763 2222   12344566788999999


Q ss_pred             HHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeec---------CCeEEEEEEeCCCCCcc
Q 047388          258 LTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGK---------GEQRVCKVFDAPNLPEA  328 (352)
Q Consensus       258 L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~---------~~~R~~~i~Ks~~~~~~  328 (352)
                      |..++.+.++++|++||++..++ .+| +++....||+.|.|.+++||.+++..         |..-.++++||+..|+.
T Consensus       172 lt~~l~~~~~~~i~INQ~R~~ig-~~~-g~~~~t~GG~alkfyas~rl~i~k~~~ik~~~~~iG~~~~vkv~KnKva~P~  249 (322)
T PF00154_consen  172 LTPLLSKSNTTLIFINQVRDKIG-VMF-GNPETTPGGRALKFYASVRLEIRKKEQIKEGDEVIGNKIKVKVVKNKVAPPF  249 (322)
T ss_dssp             HHHHHHTTT-EEEEEEEESSSSS-SSS-SSSSCCTSHHHHHHHCSEEEEEEEEEEEEETTCECEEEEEEEEEEESSS-TT
T ss_pred             HHHHHHhhceEEEEeehHHHHHh-hcc-CCCcCCCCCchhhhhhhhHHhhhcccccccCCcccccEEEEEEEEcccCCCc
Confidence            99999999999999999998763 345 56777889999999999999999742         23456899999998775


Q ss_pred             c
Q 047388          329 E  329 (352)
Q Consensus       329 ~  329 (352)
                      .
T Consensus       250 k  250 (322)
T PF00154_consen  250 K  250 (322)
T ss_dssp             E
T ss_pred             c
Confidence            4

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 ....

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=99.95  E-value=5.8e-26  Score=203.19  Aligned_cols=208  Identities=24%  Similarity=0.293  Sum_probs=152.5

Q ss_pred             ccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCC
Q 047388          107 KITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGM  186 (352)
Q Consensus       107 ~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~  186 (352)
                      +++||++.||++|+||+++|++++|.|+||+|||+|+.+++.+.+.      .+.+++|+++|.+  .+.+...++++++
T Consensus         1 ri~tGi~~LD~~l~GGi~~G~~~~i~G~~G~GKT~l~~~~~~~~~~------~g~~~~~is~e~~--~~~i~~~~~~~g~   72 (229)
T TIGR03881         1 RLSTGVEGLDKLLEGGIPRGFFVAVTGEPGTGKTIFCLHFAYKGLR------DGDPVIYVTTEES--RESIIRQAAQFGM   72 (229)
T ss_pred             CcCCChhhHHHhhcCCCcCCeEEEEECCCCCChHHHHHHHHHHHHh------cCCeEEEEEccCC--HHHHHHHHHHhCC
Confidence            4799999999999999999999999999999999999999987765      5679999999987  6677777888998


Q ss_pred             Ccccccc--cEEEEecCCH----------HHHHHHHHHHHHHhhcC--CceEEEEcccccchhcccCCCcchHHHHHHHH
Q 047388          187 DPGAVLD--NIIYARAYTY----------EHQYNLLLGLAAKMSEE--PFRLLIVDSVIALFRVDFTGRGELADRQQKLG  252 (352)
Q Consensus       187 ~~~~~~~--~i~~~~~~~~----------~~~~~~l~~l~~~l~~~--~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~  252 (352)
                      +.+.+..  ++.+.+....          ....++...+.+.+...  +++++||||++.++..+     ...     ..
T Consensus        73 ~~~~~~~~~~l~i~d~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~vvIDsl~~l~~~~-----~~~-----~r  142 (229)
T TIGR03881        73 DFEKAIEEGKLVIIDALMKEKEDEWSLRELSIEELLNKVIEAKKYLGYGHARLVIDSMSAFWLDK-----PAM-----AR  142 (229)
T ss_pred             CHHHHhhcCCEEEEEccccccccccccccCCHHHHHHHHHHHHHhhccCceEEEecCchhhhccC-----hHH-----HH
Confidence            8765432  3444432210          11223334444444443  57899999999886421     111     13


Q ss_pred             HHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeec--C-CeEEEEEEeCCCCCccc
Q 047388          253 QMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGK--G-EQRVCKVFDAPNLPEAE  329 (352)
Q Consensus       253 ~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~--~-~~R~~~i~Ks~~~~~~~  329 (352)
                      +++..|+++++++|+|+|+++|....  +.        +..+..+++.+|.+|.|+...  + ..|.+.|.|+|..++..
T Consensus       143 ~~~~~l~~~l~~~~~tvil~~~~~~~--~~--------~~~~~~~~~l~D~vI~L~~~~~~~~~~R~i~i~K~R~~~~~~  212 (229)
T TIGR03881       143 KYSYYLKRVLNRWNFTILLTSQYAIT--TS--------QAFGFGIEHVADGIIRFRKVVVDGELRRYLIVEKMRQTNHDK  212 (229)
T ss_pred             HHHHHHHHHHHhCCCEEEEEeccccc--CC--------CCcccceEEEEeEEEEEEEeccCCcEEEEEEEEeccCCCCCC
Confidence            56777888889999999999996531  11        112234688999999998643  2 36899999999987765


Q ss_pred             ccccceeeeeEEEeC-CCcc
Q 047388          330 AISFSYHIILIKITP-GGIA  348 (352)
Q Consensus       330 ~~~~~~~~~~f~I~~-~Gi~  348 (352)
                      .      |++|+|++ .||+
T Consensus       213 ~------~~~~~I~~~~Gi~  226 (229)
T TIGR03881       213 R------AWEIDIVPGKGLV  226 (229)
T ss_pred             c------eeEEEEcCCCceE
Confidence            4      37899995 7986

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.

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=99.94  E-value=3e-25  Score=197.90  Aligned_cols=208  Identities=20%  Similarity=0.282  Sum_probs=151.2

Q ss_pred             CChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCccc
Q 047388          111 GSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGA  190 (352)
Q Consensus       111 G~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~  190 (352)
                      |++.||++|+||+|+|++++|.|+||+|||+||++++.+.+.      .+.+|+|+++|++  +..+.+.+..++++.+.
T Consensus         1 Gi~~LD~~l~gGi~~g~~~li~G~~G~GKt~~~~~~~~~~~~------~g~~~~y~s~e~~--~~~l~~~~~~~~~~~~~   72 (224)
T TIGR03880         1 GIPGLDEMLGGGFPEGHVIVVIGEYGTGKTTFSLQFLYQGLK------NGEKAMYISLEER--EERILGYAKSKGWDLED   72 (224)
T ss_pred             CchhhHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHh------CCCeEEEEECCCC--HHHHHHHHHHcCCChHH
Confidence            789999999999999999999999999999999999998776      6789999999986  78888899999998766


Q ss_pred             cccc-EEEEecCCHH---HHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhC
Q 047388          191 VLDN-IIYARAYTYE---HQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFN  266 (352)
Q Consensus       191 ~~~~-i~~~~~~~~~---~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~  266 (352)
                      ..++ +.+.+.....   ....+...+...+.+.+++++||||++.+... +.   ....+..   .+...++.+ +++|
T Consensus        73 ~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~i~~~~~~~vVIDsls~l~~~-~~---~~~~~r~---~l~~l~~~l-k~~~  144 (224)
T TIGR03880        73 YIDKSLYIVRLDPSDFKTSLNRIKNELPILIKELGASRVVIDPISLLETL-FD---DDAERRT---ELFRFYSSL-RETG  144 (224)
T ss_pred             HHhCCeEEEecCHHHHHhhHHHHHHHHHHHHHHhCCCEEEEcChHHHhhh-cC---CHHHHHH---HHHHHHHHH-HhCC
Confidence            5554 5555533222   12334445566667778999999999987321 11   1122222   333334444 5679


Q ss_pred             cEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeec-C----CeEEEEEEeCCCCCcccccccceeeeeEE
Q 047388          267 VAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGK-G----EQRVCKVFDAPNLPEAEAISFSYHIILIK  341 (352)
Q Consensus       267 ~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~-~----~~R~~~i~Ks~~~~~~~~~~~~~~~~~f~  341 (352)
                      +++++++|....  +. .      ...-...++.+|.++.|+... +    ..|.++|.|+|+.++...      |++|+
T Consensus       145 ~tvll~s~~~~~--~~-~------~~~~~~~~~l~D~vI~L~~~~~~~~~~~~r~l~v~K~Rg~~~~~~------~~~~~  209 (224)
T TIGR03880       145 VTTILTSEADKT--NV-F------ASKYGLIEYLADGVIILKYVRNSDLRDVRLAVEVVKMRRSKHSRE------IKPYE  209 (224)
T ss_pred             CEEEEEEcccCC--CC-C------ccCCCceEEEEeEEEEEeeeecccCcceEEEEEEEEccCCCCCCc------eEEEE
Confidence            999999998752  10 0      001133789999999998543 2    246799999999876544      47899


Q ss_pred             EeCCCccC
Q 047388          342 ITPGGIAD  349 (352)
Q Consensus       342 I~~~Gi~~  349 (352)
                      |+++||+-
T Consensus       210 i~~~Gi~v  217 (224)
T TIGR03880       210 ITDSGITV  217 (224)
T ss_pred             EcCCcEEE
Confidence            99999974

This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=99.94  E-value=1.4e-25  Score=220.91  Aligned_cols=214  Identities=19%  Similarity=0.207  Sum_probs=163.6

Q ss_pred             cccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHH
Q 047388          104 AVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAER  183 (352)
Q Consensus       104 ~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~  183 (352)
                      ...+++||+++||++|+||+++|++++|.|+||+|||+|++|++.+.+.      .+.+|+|+++|.+  +..+...+++
T Consensus       241 ~~~~~~tGi~~lD~~lgGG~~~gs~~li~G~~G~GKt~l~~~f~~~~~~------~ge~~~y~s~eEs--~~~i~~~~~~  312 (484)
T TIGR02655       241 SNVRVSSGVVRLDEMCGGGFFKDSIILATGATGTGKTLLVSKFLENACA------NKERAILFAYEES--RAQLLRNAYS  312 (484)
T ss_pred             cccccCCChHhHHHHhcCCccCCcEEEEECCCCCCHHHHHHHHHHHHHH------CCCeEEEEEeeCC--HHHHHHHHHH
Confidence            3457999999999999999999999999999999999999999999876      6789999999987  7889999999


Q ss_pred             cCCCccccccc--EEEEecCCH-HHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHH
Q 047388          184 FGMDPGAVLDN--IIYARAYTY-EHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTK  260 (352)
Q Consensus       184 ~~~~~~~~~~~--i~~~~~~~~-~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~  260 (352)
                      +|++.+++.++  +.+...... ....+.+..+.+.+.+.++++|||||++.+... ++    ..+    ..+++..|.+
T Consensus       313 lg~~~~~~~~~g~l~~~~~~p~~~~~~~~~~~i~~~i~~~~~~~vvIDsi~~~~~~-~~----~~~----~r~~~~~l~~  383 (484)
T TIGR02655       313 WGIDFEEMEQQGLLKIICAYPESAGLEDHLQIIKSEIADFKPARIAIDSLSALARG-VS----NNA----FRQFVIGVTG  383 (484)
T ss_pred             cCCChHHHhhCCcEEEEEcccccCChHHHHHHHHHHHHHcCCCEEEEcCHHHHHHh-cC----HHH----HHHHHHHHHH
Confidence            99987654332  555543221 122345556666777779999999999998653 32    111    2356777888


Q ss_pred             HHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeec--C-CeEEEEEEeCCCCCcccccccceee
Q 047388          261 ISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGK--G-EQRVCKVFDAPNLPEAEAISFSYHI  337 (352)
Q Consensus       261 la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~--~-~~R~~~i~Ks~~~~~~~~~~~~~~~  337 (352)
                      ++++.|+|+++|+...... +. +      +.....+++.+|++|.|+...  + -.|.+.|+|+|..++....      
T Consensus       384 ~lk~~~it~~~t~~~~~~~-~~-~------~~~~~~~s~l~D~ii~l~~~e~~g~~~r~i~V~K~R~~~~~~~~------  449 (484)
T TIGR02655       384 YAKQEEITGFFTNTSDQFM-GS-H------SITDSHISTITDTILMLQYVEIRGEMSRAINVFKMRGSWHDKGI------  449 (484)
T ss_pred             HHhhCCCeEEEeecccccc-cC-C------ccCCCCeeEeeeEEEEEEEEecCCEEEEEEEEEEccCCCCCCce------
Confidence            8899999999997755321 11 0      112234688999999998653  2 3578999999999876654      


Q ss_pred             eeEEEeCCCcc
Q 047388          338 ILIKITPGGIA  348 (352)
Q Consensus       338 ~~f~I~~~Gi~  348 (352)
                      ++|+|+++||+
T Consensus       450 ~~~~It~~Gi~  460 (484)
T TIGR02655       450 REFMISDKGPE  460 (484)
T ss_pred             EEEEEcCCcEE
Confidence            78999999987

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=99.94  E-value=4.2e-25  Score=198.25  Aligned_cols=211  Identities=19%  Similarity=0.225  Sum_probs=153.4

Q ss_pred             cccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHH
Q 047388          104 AVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAER  183 (352)
Q Consensus       104 ~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~  183 (352)
                      +.++++||++.||++|+||+|+|++++|+|+||+|||+|+.+++...+.      .+.+|+|+++|.+  +..+...+.+
T Consensus         3 ~~~~~~tGi~~LD~~l~gG~~~g~~~~i~G~~GsGKt~l~~~~~~~~~~------~g~~~~y~~~e~~--~~~~~~~~~~   74 (234)
T PRK06067          3 KKEIISTGNEELDRKLGGGIPFPSLILIEGDHGTGKSVLSQQFVYGALK------QGKKVYVITTENT--SKSYLKQMES   74 (234)
T ss_pred             CceEEecCCHHHHHhhCCCCcCCcEEEEECCCCCChHHHHHHHHHHHHh------CCCEEEEEEcCCC--HHHHHHHHHH
Confidence            4567999999999999999999999999999999999999999988776      6889999999987  6667777888


Q ss_pred             cCCCccccc--ccEEEEec------CCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHH
Q 047388          184 FGMDPGAVL--DNIIYARA------YTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQML  255 (352)
Q Consensus       184 ~~~~~~~~~--~~i~~~~~------~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~  255 (352)
                      ++++..+..  ..+.+...      ........++..+...+.+.+++++||||++.+... .      ..  ..+.+++
T Consensus        75 ~g~~~~~~~~~g~l~i~~~~~~~~~~~~~~~~~ll~~l~~~i~~~~~~~iviDs~t~~~~~-~------~~--~~~~~~l  145 (234)
T PRK06067         75 VKIDISDFFLWGYLRIFPLNTEGFEWNSTLANKLLELIIEFIKSKREDVIIIDSLTIFATY-A------EE--DDILNFL  145 (234)
T ss_pred             CCCChhHHHhCCCceEEeccccccccCcchHHHHHHHHHHHHHhcCCCEEEEecHHHHHhc-C------CH--HHHHHHH
Confidence            998876542  23333322      112233455566666776678999999999977431 1      11  1234666


Q ss_pred             HHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeec--C-CeEEEEEEeCCCCCcccccc
Q 047388          256 SRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGK--G-EQRVCKVFDAPNLPEAEAIS  332 (352)
Q Consensus       256 ~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~--~-~~R~~~i~Ks~~~~~~~~~~  332 (352)
                      ..|+.+++ .++++++++|.....+           .....+.+++|.++.|+...  + ..|.+.|.|+|..++...  
T Consensus       146 ~~l~~l~~-~g~tvllt~~~~~~~~-----------~~~~~~~~l~DgvI~L~~~~~~~~~~r~l~i~K~Rg~~~~~~--  211 (234)
T PRK06067        146 TEAKNLVD-LGKTILITLHPYAFSE-----------ELLSRIRSICDVYLKLRAEQIGGRYVKVLEVVKLRGARKTTG--  211 (234)
T ss_pred             HHHHHHHh-CCCEEEEEecCCcCCH-----------HHHHHHHhheEEEEEEEeeccCCEEeEEEEEEhhcCCCCCCC--
Confidence            66776665 5889999988643211           11234688999999998653  2 358899999998876541  


Q ss_pred             cceeeeeEEEeC-CCcc
Q 047388          333 FSYHIILIKITP-GGIA  348 (352)
Q Consensus       333 ~~~~~~~f~I~~-~Gi~  348 (352)
                         .|++|+|++ .||+
T Consensus       212 ---~~~~~~I~~~~Gi~  225 (234)
T PRK06067        212 ---NIISFDVDPAFGIK  225 (234)
T ss_pred             ---CEEEEEEcCCCCeE
Confidence               146799998 4986

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=99.93  E-value=8.8e-25  Score=217.20  Aligned_cols=214  Identities=21%  Similarity=0.215  Sum_probs=161.2

Q ss_pred             cccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHH
Q 047388          104 AVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAER  183 (352)
Q Consensus       104 ~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~  183 (352)
                      ...+++||++.||++|+||+++|++++|.|+||+|||+|+.+++.+.+.      .+.+|+|+++|++  +..+.+.+..
T Consensus       251 ~~~~~~tGi~~lD~~l~GG~~~g~~~li~G~~G~GKT~l~~~~~~~~~~------~g~~~~yis~e~~--~~~i~~~~~~  322 (509)
T PRK09302        251 SNERISSGVPDLDEMLGGGFFRGSIILVSGATGTGKTLLASKFAEAACR------RGERCLLFAFEES--RAQLIRNARS  322 (509)
T ss_pred             ccccccCCcHHHHHhhcCCCCCCcEEEEEcCCCCCHHHHHHHHHHHHHh------CCCcEEEEEecCC--HHHHHHHHHH
Confidence            4568999999999999999999999999999999999999999988876      6889999999987  7778888899


Q ss_pred             cCCCccccccc--EEEEecCC-HHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHH
Q 047388          184 FGMDPGAVLDN--IIYARAYT-YEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTK  260 (352)
Q Consensus       184 ~~~~~~~~~~~--i~~~~~~~-~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~  260 (352)
                      +|++.+++..+  +.+..... .....+.+..+.+.+.+.++++|||||++.++....     .    ..+.+++..|.+
T Consensus       323 ~g~~~~~~~~~g~l~i~~~~~~~~~~~~~~~~i~~~i~~~~~~~vVIDslt~l~~~~~-----~----~~~~~~l~~l~~  393 (509)
T PRK09302        323 WGIDLEKMEEKGLLKIICARPESYGLEDHLIIIKREIEEFKPSRVAIDPLSALARGGS-----L----NEFRQFVIRLTD  393 (509)
T ss_pred             cCCChHHHhhcCCceeecCCcccCCHHHHHHHHHHHHHHcCCCEEEEcCHHHHHHhCC-----H----HHHHHHHHHHHH
Confidence            99987655432  33332211 112233445556666677899999999999865311     1    123467777888


Q ss_pred             HHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeec--C-CeEEEEEEeCCCCCcccccccceee
Q 047388          261 ISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGK--G-EQRVCKVFDAPNLPEAEAISFSYHI  337 (352)
Q Consensus       261 la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~--~-~~R~~~i~Ks~~~~~~~~~~~~~~~  337 (352)
                      +++++|+++|+|++......+.        ......+++++|.+|.|++..  + -.|.+.|.|+|..++...      |
T Consensus       394 ~~k~~~~t~l~t~~~~~~~g~~--------~~~~~~~~~l~D~vI~L~~~~~~~~~~R~l~I~K~Rg~~~~~~------~  459 (509)
T PRK09302        394 YLKSEEITGLFTNLTPDFMGSH--------SITESHISSLTDTWILLQYVEINGEMNRALYVLKMRGSWHSNQ------I  459 (509)
T ss_pred             HHHhCCCeEEEEeccccccCCC--------CCCcCceEEeeeEEEEEEEeecCCeeEEEEEEEEcCCCCCCCc------e
Confidence            8999999999999876422111        111123789999999999753  2 368999999998875433      4


Q ss_pred             eeEEEeCCCcc
Q 047388          338 ILIKITPGGIA  348 (352)
Q Consensus       338 ~~f~I~~~Gi~  348 (352)
                      ++|+|+++||+
T Consensus       460 ~~f~It~~Gi~  470 (509)
T PRK09302        460 REFVITDKGIH  470 (509)
T ss_pred             EEEEEeCCcEE
Confidence            78999999996

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=99.93  E-value=1.7e-24  Score=215.10  Aligned_cols=216  Identities=20%  Similarity=0.240  Sum_probs=158.1

Q ss_pred             hcccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHH
Q 047388          103 KAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAE  182 (352)
Q Consensus       103 ~~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~  182 (352)
                      ....+++||++.||++|+||+|+|++++|+|+||+|||+|++|++.+.+..     .+.+|+||++|++  ++.+.+.+.
T Consensus         8 ~~~~ri~TGI~~LD~~l~GG~p~Gs~~li~G~pGsGKT~l~~qf~~~~~~~-----~ge~~lyis~ee~--~~~i~~~~~   80 (509)
T PRK09302          8 PGIEKLPTGIEGFDDITHGGLPKGRPTLVSGTAGTGKTLFALQFLVNGIKR-----FDEPGVFVTFEES--PEDIIRNVA   80 (509)
T ss_pred             CCCccccCCchhHHHhhcCCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHh-----cCCCEEEEEccCC--HHHHHHHHH
Confidence            356789999999999999999999999999999999999999999888762     2789999999987  888888999


Q ss_pred             HcCCCcccccc--cEEEEecCCH---------HHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHH
Q 047388          183 RFGMDPGAVLD--NIIYARAYTY---------EHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKL  251 (352)
Q Consensus       183 ~~~~~~~~~~~--~i~~~~~~~~---------~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l  251 (352)
                      ++|++...+..  ++.+......         .+...++..+.+.+...+++.+||||++.++... .   ....    +
T Consensus        81 ~~g~d~~~~~~~g~l~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~i~~~~~~~vVIDSls~l~~~~-d---~~~~----~  152 (509)
T PRK09302         81 SFGWDLQKLIDEGKLFILDASPDPSEQEEAGEYDLEALFIRIEYAIDKIGAKRVVLDSIEALFSGF-S---NEAV----V  152 (509)
T ss_pred             HcCCCHHHHhhCCeEEEEecCcccccccccccccHHHHHHHHHHHHHhhCCCEEEECCHHHHHhhc-c---CHHH----H
Confidence            99998766543  3555433211         1234455666777777889999999999875421 1   1111    1


Q ss_pred             HHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeec-C--CeEEEEEEeCCCCCcc
Q 047388          252 GQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGK-G--EQRVCKVFDAPNLPEA  328 (352)
Q Consensus       252 ~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~-~--~~R~~~i~Ks~~~~~~  328 (352)
                      ...+..|.+.+++.|+++|+++|..... +.        ...-....+.+|.++.|+... +  ..|.+.|.|+|..++.
T Consensus       153 r~~l~~L~~~Lk~~g~TvLlt~~~~~~~-~~--------~~~~~~~~~laDgVI~L~~~~~~~~~~R~l~I~K~Rg~~~~  223 (509)
T PRK09302        153 RRELRRLFAWLKQKGVTAVITGERGDEY-GP--------LTRYGVEEFVSDCVIILRNRLEGEKRTRTLRILKYRGTTHG  223 (509)
T ss_pred             HHHHHHHHHHHHhCCCEEEEEECCccCc-CC--------ccccCceEEEeeEEEEEeEEccCCeEEEEEEEEECCCCCcC
Confidence            2334445555577899999999875421 11        011113467999999998642 2  3599999999988765


Q ss_pred             cccccceeeeeEEEeCCCcc
Q 047388          329 EAISFSYHIILIKITPGGIA  348 (352)
Q Consensus       329 ~~~~~~~~~~~f~I~~~Gi~  348 (352)
                      ..      |++|+|++.||+
T Consensus       224 ~~------~~~f~I~~~Gi~  237 (509)
T PRK09302        224 KN------EYPFTITEDGIS  237 (509)
T ss_pred             Cc------cEEEEECCCcEE
Confidence            43      367999999987

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=99.92  E-value=2.7e-24  Score=211.81  Aligned_cols=211  Identities=18%  Similarity=0.253  Sum_probs=153.2

Q ss_pred             ccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCC
Q 047388          107 KITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGM  186 (352)
Q Consensus       107 ~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~  186 (352)
                      +++||++.||++|+||||+|.+++|.|+||+|||+||+|++.+.+..     .+.+++||++|.+  ++.+.+.+.++|+
T Consensus         2 r~~TGI~gLD~il~GGlp~g~~~Li~G~pGsGKT~la~qfl~~g~~~-----~ge~~lyvs~eE~--~~~l~~~~~~~G~   74 (484)
T TIGR02655         2 KIRTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIH-----FDEPGVFVTFEES--PQDIIKNARSFGW   74 (484)
T ss_pred             cCCCCchhHHHhcCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHHHHh-----CCCCEEEEEEecC--HHHHHHHHHHcCC
Confidence            58999999999999999999999999999999999999999886651     2789999999976  8889999999999


Q ss_pred             Cccccc--ccEEEEecCCH---------HHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHH
Q 047388          187 DPGAVL--DNIIYARAYTY---------EHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQML  255 (352)
Q Consensus       187 ~~~~~~--~~i~~~~~~~~---------~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~  255 (352)
                      +.+.+.  +++.+......         ..+...+..+...+...+++.|+|||+..++.. ..  .....|    ..+.
T Consensus        75 ~~~~~~~~g~l~~~~~~~~~~~~~~~~~~~l~~~l~~i~~~ls~g~~qRVvIDSl~aL~~~-~~--~~~~~r----~~l~  147 (484)
T TIGR02655        75 DLQKLVDEGKLFILDASPDPEGQDVVGGFDLSALIERINYAIRKYKAKRVSIDSVTAVFQQ-YD--AVSVVR----REIF  147 (484)
T ss_pred             CHHHHhhcCceEEEecCchhccccccccCCHHHHHHHHHHHHHHhCCcEEEEeehhHhhhh-cC--chHHHH----HHHH
Confidence            886543  23555443211         123345566667777778999999999887532 11  011112    2344


Q ss_pred             HHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhh-hhccceEEEEEee-cC--CeEEEEEEeCCCCCccccc
Q 047388          256 SRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVL-AHAVTIRLMFRKG-KG--EQRVCKVFDAPNLPEAEAI  331 (352)
Q Consensus       256 ~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~-~~~~~~~i~L~~~-~~--~~R~~~i~Ks~~~~~~~~~  331 (352)
                      +.++.+ ++.++|+|+++|..... +.         .....+ ++.+|.+|.|+.. .+  ..|.++|.|+|..++... 
T Consensus       148 ~Li~~L-~~~g~TvLLtsh~~~~~-~~---------~~~~~~~e~laDgVI~L~~~~~~~~~~R~l~I~K~Rgs~~~~~-  215 (484)
T TIGR02655       148 RLVARL-KQIGVTTVMTTERIEEY-GP---------IARYGVEEFVSDNVVILRNVLEGERRRRTLEILKLRGTSHMKG-  215 (484)
T ss_pred             HHHHHH-HHCCCEEEEEecCcccc-cc---------cccCCceeEeeeeEEEEEEEecCCEEEEEEEEEECCCCCcCCc-
Confidence            444444 45799999999976521 11         011123 7899999999853 22  358999999998876543 


Q ss_pred             ccceeeeeEEEeCCCcc
Q 047388          332 SFSYHIILIKITPGGIA  348 (352)
Q Consensus       332 ~~~~~~~~f~I~~~Gi~  348 (352)
                           |++|+|+++||+
T Consensus       216 -----~~~~~It~~Gi~  227 (484)
T TIGR02655       216 -----EYPFTITDHGIN  227 (484)
T ss_pred             -----eEEEEEcCCcEE
Confidence                 467999999997

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=99.92  E-value=7.5e-24  Score=194.26  Aligned_cols=213  Identities=10%  Similarity=0.095  Sum_probs=149.9

Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHH-
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAER-  183 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~-  183 (352)
                      ..+++||++.||+++ ||+++|++++|+|+||+|||+|+.+++.+++..     .+.+|+||++|++  ..++...+.+ 
T Consensus        10 ~~~~~tg~~~Ld~~~-gG~~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~-----~g~~vl~iS~E~~--~~~~~~r~~~~   81 (271)
T cd01122          10 NEEVWWPFPVLNKLT-KGLRKGELIILTAGTGVGKTTFLREYALDLITQ-----HGVRVGTISLEEP--VVRTARRLLGQ   81 (271)
T ss_pred             ccCCCCCcceeeeee-EEEcCCcEEEEEcCCCCCHHHHHHHHHHHHHHh-----cCceEEEEEcccC--HHHHHHHHHHH
Confidence            348999999999998 899999999999999999999999999987762     3789999999986  4444433322 


Q ss_pred             -cCCCcc------------------ccc--ccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCc
Q 047388          184 -FGMDPG------------------AVL--DNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRG  242 (352)
Q Consensus       184 -~~~~~~------------------~~~--~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g  242 (352)
                       .+....                  .+.  .++.+...........++..+...+..+++++||||+++.+......   
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~d~~~~~~~~~i~~~i~~~~~~~~~~~vvID~l~~l~~~~~~---  158 (271)
T cd01122          82 YAGKRLHLPDTVFIYTLEEFDAAFDEFEGTGRLFMYDSFGEYSMDSVLEKVRYMAVSHGIQHIIIDNLSIMVSDERA---  158 (271)
T ss_pred             HhCCCcccCCccccccHHHHHHHHHHhcCCCcEEEEcCCCccCHHHHHHHHHHHHhcCCceEEEECCHHHHhccCCC---
Confidence             232221                  111  23555544333234455556666666779999999999998643211   


Q ss_pred             chHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCC-cccCCC---CCCCcchhhhhccceEEEEEeecC------
Q 047388          243 ELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGG-VFISDP---KKPAGGHVLAHAVTIRLMFRKGKG------  312 (352)
Q Consensus       243 ~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~-~~~~~~---~~~~gg~~~~~~~~~~i~L~~~~~------  312 (352)
                      . ..+...+..++..|+.+|++++++|++++|+++..... ...+.+   ....|+..+.+.+|.+|.|.+...      
T Consensus       159 ~-~~~~~~~~~~~~~L~~la~~~~vtvll~sq~~~~~~~~~~~~~~~~~~~d~~gs~~i~~~aD~vi~l~r~~~~e~~~~  237 (271)
T cd01122         159 S-GDERKALDEIMTKLRGFATEHGIHITLVSHLRRPDGDKTHEEGGEVSLSDFRGSAAIGQLADNVIALERNQQAELDER  237 (271)
T ss_pred             c-hhHHHHHHHHHHHHHHHHHHhCCEEEEEecccCccCCCccccCCCceEEeccCcHhHhhhccEEEEEEecCccccccC
Confidence            1 12224467889999999999999999999998743211 000011   124567789999999999997532      


Q ss_pred             CeEEEEEEeCCCC-Cccc
Q 047388          313 EQRVCKVFDAPNL-PEAE  329 (352)
Q Consensus       313 ~~R~~~i~Ks~~~-~~~~  329 (352)
                      ..|.+++.|+|.. +.+.
T Consensus       238 ~~~~i~v~K~R~~~~~g~  255 (271)
T cd01122         238 NTTYLRILKNRFTGGTGV  255 (271)
T ss_pred             CcEEEEEEeeccCCCccc
Confidence            4578999999986 5554

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>PHA02542 41 41 helicase; Provisional

Probab=99.91  E-value=1.3e-23  Score=204.65  Aligned_cols=211  Identities=17%  Similarity=0.120  Sum_probs=150.8

Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHH--H
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIA--E  182 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~--~  182 (352)
                      ..+++||++.||++++||+.+|+++.|.|+||+|||+|++++|.+++.      .+.+|+||+.|++  ...+..++  .
T Consensus       169 ~~gi~TG~~~LD~~t~gGl~~G~LiiIaarPgmGKTtfalniA~~~a~------~g~~Vl~fSLEM~--~~ql~~Rl~a~  240 (473)
T PHA02542        169 ANKIPFKLEILNKITKGGAERKTLNVLLAGVNVGKSLGLCSLAADYLQ------QGYNVLYISMEMA--EEVIAKRIDAN  240 (473)
T ss_pred             CCccCCCcHHHHHhccCCCCCCcEEEEEcCCCccHHHHHHHHHHHHHh------cCCcEEEEeccCC--HHHHHHHHHHH
Confidence            568999999999999899999999999999999999999999998874      5789999999987  44443332  3


Q ss_pred             HcCCCccccc-------------------ccEEEEec----CCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccC
Q 047388          183 RFGMDPGAVL-------------------DNIIYARA----YTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFT  239 (352)
Q Consensus       183 ~~~~~~~~~~-------------------~~i~~~~~----~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~  239 (352)
                      ..+++...+.                   .++++...    .+..++...+.++... ...++++||||+++.+-.....
T Consensus       241 ~~~i~~~~l~~l~~~~~~~~~~~~~~~~~~~l~I~~~d~~~lt~~~ir~~~rrlk~~-~g~~~dlVvIDYLqL~~~~~~~  319 (473)
T PHA02542        241 LLDVSLDDIDDLSKAEYKAKMEKLRSKTQGKLIIKQYPTGGAHAGHFRALLNELKLK-KNFKPDVIIVDYLGICASSRLR  319 (473)
T ss_pred             HcCCCHHHHhhcCHHHHHHHHHHHHHHhCCCceeecCCCCCCCHHHHHHHHHHHHHh-cCCCCCEEEEechhhccCCccc
Confidence            3344432211                   13433321    1233333333333211 1124899999999888532221


Q ss_pred             CCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCC--CCCCcchhhhhccceEEEEEeecC----C
Q 047388          240 GRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDP--KKPAGGHVLAHAVTIRLMFRKGKG----E  313 (352)
Q Consensus       240 ~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~--~~~~gg~~~~~~~~~~i~L~~~~~----~  313 (352)
                      +.  ...|+..+..+.+.||.+|++++|+||+++|+++..+.+   .+|  .-..++..+++.+|.+++|.|+..    +
T Consensus       320 ~~--~~nr~~ei~~Isr~LK~lAkel~vpVi~lsQLnR~~e~r---~dP~lsDLreSG~IEqdAD~vl~l~r~~~~~~~~  394 (473)
T PHA02542        320 VS--SENSYTYVKAIAEELRGLAVEHDVVVWTAAQTTRSGWDS---SDVDMSDTAESAGLPATADFMLAVIETEELAQMG  394 (473)
T ss_pred             CC--CCChHHHHHHHHHHHHHHHHHhCCeEEEEEeeCcccccc---CCCcchhcccccchHhhcCEEEEEecCcccccCC
Confidence            11  134667789999999999999999999999999976543   121  124667789999999999998532    3


Q ss_pred             eEEEEEEeCCCCCccc
Q 047388          314 QRVCKVFDAPNLPEAE  329 (352)
Q Consensus       314 ~R~~~i~Ks~~~~~~~  329 (352)
                      ...+.|.|+|++|.++
T Consensus       395 ~~eliv~KnR~G~~g~  410 (473)
T PHA02542        395 QQLVKQLKSRYGDKNK  410 (473)
T ss_pred             eEEEEEecCCCCCCCC
Confidence            4678899999999773

>PRK08760 replicative DNA helicase; Provisional

Probab=99.91  E-value=1.4e-23  Score=205.39  Aligned_cols=209  Identities=13%  Similarity=0.134  Sum_probs=149.1

Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHc
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERF  184 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~  184 (352)
                      ..+++||++.||+++ ||+.+|++++|+|+||+|||+|++++|.+++..     .+.+|+||+.|++  ...+..++...
T Consensus       209 ~~Gi~TG~~~LD~~t-~G~~~G~LivIaarPg~GKTafal~iA~~~a~~-----~g~~V~~fSlEMs--~~ql~~Rl~a~  280 (476)
T PRK08760        209 ITGLPTGYNDFDAMT-AGLQPTDLIILAARPAMGKTTFALNIAEYAAIK-----SKKGVAVFSMEMS--ASQLAMRLISS  280 (476)
T ss_pred             CCcccCCcHHHHHHh-cCCCCCceEEEEeCCCCChhHHHHHHHHHHHHh-----cCCceEEEeccCC--HHHHHHHHHHh
Confidence            468999999999987 789999999999999999999999999988752     4678999999987  44343332221


Q ss_pred             --CCCcc----------cc---------c--ccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCC
Q 047388          185 --GMDPG----------AV---------L--DNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGR  241 (352)
Q Consensus       185 --~~~~~----------~~---------~--~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~  241 (352)
                        +++..          +.         +  .++++.+... ....++...+++....+++++||||+++.+..+.   .
T Consensus       281 ~s~i~~~~i~~g~l~~~e~~~~~~a~~~l~~~~l~I~d~~~-~t~~~I~~~~r~l~~~~~~~lVvIDyLql~~~~~---~  356 (476)
T PRK08760        281 NGRINAQRLRTGALEDEDWARVTGAIKMLKETKIFIDDTPG-VSPEVLRSKCRRLKREHDLGLIVIDYLQLMSVPG---N  356 (476)
T ss_pred             hCCCcHHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEeCCCC-CCHHHHHHHHHHHHHhcCCCEEEEecHHhcCCCC---C
Confidence              12211          00         0  1344433322 1123333444445555689999999999774221   1


Q ss_pred             cchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCC-----CcchhhhhccceEEEEEeecC----
Q 047388          242 GELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKP-----AGGHVLAHAVTIRLMFRKGKG----  312 (352)
Q Consensus       242 g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~-----~gg~~~~~~~~~~i~L~~~~~----  312 (352)
                        ...|+..+.++.+.||.+|++++|+||+++|+++..+..    ..+.|     .++..|++.+|++++|.|...    
T Consensus       357 --~~~r~~ei~~Isr~LK~lAkel~ipVi~lsQLnR~~e~r----~~krP~lsDLreSg~IeqdAD~vl~l~R~~~y~~~  430 (476)
T PRK08760        357 --SENRATEISEISRSLKGLAKELNVPVIALSQLNRSLETR----TDKRPVMADLRESGAIEQDADMIVFIYRDDYYNKE  430 (476)
T ss_pred             --CcccHHHHHHHHHHHHHHHHHhCCEEEEeeccCcccccc----CCCCCCHHHHhhccchhcCCCEEEEEechhhcccc
Confidence              134566788999999999999999999999999976543    11223     457789999999999987421    


Q ss_pred             -----CeEEEEEEeCCCCCccccc
Q 047388          313 -----EQRVCKVFDAPNLPEAEAI  331 (352)
Q Consensus       313 -----~~R~~~i~Ks~~~~~~~~~  331 (352)
                           ....+.|.|+|++|.+.+.
T Consensus       431 ~~~~~~~~eliiaKnR~G~~g~~~  454 (476)
T PRK08760        431 NSPDKGLAEIIIGKHRGGPTGSCK  454 (476)
T ss_pred             cccCCCceEEEEEccCCCCCceEE
Confidence                 1346889999999999765

>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily

Probab=99.91  E-value=1.8e-23  Score=203.29  Aligned_cols=211  Identities=16%  Similarity=0.187  Sum_probs=148.7

Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHH--HH
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPI--AE  182 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~--~~  182 (352)
                      ..+++||++.||+++ ||+.+|++++|+|+||+|||+|+++++.+++..     .+.+|+||+.|++  ..++..+  +.
T Consensus       174 ~~gi~tG~~~LD~~~-~G~~~g~liviag~pg~GKT~~al~ia~~~a~~-----~g~~v~~fSlEm~--~~~l~~Rl~~~  245 (421)
T TIGR03600       174 LTGLSTGLPKLDRLT-NGLVKGDLIVIGARPSMGKTTLALNIAENVALR-----EGKPVLFFSLEMS--AEQLGERLLAS  245 (421)
T ss_pred             CcceeCCChhHHHHh-cCCCCCceEEEEeCCCCCHHHHHHHHHHHHHHh-----CCCcEEEEECCCC--HHHHHHHHHHH
Confidence            468999999999998 599999999999999999999999999887742     5788999999987  5444433  33


Q ss_pred             HcCCCccccc---------------------ccEEEEecCCHHHHHHHHHHHHHHhhcC-CceEEEEcccccchhcccCC
Q 047388          183 RFGMDPGAVL---------------------DNIIYARAYTYEHQYNLLLGLAAKMSEE-PFRLLIVDSVIALFRVDFTG  240 (352)
Q Consensus       183 ~~~~~~~~~~---------------------~~i~~~~~~~~~~~~~~l~~l~~~l~~~-~~~lvvIDsl~~l~~~~~~~  240 (352)
                      ..+++...+.                     .++++..... ....++...+.+...++ ++++||||+++.+...  .+
T Consensus       246 ~~~v~~~~~~~~~l~~~~~~~~~~~~~~l~~~~l~i~d~~~-~t~~~i~~~~r~~~~~~~~~~lvvIDyLql~~~~--~~  322 (421)
T TIGR03600       246 KSGINTGNIRTGRFNDSDFNRLLNAVDRLSEKDLYIDDTGG-LTVAQIRSIARRIKRKKGGLDLIVVDYIQLMAPT--RG  322 (421)
T ss_pred             HcCCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCC-CCHHHHHHHHHHHHHhcCCCCEEEEecccccCCC--CC
Confidence            3343321100                     1344433311 12223333333343444 6999999999988532  11


Q ss_pred             CcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCC--CCCcchhhhhccceEEEEEeecC------
Q 047388          241 RGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPK--KPAGGHVLAHAVTIRLMFRKGKG------  312 (352)
Q Consensus       241 ~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~--~~~gg~~~~~~~~~~i~L~~~~~------  312 (352)
                          ..|...+..+.+.||.+|++++++||+++|+++..+... ...|.  -..++..+++.+|++++|.|...      
T Consensus       323 ----~~~~~~~~~i~~~Lk~lAke~~i~Vi~lsQlnr~~~~r~-~krp~lsdlr~Sg~Ieq~AD~v~~l~R~~~~~~~~~  397 (421)
T TIGR03600       323 ----RDRNEELGGISRGLKALAKELDVPVVLLAQLNRGSEKRT-DKRPIMSDLRDSGAIEQDADVIGLIHREGYYDAREP  397 (421)
T ss_pred             ----CCHHHHHHHHHHHHHHHHHHhCCcEEEecccCcchhhcC-CCCCChHHHhhcCCccccCcEEEEeccccccCCccC
Confidence                234567889999999999999999999999998654320 01111  13556789999999999998531      


Q ss_pred             --CeEEEEEEeCCCCCccccc
Q 047388          313 --EQRVCKVFDAPNLPEAEAI  331 (352)
Q Consensus       313 --~~R~~~i~Ks~~~~~~~~~  331 (352)
                        +...+.|.|+|++|.+.+.
T Consensus       398 ~~~~~el~v~K~R~G~~g~~~  418 (421)
T TIGR03600       398 PAGVAELILAKNRHGPTGTVE  418 (421)
T ss_pred             CCCceEEEEECCCCCCCceEE
Confidence              2346889999999998764

Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.

>PRK09165 replicative DNA helicase; Provisional

Probab=99.91  E-value=2.1e-23  Score=205.28  Aligned_cols=219  Identities=15%  Similarity=0.168  Sum_probs=151.1

Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCcc---------CCCCCeEEEEeCCCCCChh
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNM---------RGGNGKVAYIDTEGTFRPD  175 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~---------gg~~~~vl~i~~e~~~~~~  175 (352)
                      ..+++||++.||.++ ||+.+|++++|+|+||+|||+|+++++.+++.....         -..+.+|+||+.|++  ..
T Consensus       197 ~~gi~TG~~~LD~~~-gG~~~g~livIaarpg~GKT~~al~ia~~~a~~~~~~~~~~~~~~~~~g~~vl~fSlEMs--~~  273 (497)
T PRK09165        197 LSGISTGLRDLDSKL-GGLHPSDLIILAGRPSMGKTALATNIAFNAAKAYRREAQPDGSKKAVNGGVVGFFSLEMS--AE  273 (497)
T ss_pred             CCcccCChHHHhhhc-CCCCCCceEEEEeCCCCChHHHHHHHHHHHHHhhcccccccccccccCCCeEEEEeCcCC--HH
Confidence            468999999999998 799999999999999999999999999987642100         012578999999987  44


Q ss_pred             hHHHH--HHHcCCCccccc---------------------ccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEccccc
Q 047388          176 RIVPI--AERFGMDPGAVL---------------------DNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIA  232 (352)
Q Consensus       176 rl~~~--~~~~~~~~~~~~---------------------~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~  232 (352)
                      .+..+  +...+++...+.                     .++++..... ....++...+++...++++++||||+++.
T Consensus       274 ql~~R~la~~s~v~~~~i~~~~l~~~e~~~l~~a~~~l~~~~l~I~d~~~-~ti~~i~~~ir~l~~~~~~~lvvIDyLql  352 (497)
T PRK09165        274 QLATRILSEQSEISSSKIRRGKISEEDFEKLVDASQELQKLPLYIDDTPA-LSISQLRARARRLKRQHGLDLLVVDYLQL  352 (497)
T ss_pred             HHHHHHHHHhcCCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCeEEeCCCC-CCHHHHHHHHHHHHHhcCCCEEEEcchHh
Confidence            44433  333344332111                     0233332211 12233334444555567899999999997


Q ss_pred             chhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCC--CCCcchhhhhccceEEEEEee
Q 047388          233 LFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPK--KPAGGHVLAHAVTIRLMFRKG  310 (352)
Q Consensus       233 l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~--~~~gg~~~~~~~~~~i~L~~~  310 (352)
                      +......   ....|...+..+.+.||.+|++++|+||+++|+++..+.. -+..|.  -..++..+++.+|++++|.|.
T Consensus       353 i~~~~~~---~~~~r~~ev~~is~~LK~lAkel~ipVi~lsQLnR~~e~r-~~krP~lsDLr~Sg~IEqdAD~v~~l~R~  428 (497)
T PRK09165        353 IRGSSKR---SSDNRVQEISEITQGLKALAKELNIPVIALSQLSRQVEQR-DDKRPQLSDLRESGSIEQDADVVMFVYRE  428 (497)
T ss_pred             ccCCCCC---CCCchHHHHHHHHHHHHHHHHHhCCeEEEeecccchhhcc-CCCCCchhhhhhccchhccCCEEEEEeeh
Confidence            7432110   0124556789999999999999999999999999976542 001111  135677899999999999874


Q ss_pred             cC-------------------------CeEEEEEEeCCCCCccccc
Q 047388          311 KG-------------------------EQRVCKVFDAPNLPEAEAI  331 (352)
Q Consensus       311 ~~-------------------------~~R~~~i~Ks~~~~~~~~~  331 (352)
                      ..                         ..--+.|.|+|++|.+.+.
T Consensus       429 ~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~e~ivaKnR~G~~g~~~  474 (497)
T PRK09165        429 EYYLKRKEPREGTPKHEEWQEKMEKVHNKAEVIIAKQRHGPTGTVK  474 (497)
T ss_pred             hhhccccccccccchhhhhhhhhcccCCceEEEEeccCCCCCeeEE
Confidence            21                         1235678999999998765

>TIGR00665 DnaB replicative DNA helicase

Probab=99.91  E-value=4.5e-23  Score=201.29  Aligned_cols=209  Identities=15%  Similarity=0.178  Sum_probs=149.2

Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHH--
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAE--  182 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~--  182 (352)
                      ..+++||++.||+++ ||+++|++++|.|+||+|||+|+++++.+++..     .+.+|+||+.|++  +..+...+-  
T Consensus       175 ~~gi~tG~~~LD~~~-~G~~~G~l~vi~g~pg~GKT~~~l~~a~~~a~~-----~g~~vl~~SlEm~--~~~i~~R~~~~  246 (434)
T TIGR00665       175 ITGVPTGFTDLDKLT-SGLQPSDLIILAARPSMGKTAFALNIAENAAIK-----EGKPVAFFSLEMS--AEQLAMRMLSS  246 (434)
T ss_pred             CCcccCCchhhHhhc-CCCCCCeEEEEEeCCCCChHHHHHHHHHHHHHh-----CCCeEEEEeCcCC--HHHHHHHHHHH
Confidence            568999999999998 799999999999999999999999999987752     4678999999987  544433322  


Q ss_pred             HcCCCccc--------------------ccc-cEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCC
Q 047388          183 RFGMDPGA--------------------VLD-NIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGR  241 (352)
Q Consensus       183 ~~~~~~~~--------------------~~~-~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~  241 (352)
                      ..+++...                    +.+ ++++....+ ....++...+.+...++++++||||+++.+.....   
T Consensus       247 ~~~v~~~~~~~g~l~~~~~~~~~~a~~~l~~~~l~i~d~~~-~~~~~i~~~i~~~~~~~~~~~vvID~l~~i~~~~~---  322 (434)
T TIGR00665       247 ESRVDSQKLRTGKLSDEDWEKLTSAAGKLSEAPLYIDDTPG-LTITELRAKARRLKREHGLGLIVIDYLQLMSGSGR---  322 (434)
T ss_pred             hcCCCHHHhccCCCCHHHHHHHHHHHHHHhcCCEEEECCCC-CCHHHHHHHHHHHHHhcCCCEEEEcchHhcCCCCC---
Confidence            22322110                    001 233332211 12334444555555667899999999988732211   


Q ss_pred             cchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCC-----CcchhhhhccceEEEEEeecC----
Q 047388          242 GELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKP-----AGGHVLAHAVTIRLMFRKGKG----  312 (352)
Q Consensus       242 g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~-----~gg~~~~~~~~~~i~L~~~~~----  312 (352)
                        ...|...+..+++.|+.+|++++|+||+++|+++..+..    ....|     .++..+++.+|.+++|.+...    
T Consensus       323 --~~~r~~~i~~i~~~Lk~lA~e~~i~vi~lsqlnr~~~~r----~~~~p~lsdlr~Sg~ieq~aD~vi~l~r~~~~~~~  396 (434)
T TIGR00665       323 --SENRQQEVSEISRSLKALAKELNVPVIALSQLSRSVEQR----EDKRPQLSDLRESGSIEQDADIVMFLYRDEYYNPD  396 (434)
T ss_pred             --CCCHHHHHHHHHHHHHHHHHHhCCeEEEEeccCcchhcc----CCCCCChHHHhhccchhhcCCEEEEeccccccCCC
Confidence              123556688999999999999999999999999865432    11123     456789999999999987531    


Q ss_pred             ----CeEEEEEEeCCCCCccccc
Q 047388          313 ----EQRVCKVFDAPNLPEAEAI  331 (352)
Q Consensus       313 ----~~R~~~i~Ks~~~~~~~~~  331 (352)
                          ..-.+.|.|+|+++.+.+.
T Consensus       397 ~~~~~~~~l~v~KnR~G~~g~~~  419 (434)
T TIGR00665       397 SEDKGIAEIIIAKQRNGPTGTVK  419 (434)
T ss_pred             cCCCCceEEEEecCCCCCCCeEE
Confidence                2357889999999988765

This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.

>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork

Probab=99.90  E-value=7.2e-23  Score=186.53  Aligned_cols=205  Identities=21%  Similarity=0.302  Sum_probs=139.3

Q ss_pred             ccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHH--HHHHc
Q 047388          107 KITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVP--IAERF  184 (352)
Q Consensus       107 ~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~--~~~~~  184 (352)
                      +|+||++.||+++ ||+.+|+++.|+|+||+|||+|++++|.+++..     .+.+|+||+.|++  .+++..  ++...
T Consensus         1 Gi~TG~~~LD~~l-gG~~~g~L~vi~a~pg~GKT~~~l~ia~~~a~~-----~~~~vly~SlEm~--~~~l~~R~la~~s   72 (259)
T PF03796_consen    1 GIPTGFPALDRLL-GGLRPGELTVIAARPGVGKTAFALQIALNAALN-----GGYPVLYFSLEMS--EEELAARLLARLS   72 (259)
T ss_dssp             SB-SSTHHHHHHH-SSB-TT-EEEEEESTTSSHHHHHHHHHHHHHHT-----TSSEEEEEESSS---HHHHHHHHHHHHH
T ss_pred             CCCCChHHHHHHh-cCCCcCcEEEEEecccCCchHHHHHHHHHHHHh-----cCCeEEEEcCCCC--HHHHHHHHHHHhh
Confidence            5899999999999 699999999999999999999999999998872     2589999999987  443333  33333


Q ss_pred             CCCcc--------------------cccc-cEEEEecC--CHHHHHHHHHHHHHHhhc-CCceEEEEcccccchhcccCC
Q 047388          185 GMDPG--------------------AVLD-NIIYARAY--TYEHQYNLLLGLAAKMSE-EPFRLLIVDSVIALFRVDFTG  240 (352)
Q Consensus       185 ~~~~~--------------------~~~~-~i~~~~~~--~~~~~~~~l~~l~~~l~~-~~~~lvvIDsl~~l~~~~~~~  240 (352)
                      +++..                    .+.+ ++++....  +..++...   +...... .++++||||+++.+-....  
T Consensus        73 ~v~~~~i~~g~l~~~e~~~~~~~~~~l~~~~l~i~~~~~~~~~~i~~~---i~~~~~~~~~~~~v~IDyl~ll~~~~~--  147 (259)
T PF03796_consen   73 GVPYNKIRSGDLSDEEFERLQAAAEKLSDLPLYIEDTPSLTIDDIESK---IRRLKREGKKVDVVFIDYLQLLKSEDS--  147 (259)
T ss_dssp             TSTHHHHHCCGCHHHHHHHHHHHHHHHHTSEEEEEESSS-BHHHHHHH---HHHHHHHSTTEEEEEEEEGGGSBTSCS--
T ss_pred             cchhhhhhccccCHHHHHHHHHHHHHHhhCcEEEECCCCCCHHHHHHH---HHHHHhhccCCCEEEechHHHhcCCCC--
Confidence            33211                    0111 24443332  33343333   3333334 6899999999998865431  


Q ss_pred             CcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCC-----CcchhhhhccceEEEEEeecC---
Q 047388          241 RGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKP-----AGGHVLAHAVTIRLMFRKGKG---  312 (352)
Q Consensus       241 ~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~-----~gg~~~~~~~~~~i~L~~~~~---  312 (352)
                      .   ..+...+..+++.|+.+|++++++||+++|+++..+..    .+..|     .++..+++.+|++++|.+...   
T Consensus       148 ~---~~~~~~~~~i~~~Lk~lA~~~~i~vi~~sQlnr~~~~~----~~~~p~l~dl~~sg~Ie~~AD~vl~l~r~~~~~~  220 (259)
T PF03796_consen  148 S---DNRRQEIGEISRELKALAKELNIPVIALSQLNREAEDR----EDKRPSLSDLRESGAIEQDADVVLFLHRDEKYDE  220 (259)
T ss_dssp             S---SCCHHHHHHHHHHHHHHHHHHTSEEEEEEEBSGGGGGS----SSCS--HHHHCSTSSHHHH-SEEEEEEEHCHCHC
T ss_pred             C---CCHHHHHHHHHHHHHHHHHHcCCeEEEccccChhhhcc----cccccchhhhhhhHHHHHHHhhhhhhccchhhcc
Confidence            1   11224578999999999999999999999999853221    11233     456789999999999998531   


Q ss_pred             -----CeEEEEEEeCCCCCccccc
Q 047388          313 -----EQRVCKVFDAPNLPEAEAI  331 (352)
Q Consensus       313 -----~~R~~~i~Ks~~~~~~~~~  331 (352)
                           ..-.+.|.|+|+++.+.+.
T Consensus       221 ~~~~~~~~~l~v~KnR~G~~g~v~  244 (259)
T PF03796_consen  221 DRDDKGEAELIVAKNRNGPTGTVP  244 (259)
T ss_dssp             CSSCTTEEEEEEEEESSS--EEEE
T ss_pred             ccCCCCeEEEEEEecCCCCCceEE
Confidence                 2456889999999988665

Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....

>PRK05595 replicative DNA helicase; Provisional

Probab=99.90  E-value=1e-22  Score=198.77  Aligned_cols=209  Identities=14%  Similarity=0.186  Sum_probs=150.9

Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHH--HH
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPI--AE  182 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~--~~  182 (352)
                      ..+++||++.||.++ ||+.+|++++|.|+||+|||+|+++++.+++..     .+.+|+||+.|++  ...+..+  +.
T Consensus       181 ~~gi~tg~~~ld~~~-~G~~~g~liviaarpg~GKT~~al~ia~~~a~~-----~g~~vl~fSlEms--~~~l~~R~~a~  252 (444)
T PRK05595        181 TTGVASGFRELDAKT-SGFQKGDMILIAARPSMGKTTFALNIAEYAALR-----EGKSVAIFSLEMS--KEQLAYKLLCS  252 (444)
T ss_pred             CCcccCChHHHHHhc-CCCCCCcEEEEEecCCCChHHHHHHHHHHHHHH-----cCCcEEEEecCCC--HHHHHHHHHHH
Confidence            458999999999988 799999999999999999999999999876542     4778999999987  4444433  33


Q ss_pred             HcCCCcccc-------------------c--ccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCC
Q 047388          183 RFGMDPGAV-------------------L--DNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGR  241 (352)
Q Consensus       183 ~~~~~~~~~-------------------~--~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~  241 (352)
                      ..+++...+                   +  .++++.+..+ ....++...+.+...++++++||||+++.+-...    
T Consensus       253 ~~~v~~~~~~~~~l~~~e~~~~~~~~~~l~~~~l~i~d~~~-~t~~~i~~~~r~~~~~~~~~~vvIDylql~~~~~----  327 (444)
T PRK05595        253 EANVDMLRLRTGNLEDKDWENIARASGPLAAAKIFIDDTAG-VSVMEMRSKCRRLKIEHGIDMILIDYLQLMSGGK----  327 (444)
T ss_pred             hcCCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCC-CCHHHHHHHHHHHHHhcCCCEEEEeHHHhccCCC----
Confidence            333332111                   0  1344433322 1223344444555555789999999999774211    


Q ss_pred             cchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCC-----CcchhhhhccceEEEEEeecC----
Q 047388          242 GELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKP-----AGGHVLAHAVTIRLMFRKGKG----  312 (352)
Q Consensus       242 g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~-----~gg~~~~~~~~~~i~L~~~~~----  312 (352)
                       ....|...+.++.+.||.+|++++|+||+++|+++..+..    .++.|     .++..+++.+|.+++|.|..-    
T Consensus       328 -~~~~r~~~v~~is~~LK~lAke~~i~vi~lsQLnR~~e~r----~~~rP~lsdlr~Sg~Ieq~AD~vl~l~r~~~~~~~  402 (444)
T PRK05595        328 -GSESRQQEVSEISRSIKALAKEMECPVIALSQLSRAPEQR----ADHRPMLSDLRESGSIEQDADVVMFLYRDEYYNKE  402 (444)
T ss_pred             -CCccHHHHHHHHHHHHHHHHHHhCCeEEEeeccCcchhcc----CCCCCchhhhhhhcccccCCCEEEEEecccccccc
Confidence             1234666789999999999999999999999999866542    11223     456789999999999997521    


Q ss_pred             ----CeEEEEEEeCCCCCccccc
Q 047388          313 ----EQRVCKVFDAPNLPEAEAI  331 (352)
Q Consensus       313 ----~~R~~~i~Ks~~~~~~~~~  331 (352)
                          ..-.+.|.|+|++|.+.+.
T Consensus       403 ~~~~~~~e~iv~K~R~G~~g~~~  425 (444)
T PRK05595        403 TEDKNVAECIIAKQRNGPTGTVK  425 (444)
T ss_pred             cCCCCceEEEEEccCCCCCceEE
Confidence                2346789999999999765

>PRK06321 replicative DNA helicase; Provisional

Probab=99.90  E-value=9.8e-23  Score=198.63  Aligned_cols=212  Identities=14%  Similarity=0.126  Sum_probs=150.0

Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHH--H
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIA--E  182 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~--~  182 (352)
                      ..+++||++.||+++ ||+++|++++|+|+||+|||+|+++++.+++..     .+.+|+||+.|++  ...+..++  .
T Consensus       206 ~~Gi~tG~~~LD~~t-~Gl~~G~LiiiaarPgmGKTafal~ia~~~a~~-----~g~~v~~fSLEMs--~~ql~~Rlla~  277 (472)
T PRK06321        206 ISGIPTHFIDLDKMI-NGFSPSNLMILAARPAMGKTALALNIAENFCFQ-----NRLPVGIFSLEMT--VDQLIHRIICS  277 (472)
T ss_pred             CCccccCcHHHHHHh-cCCCCCcEEEEEeCCCCChHHHHHHHHHHHHHh-----cCCeEEEEeccCC--HHHHHHHHHHh
Confidence            358999999999998 699999999999999999999999999987642     4678999999987  44443332  2


Q ss_pred             HcCCCcc----------cc----------c-ccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCC
Q 047388          183 RFGMDPG----------AV----------L-DNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGR  241 (352)
Q Consensus       183 ~~~~~~~----------~~----------~-~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~  241 (352)
                      ..+++..          ++          . .++++.+. ......++...+++...++++++||||+|+.+-..... +
T Consensus       278 ~s~v~~~~i~~~~l~~~e~~~~~~a~~~l~~~~~~idd~-~~~ti~~i~~~~r~~~~~~~~~lvvIDyLql~~~~~~~-~  355 (472)
T PRK06321        278 RSEVESKKISVGDLSGRDFQRIVSVVNEMQEHTLLIDDQ-PGLKITDLRARARRMKESYDIQFLIIDYLQLLSGSGNL-R  355 (472)
T ss_pred             hcCCCHHHhhcCCCCHHHHHHHHHHHHHHHcCCEEEeCC-CCCCHHHHHHHHHHHHHhcCCCEEEEcchHHcCCCCcc-C
Confidence            2222211          00          0 12333222 11122334444445555678999999999887422110 0


Q ss_pred             cchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCC-----CcchhhhhccceEEEEEeecC----
Q 047388          242 GELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKP-----AGGHVLAHAVTIRLMFRKGKG----  312 (352)
Q Consensus       242 g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~-----~gg~~~~~~~~~~i~L~~~~~----  312 (352)
                       ....|+..+.++.+.||.+|++++|+||+++|+++..++.    ..+.|     .++..+++.+|.+++|.|...    
T Consensus       356 -~~~~r~~ei~~Isr~LK~lAkel~vpVi~lsQLnR~~e~r----~~krP~lsDLReSG~IEqdAD~v~~l~R~~~y~~~  430 (472)
T PRK06321        356 -NSESRQTEISEISRMLKNLARELNIPILCLSQLSRKVEDR----ANHRPMMSDLRESGSIEQDSDLVMFLLRREYYDPN  430 (472)
T ss_pred             -CcchHHHHHHHHHHHHHHHHHHhCCcEEEEeecChhhhcc----CCCCCCHHHHhhcccccccCCEEEEEechhhcCCc
Confidence             1235667889999999999999999999999999976543    11233     456789999999999988421    


Q ss_pred             ---CeEEEEEEeCCCCCccccc
Q 047388          313 ---EQRVCKVFDAPNLPEAEAI  331 (352)
Q Consensus       313 ---~~R~~~i~Ks~~~~~~~~~  331 (352)
                         ..-.+.|.|+|++|.+.+.
T Consensus       431 ~~~~~~elivaKnR~G~~G~v~  452 (472)
T PRK06321        431 DKPGTAELIVAKNRHGSIGSVP  452 (472)
T ss_pred             CCCCceEEEEEecCCCCCceEE
Confidence               2356889999999998765

>PRK07004 replicative DNA helicase; Provisional

Probab=99.90  E-value=3.2e-22  Score=195.18  Aligned_cols=212  Identities=14%  Similarity=0.108  Sum_probs=148.4

Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHH--H
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIA--E  182 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~--~  182 (352)
                      ..+++||++.||+++ ||+++|++++|+|+||+|||+|+++++.+++..     .+.+|+||+.|++  ...+..++  .
T Consensus       193 ~~gi~TG~~~LD~~t-~G~~~g~liviaarpg~GKT~~al~ia~~~a~~-----~~~~v~~fSlEM~--~~ql~~R~la~  264 (460)
T PRK07004        193 VTGTPTGFVDLDRMT-SGMHGGELIIVAGRPSMGKTAFSMNIGEYVAVE-----YGLPVAVFSMEMP--GTQLAMRMLGS  264 (460)
T ss_pred             CCCccCCcHHhcccc-cCCCCCceEEEEeCCCCCccHHHHHHHHHHHHH-----cCCeEEEEeCCCC--HHHHHHHHHHh
Confidence            458999999999988 699999999999999999999999999987653     5788999999987  44333322  1


Q ss_pred             HcCCCc----------cc----------cc-ccEEEEecCCHHHHHHHHHHHHHHhhcC-CceEEEEcccccchhcccCC
Q 047388          183 RFGMDP----------GA----------VL-DNIIYARAYTYEHQYNLLLGLAAKMSEE-PFRLLIVDSVIALFRVDFTG  240 (352)
Q Consensus       183 ~~~~~~----------~~----------~~-~~i~~~~~~~~~~~~~~l~~l~~~l~~~-~~~lvvIDsl~~l~~~~~~~  240 (352)
                      .-+++.          ++          +. .++++....+ ....++...+++...+. ++++||||+++.+-...   
T Consensus       265 ~~~v~~~~i~~g~l~~~e~~~~~~a~~~l~~~~l~I~d~~~-~~~~~i~~~~r~l~~~~~~~~lviIDYLql~~~~~---  340 (460)
T PRK07004        265 VGRLDQHRMRTGRLTDEDWPKLTHAVQKMSEAQLFIDETGG-LNPMELRSRARRLARQCGKLGLIIIDYLQLMSGSS---  340 (460)
T ss_pred             hcCCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCC-CCHHHHHHHHHHHHHhCCCCCEEEEChhhhccCCC---
Confidence            111111          10          10 1244432222 12233333444444444 58999999999884321   


Q ss_pred             CcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCC--CCCcchhhhhccceEEEEEeecC------
Q 047388          241 RGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPK--KPAGGHVLAHAVTIRLMFRKGKG------  312 (352)
Q Consensus       241 ~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~--~~~gg~~~~~~~~~~i~L~~~~~------  312 (352)
                      .  ...|+..+.++.+.||.+|++++|+||+++|+++..+.. -...|.  -..++..+++.+|.+++|.|...      
T Consensus       341 ~--~~~r~~ei~~Isr~LK~lAkel~ipVi~lsQLnR~~e~r-~~krP~lsDLreSg~IeqdAD~v~~l~R~~~y~~~~~  417 (460)
T PRK07004        341 Q--GENRATEISEISRSLKSLAKELDVPVIALSQLNRGLEQR-PNKRPVMSDLRESGAIEQDADVILFIYRDEVYNPDSP  417 (460)
T ss_pred             C--CCcHHHHHHHHHHHHHHHHHHhCCeEEEEeccChhhhcc-CCCCCChHHHhcchhhhhcCCEEEEeccccccCCCcC
Confidence            1  134667889999999999999999999999999976543 111111  13557789999999999998531      


Q ss_pred             --CeEEEEEEeCCCCCccccc
Q 047388          313 --EQRVCKVFDAPNLPEAEAI  331 (352)
Q Consensus       313 --~~R~~~i~Ks~~~~~~~~~  331 (352)
                        ..--+.|.|+|++|.+.+.
T Consensus       418 ~~g~~e~ivaKnR~G~~G~v~  438 (460)
T PRK07004        418 DKGTAEIIIGKQRNGPIGPVR  438 (460)
T ss_pred             CCCceEEEEEccCCCCCceEE
Confidence              1245789999999999765

>PRK08006 replicative DNA helicase; Provisional

Probab=99.90  E-value=2.3e-22  Score=196.18  Aligned_cols=212  Identities=14%  Similarity=0.137  Sum_probs=148.8

Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHH--H
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIA--E  182 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~--~  182 (352)
                      ..+++||++.||+++ ||+.+|++++|+|.||+|||+|++++|.+++..     .+.+|+||+.|++  ...+..++  .
T Consensus       204 ~~Gi~TG~~~LD~~~-~Gl~~G~LiiIaarPgmGKTafalnia~~~a~~-----~g~~V~~fSlEM~--~~ql~~Rlla~  275 (471)
T PRK08006        204 VTGVNTGYDDLNKKT-AGLQPSDLIIVAARPSMGKTTFAMNLCENAAML-----QDKPVLIFSLEMP--GEQIMMRMLAS  275 (471)
T ss_pred             CCcccCCCHHHHHhh-cCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHh-----cCCeEEEEeccCC--HHHHHHHHHHH
Confidence            357999999999988 899999999999999999999999999998752     4678999999987  44333222  2


Q ss_pred             HcCCC----------cc----------ccc--ccEEEEecCCHHHHHHHHHHHHHHhhcC-CceEEEEcccccchhcccC
Q 047388          183 RFGMD----------PG----------AVL--DNIIYARAYTYEHQYNLLLGLAAKMSEE-PFRLLIVDSVIALFRVDFT  239 (352)
Q Consensus       183 ~~~~~----------~~----------~~~--~~i~~~~~~~~~~~~~~l~~l~~~l~~~-~~~lvvIDsl~~l~~~~~~  239 (352)
                      ..+++          .+          .++  .++++.+... ....++...+++...++ ++++||||+++.+..... 
T Consensus       276 ~~~v~~~~i~~~~l~~~e~~~~~~a~~~~~~~~~l~I~d~~~-~t~~~i~~~~r~~~~~~~~~~lvvIDYLqli~~~~~-  353 (471)
T PRK08006        276 LSRVDQTRIRTGQLDDEDWARISGTMGILLEKRNMYIDDSSG-LTPTEVRSRARRIFREHGGLSLIMIDYLQLMRVPSL-  353 (471)
T ss_pred             hcCCCHHHhhcCCCCHHHHHHHHHHHHHHHhcCCEEEECCCC-CCHHHHHHHHHHHHHhcCCCCEEEEccHHHccCCCC-
Confidence            11211          11          111  2344443321 12233333444444455 699999999998743211 


Q ss_pred             CCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCC--CCCcchhhhhccceEEEEEeecC-----
Q 047388          240 GRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPK--KPAGGHVLAHAVTIRLMFRKGKG-----  312 (352)
Q Consensus       240 ~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~--~~~gg~~~~~~~~~~i~L~~~~~-----  312 (352)
                          ...|+..+.++.+.||.+|++++|+||+++|+++..+.. -...|.  -..++..+++.+|.+++|.|..-     
T Consensus       354 ----~~~r~~ei~~isr~LK~lAkel~ipVi~LsQLnR~~e~r-~dkrP~lsDLreSG~IEqdAD~v~~l~R~~~y~~~~  428 (471)
T PRK08006        354 ----SDNRTLEIAEISRSLKALAKELQVPVVALSQLNRSLEQR-ADKRPVNSDLRESGSIEQDADLIMFIYRDEVYHENS  428 (471)
T ss_pred             ----CCCcHHHHHHHHHHHHHHHHHhCCeEEEEEecCcccccc-CCCCCchhhhhhcCcccccCCEEEEEeccccccccc
Confidence                124556789999999999999999999999999976543 111111  12456789999999999998531     


Q ss_pred             ---CeEEEEEEeCCCCCccccc
Q 047388          313 ---EQRVCKVFDAPNLPEAEAI  331 (352)
Q Consensus       313 ---~~R~~~i~Ks~~~~~~~~~  331 (352)
                         +.-.+.|.|+|++|.+.+.
T Consensus       429 ~~~g~~elivaKnR~G~~G~v~  450 (471)
T PRK08006        429 DLKGIAEIIIGKQRNGPIGTVR  450 (471)
T ss_pred             CCCCceEEEEecccCCCCceEE
Confidence               2245779999999998765

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=99.90  E-value=1.4e-22  Score=182.81  Aligned_cols=203  Identities=15%  Similarity=0.174  Sum_probs=141.2

Q ss_pred             hhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHH--HHHcCCCcccc
Q 047388          114 ALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPI--AERFGMDPGAV  191 (352)
Q Consensus       114 ~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~--~~~~~~~~~~~  191 (352)
                      +||+++ ||+++|++++|+|+||+|||+|+++++.+.+..     .+.+|+||+.|++  +..+...  +...+++...+
T Consensus         2 ~LD~~~-~Gl~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~-----~g~~vly~s~E~~--~~~~~~r~~~~~~~~~~~~~   73 (242)
T cd00984           2 DLDNLT-GGLQPGDLIIIAARPSMGKTAFALNIAENIAKK-----QGKPVLFFSLEMS--KEQLLQRLLASESGISLSKL   73 (242)
T ss_pred             chhhhh-cCCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHh-----CCCceEEEeCCCC--HHHHHHHHHHHhcCCCHHHH
Confidence            589999 599999999999999999999999999998872     3889999999987  4444433  23445443211


Q ss_pred             c---------------------ccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHH
Q 047388          192 L---------------------DNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQK  250 (352)
Q Consensus       192 ~---------------------~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~  250 (352)
                      .                     .++++..... ....++...+......+++++||||+++.+.... .    ...+...
T Consensus        74 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~-~~~~~l~~~i~~~~~~~~~~~vvID~l~~l~~~~-~----~~~~~~~  147 (242)
T cd00984          74 RTGSLSDEDWERLAEAIGELKELPIYIDDSSS-LTVSDIRSRARRLKKEHGLGLIVIDYLQLMSGSK-K----KGNRQQE  147 (242)
T ss_pred             hcCCCCHHHHHHHHHHHHHHhcCCEEEeCCCC-CCHHHHHHHHHHHHHhcCCCEEEEcCchhcCCCC-C----CCCHHHH
Confidence            1                     1233322211 1223344445555566699999999999875322 1    1123345


Q ss_pred             HHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCC--CCCCcchhhhhccceEEEEEeec--------CCeEEEEEE
Q 047388          251 LGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDP--KKPAGGHVLAHAVTIRLMFRKGK--------GEQRVCKVF  320 (352)
Q Consensus       251 l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~--~~~~gg~~~~~~~~~~i~L~~~~--------~~~R~~~i~  320 (352)
                      +..+++.|+.+|+++|+++|+++|+++...+.. ...+  ....++..+.+.+|.+|.|.+..        ...-.+.+.
T Consensus       148 ~~~~~~~L~~la~~~~~~ii~~~q~~r~~~~~~-~~~~~~~~~~gS~~i~~~aD~vi~l~~~~~~~~~~~~~~~~~l~v~  226 (242)
T cd00984         148 VAEISRSLKLLAKELNVPVIALSQLSRGVESRA-DKRPMLSDLRESGSIEQDADVVMFLYRDEYYNKESESKGIAEIIVA  226 (242)
T ss_pred             HHHHHHHHHHHHHHhCCeEEEecccChhhhccC-CCCCCHHHHhhhcccccCCCEEEEEecccccccccCCCCceEEEEE
Confidence            679999999999999999999999987432210 0111  11345678899999999998864        234578999


Q ss_pred             eCCCCCccccc
Q 047388          321 DAPNLPEAEAI  331 (352)
Q Consensus       321 Ks~~~~~~~~~  331 (352)
                      |+|+++.+.+.
T Consensus       227 KnR~G~~g~~~  237 (242)
T cd00984         227 KNRNGPTGTVE  237 (242)
T ss_pred             CCCCCCCeeEE
Confidence            99999988765

The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.

>PRK05636 replicative DNA helicase; Provisional

Probab=99.90  E-value=1.4e-22  Score=198.89  Aligned_cols=214  Identities=14%  Similarity=0.164  Sum_probs=149.1

Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHc
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERF  184 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~  184 (352)
                      ..+++||++.||+++ ||+.+|++++|.|+||+|||+|++++|.+++..     .+.+|+||+.|++...-..+.++...
T Consensus       245 ~~Gi~TG~~~LD~~t-~Gl~~G~Liiiaarpg~GKT~~al~~a~~~a~~-----~g~~v~~fSlEMs~~ql~~R~ls~~s  318 (505)
T PRK05636        245 ATGIPTGFKDLDDLT-NGLRGGQMIIVAARPGVGKSTLALDFMRSASIK-----HNKASVIFSLEMSKSEIVMRLLSAEA  318 (505)
T ss_pred             CCceecChHHHhhhc-CCCCCCceEEEEeCCCCCHHHHHHHHHHHHHHh-----CCCeEEEEEeeCCHHHHHHHHHHHhc
Confidence            457999999999987 899999999999999999999999999887752     46789999999873222122222222


Q ss_pred             CCCc----------cc----------cc-ccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcc
Q 047388          185 GMDP----------GA----------VL-DNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGE  243 (352)
Q Consensus       185 ~~~~----------~~----------~~-~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~  243 (352)
                      +++.          ++          +. .++++.+..+. ...++...+++...++++++||||+|+.+-..    . .
T Consensus       319 ~v~~~~i~~g~l~~~e~~~~~~a~~~l~~~~l~I~d~~~~-ti~~I~~~~r~~~~~~~~~lvvIDYLql~~~~----~-~  392 (505)
T PRK05636        319 EVRLSDMRGGKMDEDAWEKLVQRLGKIAQAPIFIDDSANL-TMMEIRSKARRLKQKHDLKLIVVDYLQLMSSG----K-R  392 (505)
T ss_pred             CCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCCC-CHHHHHHHHHHHHHhcCCCEEEEcchHhcCCC----C-C
Confidence            2211          11          11 13444433221 12233344444555578999999999987321    1 1


Q ss_pred             hHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCC--CCCcchhhhhccceEEEEEeecC--------C
Q 047388          244 LADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPK--KPAGGHVLAHAVTIRLMFRKGKG--------E  313 (352)
Q Consensus       244 ~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~--~~~gg~~~~~~~~~~i~L~~~~~--------~  313 (352)
                      ...|++.+.++.+.||.+|++++|+||+++|+++..+.. ....|.  -..++..+++.+|.+++|.|...        .
T Consensus       393 ~~~r~~ei~~isr~LK~lAkel~ipVi~lsQLnR~~e~r-~dkrP~lsDLreSG~IEqdAD~vl~l~R~~~y~~~~~~~g  471 (505)
T PRK05636        393 VESRQQEVSEFSRQLKLLAKELDVPLIAISQLNRGPESR-TDKRPQLADLRESGSLEQDADMVMLLYRPDSQDKDDERAG  471 (505)
T ss_pred             CCcHHHHHHHHHHHHHHHHHHhCCeEEEEeecCcccccc-CCCCCcHHHHhhcccccccCCEEEEEecccccCCccCCCC
Confidence            134567889999999999999999999999999976543 111111  12456789999999999998521        2


Q ss_pred             eEEEEEEeCCCCCccccc
Q 047388          314 QRVCKVFDAPNLPEAEAI  331 (352)
Q Consensus       314 ~R~~~i~Ks~~~~~~~~~  331 (352)
                      .--+.|.|+|++|.+.+.
T Consensus       472 ~~elivaK~RnG~~Gtv~  489 (505)
T PRK05636        472 EADIILAKHRGGPIDTVQ  489 (505)
T ss_pred             ceEEEEecCCCCCCceEE
Confidence            346789999999999765

>PRK05748 replicative DNA helicase; Provisional

Probab=99.89  E-value=2.7e-22  Score=196.26  Aligned_cols=210  Identities=15%  Similarity=0.143  Sum_probs=148.3

Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHH-HH
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIA-ER  183 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~-~~  183 (352)
                      ..+++||++.||+++ ||+++|++++|.|+||+|||+|+++++.+++..     .+.+|+||+.|++  ...+..++ ..
T Consensus       183 ~~gi~TG~~~LD~~~-~G~~~G~livIaarpg~GKT~~al~ia~~~a~~-----~g~~v~~fSlEms--~~~l~~R~l~~  254 (448)
T PRK05748        183 ITGIPTGFTDLDKMT-SGLQPNDLIIVAARPSVGKTAFALNIAQNVATK-----TDKNVAIFSLEMG--AESLVMRMLCA  254 (448)
T ss_pred             CCCccCChHHHHHhc-CCCCCCceEEEEeCCCCCchHHHHHHHHHHHHh-----CCCeEEEEeCCCC--HHHHHHHHHHH
Confidence            468999999999988 699999999999999999999999999987652     4779999999987  44443333 12


Q ss_pred             c-CCCcc----------c----------cc-ccEEEEecCCHHHHHHHHHHHHHHhhcC-CceEEEEcccccchhcccCC
Q 047388          184 F-GMDPG----------A----------VL-DNIIYARAYTYEHQYNLLLGLAAKMSEE-PFRLLIVDSVIALFRVDFTG  240 (352)
Q Consensus       184 ~-~~~~~----------~----------~~-~~i~~~~~~~~~~~~~~l~~l~~~l~~~-~~~lvvIDsl~~l~~~~~~~  240 (352)
                      . +++..          +          +. .++++.... .....++...+++...++ ++++||||+++.+-..... 
T Consensus       255 ~~~v~~~~i~~~~l~~~e~~~~~~a~~~l~~~~~~i~d~~-~~ti~~i~~~~r~~~~~~~~~~~vvIDyL~li~~~~~~-  332 (448)
T PRK05748        255 EGNIDAQRLRTGQLTDDDWPKLTIAMGSLSDAPIYIDDTP-GIKVTEIRARCRRLAQEHGGLGLILIDYLQLIQGSGRS-  332 (448)
T ss_pred             hcCCCHHHhhcCCCCHHHHHHHHHHHHHHhcCCEEEECCC-CCCHHHHHHHHHHHHHhcCCCCEEEEccchhcCCCCCC-
Confidence            1 22111          0          00 123333221 112223334444555555 7999999999987422111 


Q ss_pred             CcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCC-----CcchhhhhccceEEEEEeecC---
Q 047388          241 RGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKP-----AGGHVLAHAVTIRLMFRKGKG---  312 (352)
Q Consensus       241 ~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~-----~gg~~~~~~~~~~i~L~~~~~---  312 (352)
                         ...|...+..+.+.||.+|++++|+||+++|+++..+..    ..+.|     .++..+++.+|.+++|.+..-   
T Consensus       333 ---~~~r~~~i~~i~~~LK~lAke~~i~vi~lsQlnr~~~~r----~~k~p~lsdlr~Sg~Ieq~AD~v~~l~r~~~~~~  405 (448)
T PRK05748        333 ---GENRQQEVSEISRSLKALAKELKVPVIALSQLSRGVEQR----QDKRPVMSDIRESGSIEQDADIVAFLYRDDYYDE  405 (448)
T ss_pred             ---CcCHHHHHHHHHHHHHHHHHHhCCeEEEecccChhHhhc----CCCCCChHHHHhhcchhcCCCEEEEEecccccCc
Confidence               124566789999999999999999999999999865432    11223     456788999999999987531   


Q ss_pred             -----CeEEEEEEeCCCCCccccc
Q 047388          313 -----EQRVCKVFDAPNLPEAEAI  331 (352)
Q Consensus       313 -----~~R~~~i~Ks~~~~~~~~~  331 (352)
                           ..-.+.|.|+|++|.+.+.
T Consensus       406 ~~~~~~~~e~~v~K~R~G~~g~~~  429 (448)
T PRK05748        406 ETENKNTIEIIIAKQRNGPVGTVE  429 (448)
T ss_pred             cccCCCceEEEEeccCCCCCceEE
Confidence                 2345788999999999865

>PRK06904 replicative DNA helicase; Validated

Probab=99.89  E-value=2.5e-22  Score=196.17  Aligned_cols=209  Identities=17%  Similarity=0.186  Sum_probs=148.5

Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHH--HH
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPI--AE  182 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~--~~  182 (352)
                      ..+++||++.||+++ ||+.+|++++|+|.||+|||+|++++|.+++..     .+.+|+||+.|++  ...+..+  +.
T Consensus       201 ~~Gi~TG~~~LD~~t-~Gl~~G~LiiIaarPg~GKTafalnia~~~a~~-----~g~~Vl~fSlEMs--~~ql~~Rlla~  272 (472)
T PRK06904        201 VTGVTTGFTDLDKKT-AGLQPSDLIIVAARPSMGKTTFAMNLCENAAMA-----SEKPVLVFSLEMP--AEQIMMRMLAS  272 (472)
T ss_pred             CCCccCChHHHHHHH-hccCCCcEEEEEeCCCCChHHHHHHHHHHHHHh-----cCCeEEEEeccCC--HHHHHHHHHHh
Confidence            468999999999988 799999999999999999999999999988752     4678999999987  4433332  22


Q ss_pred             HcCC-----------Cccc----------c--cccEEEEecCCHHHHHHHHHHHHHHhhcC-CceEEEEcccccchhccc
Q 047388          183 RFGM-----------DPGA----------V--LDNIIYARAYTYEHQYNLLLGLAAKMSEE-PFRLLIVDSVIALFRVDF  238 (352)
Q Consensus       183 ~~~~-----------~~~~----------~--~~~i~~~~~~~~~~~~~~l~~l~~~l~~~-~~~lvvIDsl~~l~~~~~  238 (352)
                      ..++           +.++          +  ..++++.+.... ...++...+++..... ++++||||+|+.+.....
T Consensus       273 ~s~v~~~~i~~g~~l~~~e~~~~~~a~~~l~~~~~l~I~d~~~~-t~~~i~~~~r~~~~~~~~~~lvvIDYLqli~~~~~  351 (472)
T PRK06904        273 LSRVDQTKIRTGQNLDQQDWAKISSTVGMFKQKPNLYIDDSSGL-TPTELRSRARRVYRENGGLSLIMVDYLQLMRAPGF  351 (472)
T ss_pred             hCCCCHHHhccCCCCCHHHHHHHHHHHHHHhcCCCEEEECCCCC-CHHHHHHHHHHHHHhCCCCCEEEEecHHhcCCCCC
Confidence            1111           1111          1  123555433221 1223333344444443 689999999987743221


Q ss_pred             CCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCC-----CcchhhhhccceEEEEEeecC-
Q 047388          239 TGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKP-----AGGHVLAHAVTIRLMFRKGKG-  312 (352)
Q Consensus       239 ~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~-----~gg~~~~~~~~~~i~L~~~~~-  312 (352)
                           ...|+..+.++.+.||.+|++++|+||+++|+++.++..    ..+.|     .++..+++.+|.+++|.|..- 
T Consensus       352 -----~~~r~~ei~~isr~LK~lAkel~ipVi~lsQLnR~~e~r----~~krP~lsDLreSG~IEqdAD~v~~l~R~~~y  422 (472)
T PRK06904        352 -----EDNRTLEIAEISRSLKALAKELKVPVVALSQLNRTLENR----GDKRPVNSDLRESGSIEQDADLIMFIYRDEVY  422 (472)
T ss_pred             -----CCcHHHHHHHHHHHHHHHHHHhCCeEEEEEecCchhhcc----CCCCCchHHHhhcCccccCCcEEEEEeccccc
Confidence                 134666789999999999999999999999999876543    11223     456789999999999998521 


Q ss_pred             --------CeEEEEEEeCCCCCccccc
Q 047388          313 --------EQRVCKVFDAPNLPEAEAI  331 (352)
Q Consensus       313 --------~~R~~~i~Ks~~~~~~~~~  331 (352)
                              ..--+.|.|+|++|.+.+.
T Consensus       423 ~~~~~~~~~~~elivaKnR~G~~G~v~  449 (472)
T PRK06904        423 NETTEDNKGVAEIIIGKQRNGPIGRVR  449 (472)
T ss_pred             cCccccCCCceEEEEeccCCCCCceEE
Confidence                    1245789999999998765

>PRK08506 replicative DNA helicase; Provisional

Probab=99.89  E-value=3e-22  Score=196.17  Aligned_cols=211  Identities=13%  Similarity=0.160  Sum_probs=147.4

Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHH--H
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIA--E  182 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~--~  182 (352)
                      ..+++||++.||.++ ||+++|++++|.|+||+|||+|+++++.+++.      .+.+|+||+.|++  ...+..++  .
T Consensus       172 ~~Gi~TG~~~LD~~~-~G~~~G~LivIaarpg~GKT~fal~ia~~~~~------~g~~V~~fSlEMs--~~ql~~Rlla~  242 (472)
T PRK08506        172 IIGLDTGFVELNKMT-KGFNKGDLIIIAARPSMGKTTLCLNMALKALN------QDKGVAFFSLEMP--AEQLMLRMLSA  242 (472)
T ss_pred             CCcccCChHHHHhhc-CCCCCCceEEEEcCCCCChHHHHHHHHHHHHh------cCCcEEEEeCcCC--HHHHHHHHHHH
Confidence            457999999999987 89999999999999999999999999999864      5778999999987  44443332  2


Q ss_pred             HcCCCccc--------------------cc-ccEEEEecCCHHHHHHHHHHHHHHhhcC-CceEEEEcccccchhcccCC
Q 047388          183 RFGMDPGA--------------------VL-DNIIYARAYTYEHQYNLLLGLAAKMSEE-PFRLLIVDSVIALFRVDFTG  240 (352)
Q Consensus       183 ~~~~~~~~--------------------~~-~~i~~~~~~~~~~~~~~l~~l~~~l~~~-~~~lvvIDsl~~l~~~~~~~  240 (352)
                      ..+++...                    +. .++++.+..+ ....++...+++...++ ++++||||+++.+....   
T Consensus       243 ~s~v~~~~i~~~~l~~~e~~~~~~a~~~l~~~~l~I~d~~~-~ti~~I~~~~r~l~~~~~~~~lvvIDyLql~~~~~---  318 (472)
T PRK08506        243 KTSIPLQNLRTGDLDDDEWERLSDACDELSKKKLFVYDSGY-VNIHQVRAQLRKLKSQHPEIGLAVIDYLQLMSGSG---  318 (472)
T ss_pred             hcCCCHHHHhcCCCCHHHHHHHHHHHHHHHcCCeEEECCCC-CCHHHHHHHHHHHHHhCCCCCEEEEcChhhccCCC---
Confidence            23332210                    11 1344443211 12233333344433333 58999999999774221   


Q ss_pred             CcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCC--CCCcchhhhhccceEEEEEeecC----C-
Q 047388          241 RGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPK--KPAGGHVLAHAVTIRLMFRKGKG----E-  313 (352)
Q Consensus       241 ~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~--~~~gg~~~~~~~~~~i~L~~~~~----~-  313 (352)
                        ....|+..+..+.+.||.+|++++|+||+++|+++..+... ...|.  -..++..+++.+|++++|.|...    . 
T Consensus       319 --~~~~r~~ev~~isr~LK~lAkel~ipVi~lsQLnR~~e~r~-~krP~lsDLreSg~IeqdAD~vl~l~R~~~y~~~~~  395 (472)
T PRK08506        319 --NFKDRHLQISEISRGLKLLARELDIPIIALSQLNRSLESRA-DKRPMLSDLRESGAIEQDADIILFVYRDDVYKEREE  395 (472)
T ss_pred             --CCCCHHHHHHHHHHHHHHHHHHhCCcEEEEeecCcchhhcc-CCCCChHHhhcchhhhhcCCEEEEEecccccccccc
Confidence              12345667889999999999999999999999999664320 01111  13557789999999999998521    0 


Q ss_pred             -------------------------eEEEEEEeCCCCCccccc
Q 047388          314 -------------------------QRVCKVFDAPNLPEAEAI  331 (352)
Q Consensus       314 -------------------------~R~~~i~Ks~~~~~~~~~  331 (352)
                                               .--+.|.|+|++|.+.+.
T Consensus       396 ~~~~~~~~~~g~~~~~~~~~~~~~~~~eliiaKnR~G~~G~v~  438 (472)
T PRK08506        396 KEKEKKAKKEGKEERRIHFQNKSIEEAEIIIGKNRNGPTGTVK  438 (472)
T ss_pred             cccccccccccccccccccccccccceEEEEecCCCCCCceEE
Confidence                                     134789999999988765

>PRK08840 replicative DNA helicase; Provisional

Probab=99.89  E-value=8e-22  Score=192.07  Aligned_cols=212  Identities=14%  Similarity=0.147  Sum_probs=149.7

Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHH--HH
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPI--AE  182 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~--~~  182 (352)
                      ..+++||++.||.++ ||+.+|++++|+|+||+|||+|++++|.+++..     .+.+|+||+.|++  ...+..+  +.
T Consensus       197 ~~gi~TG~~~LD~~~-~G~~~g~LiviaarPg~GKTafalnia~~~a~~-----~~~~v~~fSlEMs--~~ql~~Rlla~  268 (464)
T PRK08840        197 VTGVDTGFTDLNKKT-AGLQGSDLIIVAARPSMGKTTFAMNLCENAAMD-----QDKPVLIFSLEMP--AEQLMMRMLAS  268 (464)
T ss_pred             CCCcCCCcHHHHHhh-cCCCCCceEEEEeCCCCchHHHHHHHHHHHHHh-----CCCeEEEEeccCC--HHHHHHHHHHh
Confidence            458999999999988 789999999999999999999999999998752     4678999999987  4434322  22


Q ss_pred             HcCCCc----------c----------ccc--ccEEEEecCCHHHHHHHHHHHHHHhhcC-CceEEEEcccccchhcccC
Q 047388          183 RFGMDP----------G----------AVL--DNIIYARAYTYEHQYNLLLGLAAKMSEE-PFRLLIVDSVIALFRVDFT  239 (352)
Q Consensus       183 ~~~~~~----------~----------~~~--~~i~~~~~~~~~~~~~~l~~l~~~l~~~-~~~lvvIDsl~~l~~~~~~  239 (352)
                      ..+++.          +          .+.  .++++.+..+. ...++...+++...++ ++++||||+|+.+-.... 
T Consensus       269 ~s~v~~~~i~~~~l~~~e~~~~~~a~~~l~~~~~l~I~d~~~~-ti~~i~~~~r~~~~~~~~~~lvvIDYLql~~~~~~-  346 (464)
T PRK08840        269 LSRVDQTKIRTGQLDDEDWARISSTMGILMEKKNMYIDDSSGL-TPTEVRSRARRIAREHGGLSMIMVDYLQLMRVPAL-  346 (464)
T ss_pred             hCCCCHHHHhcCCCCHHHHHHHHHHHHHHHhcCCEEEECCCCC-CHHHHHHHHHHHHHhcCCCCEEEEccHHhcCCCCC-
Confidence            222211          1          111  24555433221 1223334444444444 589999999998732211 


Q ss_pred             CCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCC--CCCcchhhhhccceEEEEEeecC-----
Q 047388          240 GRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPK--KPAGGHVLAHAVTIRLMFRKGKG-----  312 (352)
Q Consensus       240 ~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~--~~~gg~~~~~~~~~~i~L~~~~~-----  312 (352)
                          ...|++.+.++.+.||.+|++++|+||+++|+++..+.. -...|.  -..++..+++.+|.+++|.|...     
T Consensus       347 ----~~~r~~ei~~isr~LK~lAkel~ipVi~LsQLnR~~e~r-~~krP~lsDLreSG~IEqdAD~v~~l~R~~~y~~~~  421 (464)
T PRK08840        347 ----SDNRTLEIAEISRSLKALAKELNVPVVALSQLNRSLEQR-ADKRPVNSDLRESGSIEQDADLIMFIYRDEVYNPDS  421 (464)
T ss_pred             ----CCchHHHHHHHHHHHHHHHHHhCCeEEEEEecCcccccc-CCCCCchHhhhhcccccccCCEEEEEecccccCCCc
Confidence                134667789999999999999999999999999976543 011111  12456789999999999998521     


Q ss_pred             ---CeEEEEEEeCCCCCccccc
Q 047388          313 ---EQRVCKVFDAPNLPEAEAI  331 (352)
Q Consensus       313 ---~~R~~~i~Ks~~~~~~~~~  331 (352)
                         ..-.+.|.|+|++|.+.+.
T Consensus       422 ~~~~~~elivaKnR~G~~G~v~  443 (464)
T PRK08840        422 PLKGTAEIIIGKQRNGPIGSVR  443 (464)
T ss_pred             CCCCceEEEEecccCCCCceEE
Confidence               2245789999999998765

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=99.89  E-value=1.8e-21  Score=173.72  Aligned_cols=210  Identities=20%  Similarity=0.258  Sum_probs=145.1

Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHc
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERF  184 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~  184 (352)
                      ...|.+++++||++++||+++|++++|.|+||+|||+|+++++...+.      .+.+++|++++.+  +..+...+.++
T Consensus         3 ~~~~~~~~~~ld~~l~ggi~~g~~~~i~G~~G~GKTtl~~~~~~~~~~------~g~~~~yi~~e~~--~~~~~~~~~~~   74 (230)
T PRK08533          3 LAKIELSRDELHKRLGGGIPAGSLILIEGDESTGKSILSQRLAYGFLQ------NGYSVSYVSTQLT--TTEFIKQMMSL   74 (230)
T ss_pred             eEEEEEEEeeeehhhCCCCCCCcEEEEECCCCCCHHHHHHHHHHHHHh------CCCcEEEEeCCCC--HHHHHHHHHHh
Confidence            346889999999999999999999999999999999999999888765      5689999999986  44555556788


Q ss_pred             CCCccccc--ccEEEEecC----CHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHH
Q 047388          185 GMDPGAVL--DNIIYARAY----TYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRL  258 (352)
Q Consensus       185 ~~~~~~~~--~~i~~~~~~----~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L  258 (352)
                      |++.+...  +++.+.+..    ...+....+..+.......+++++|||+++..+....    +..    ...++.+.|
T Consensus        75 g~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~il~~~~~~~~~~lVIDe~t~~l~~~~----d~~----~~~~l~~~l  146 (230)
T PRK08533         75 GYDINKKLISGKLLYIPVYPLLSGNSEKRKFLKKLMNTRRFYEKDVIIIDSLSSLISNDA----SEV----AVNDLMAFF  146 (230)
T ss_pred             CCchHHHhhcCcEEEEEecccccChHHHHHHHHHHHHHHHhcCCCEEEEECccHHhcCCc----chH----HHHHHHHHH
Confidence            88765432  234333321    1222233444444444445899999999998864211    111    123566677


Q ss_pred             HHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeecC---CeEEEEEEeCCCCCcc-cccccc
Q 047388          259 TKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKG---EQRVCKVFDAPNLPEA-EAISFS  334 (352)
Q Consensus       259 ~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~---~~R~~~i~Ks~~~~~~-~~~~~~  334 (352)
                      +.++++ |++++++++.... ...        .  .....+++|.+|.|+....   ..|.+.|.|+|..+.. +..   
T Consensus       147 ~~l~~~-g~tvi~t~~~~~~-~~~--------~--~~~~~~~~DgvI~L~~~~~~~~~~R~i~V~KmR~~~~~~~~~---  211 (230)
T PRK08533        147 KRISSL-NKVIILTANPKEL-DES--------V--LTILRTAATMLIRLEVKVFGGDLKNSAKIVKYNMAKGSFQKS---  211 (230)
T ss_pred             HHHHhC-CCEEEEEeccccc-ccc--------c--ceeEEEeeeEEEEEEEeecCCEEEEEEEEEEecCCccccCCE---
Confidence            777654 7788887775431 111        1  1246899999999986432   2588999999997764 322   


Q ss_pred             eeeeeEEEeCC-Ccc
Q 047388          335 YHIILIKITPG-GIA  348 (352)
Q Consensus       335 ~~~~~f~I~~~-Gi~  348 (352)
                         .+|+|.++ ||+
T Consensus       212 ---~~f~i~~~~g~~  223 (230)
T PRK08533        212 ---IPFRVEPKIGLA  223 (230)
T ss_pred             ---EEEEEcCCccEE
Confidence               46999987 875

>PRK06749 replicative DNA helicase; Provisional

Probab=99.88  E-value=1.4e-21  Score=188.79  Aligned_cols=209  Identities=15%  Similarity=0.154  Sum_probs=146.5

Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHH--H
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIA--E  182 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~--~  182 (352)
                      ..+++||++.||+++ ||+.+|++++|+|+||+|||+|+++++.+++.      .+.+|+||+.|++  ...+..++  .
T Consensus       166 ~~Gi~TG~~~LD~~t-~Gl~~G~LiiIaarPgmGKTafal~ia~~~a~------~g~~v~~fSlEMs--~~ql~~R~ls~  236 (428)
T PRK06749        166 ITGIETGYTSLNKMT-CGLQEGDFVVLGARPSMGKTAFALNVGLHAAK------SGAAVGLFSLEMS--SKQLLKRMASC  236 (428)
T ss_pred             CCCccCCcHHHHHHh-CCCCCCcEEEEEeCCCCCchHHHHHHHHHHHh------cCCCEEEEEeeCC--HHHHHHHHHHh
Confidence            467999999999987 79999999999999999999999999999875      5678999999987  44333222  2


Q ss_pred             HcCCCcccc---------------------cc--cEEEEecCCHHHHHHHHHHHHHHhhcCC--ceEEEEcccccchhcc
Q 047388          183 RFGMDPGAV---------------------LD--NIIYARAYTYEHQYNLLLGLAAKMSEEP--FRLLIVDSVIALFRVD  237 (352)
Q Consensus       183 ~~~~~~~~~---------------------~~--~i~~~~~~~~~~~~~~l~~l~~~l~~~~--~~lvvIDsl~~l~~~~  237 (352)
                      ..+++...+                     +.  ++++.+..+. ...++...+++...+++  +.+||||+++.+....
T Consensus       237 ~~~i~~~~l~~~~~~l~~~e~~~~~~a~~~l~~~~i~i~d~~~~-t~~~I~~~~r~~~~~~~~~~~lvvIDyLqli~~~~  315 (428)
T PRK06749        237 VGEVSGGRLKNPKHRFAMEDWEKVSKAFAEIGELPLEIYDNAGV-TVQDIWMQTRKLKRKHGDKKILIIVDYLQLITGDP  315 (428)
T ss_pred             ccCCCHHHHhcCcccCCHHHHHHHHHHHHHHhcCCEEEECCCCC-CHHHHHHHHHHHHHhcCCCCcEEEEeChhhcCCCC
Confidence            112211100                     01  2444433221 12223333344444444  5699999999774210


Q ss_pred             cCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCC-----CcchhhhhccceEEEEEeecC
Q 047388          238 FTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKP-----AGGHVLAHAVTIRLMFRKGKG  312 (352)
Q Consensus       238 ~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~-----~gg~~~~~~~~~~i~L~~~~~  312 (352)
                        .  ....|...+.++.+.||.+|++++|+||+++|+++..++.    ..+.|     .++..+++.+|.+++|.|...
T Consensus       316 --~--~~~~r~~ei~~isr~LK~lAkel~vpVi~lsQLnR~~e~r----~~krP~lsDLR~SG~IEqdAD~vl~l~R~~~  387 (428)
T PRK06749        316 --K--HKGNRFQEISEISRKLKLLARELNVCVVALSQLSRSVESR----QDKRPLLSDLRETGQIEQDADVIMLMYREDY  387 (428)
T ss_pred             --C--CCCCHHHHHHHHHHHHHHHHHHhCCeEEEEEecCcccccc----CCCCCchHhhhhcccccccCCEEEEEeeccc
Confidence              1  1134666789999999999999999999999999976543    11223     456789999999999998531


Q ss_pred             --------CeEEEEEEeCCCCCccccc
Q 047388          313 --------EQRVCKVFDAPNLPEAEAI  331 (352)
Q Consensus       313 --------~~R~~~i~Ks~~~~~~~~~  331 (352)
                              +...+.|.|+|++|.+.+.
T Consensus       388 y~~~~~~~~~~eliiaKnR~G~~G~v~  414 (428)
T PRK06749        388 YDKETMQKEMTEIHVAKHRNGPVGSFK  414 (428)
T ss_pred             ccccccCCCceEEEEecCCCCCCceEE
Confidence                    2346789999999999765

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

Probab=99.88  E-value=3.8e-21  Score=175.28  Aligned_cols=212  Identities=23%  Similarity=0.305  Sum_probs=155.7

Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHc
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERF  184 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~  184 (352)
                      ..+++|||+.||++|+||+|+|.+++|+|+||+|||+|++|++.+.+.      .+.+|+|++++.+  +..+.+.+.++
T Consensus         2 ~~~~~TGI~glD~~l~GG~p~g~~~lI~G~pGsGKT~f~~qfl~~~~~------~ge~vlyvs~~e~--~~~l~~~~~~~   73 (260)
T COG0467           2 MERIPTGIPGLDEILGGGLPRGSVVLITGPPGTGKTIFALQFLYEGAR------EGEPVLYVSTEES--PEELLENARSF   73 (260)
T ss_pred             CccccCCCcchHHHhcCCCcCCcEEEEEcCCCCcHHHHHHHHHHHHHh------cCCcEEEEEecCC--HHHHHHHHHHc
Confidence            357999999999999999999999999999999999999999999887      6899999999987  88899999999


Q ss_pred             CCCccccccc--EEEEecCC------------HHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHH
Q 047388          185 GMDPGAVLDN--IIYARAYT------------YEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQK  250 (352)
Q Consensus       185 ~~~~~~~~~~--i~~~~~~~------------~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~  250 (352)
                      |++.+.+.++  +.+.....            ......+...+...+...+...+|+||++.+......    ..    .
T Consensus        74 g~d~~~~~~~g~l~i~d~~~~~~~~~~~~~~~~~~~~~l~~~I~~~~~~~~~~~~ViDsi~~~~~~~~~----~~----~  145 (260)
T COG0467          74 GWDLEVYIEKGKLAILDAFLSEKGLVSIVVGDPLDLEELLDRIREIVEKEGADRVVIDSITELTLYLND----PA----L  145 (260)
T ss_pred             CCCHHHHhhcCCEEEEEccccccccccccccCCccHHHHHHHHHHHHHHhCCCEEEEeCCchHhhhcCc----hH----H
Confidence            9998755544  23322211            1123334455666666667899999999965432111    11    1


Q ss_pred             HHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeec---CCeE-EEEEEeCCCCC
Q 047388          251 LGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGK---GEQR-VCKVFDAPNLP  326 (352)
Q Consensus       251 l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~---~~~R-~~~i~Ks~~~~  326 (352)
                      ...+...+.++.++++++.+++++.......         .  +....+.++..|.|....   ...| .+.|.|.|..+
T Consensus       146 ~r~~~~~l~~~~~~~~~t~~~~~~~~~~~~~---------~--~~~~~~~vdgvI~l~~~~~~~~~~r~~~~i~k~r~~~  214 (260)
T COG0467         146 VRRILLLLKRFLKKLGVTSLLTTEAPVEERG---------E--SGVEEYIVDGVIRLDLKEIEGGGDRRYLRILKMRGTP  214 (260)
T ss_pred             HHHHHHHHHHHHHhCCCEEEEEecccccCCC---------c--cceEEEEEEEEEEEeeecccCceEEEEEEEEeccccc
Confidence            1367777888888899999998876442111         0  023445889999998642   2234 89999999987


Q ss_pred             cccccccceeeeeEEEeC-CCccC
Q 047388          327 EAEAISFSYHIILIKITP-GGIAD  349 (352)
Q Consensus       327 ~~~~~~~~~~~~~f~I~~-~Gi~~  349 (352)
                      +...      |.+|.|++ .||.-
T Consensus       215 ~~~~------~~~~~i~~g~gi~i  232 (260)
T COG0467         215 HSLK------VIPFEITDGEGIVV  232 (260)
T ss_pred             cCCc------eeceEEecCCcEEE
Confidence            6543      36799999 68864

>COG0305 DnaB Replicative DNA helicase [DNA replication, recombination, and repair]

Probab=99.87  E-value=2.2e-21  Score=184.08  Aligned_cols=209  Identities=17%  Similarity=0.204  Sum_probs=155.9

Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHH--
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAE--  182 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~--  182 (352)
                      ..+++||++.||.++ +|+.+|+++.++|.||+|||+||+++|.+++..     .+.+|.+|+.|++  .+.+..++-  
T Consensus       176 ~~Gi~tgf~~LD~~t-~G~~~~dLii~AaRP~mGKTafalnia~n~a~~-----~~~~v~iFSLEM~--~eql~~R~Ls~  247 (435)
T COG0305         176 LIGVPTGFTDLDEIT-SGFRPGDLIIVAARPGMGKTALALNIALNAAAD-----GRKPVAIFSLEMS--EEQLVMRLLSS  247 (435)
T ss_pred             CcccccCchhhHHHh-cCCccCCEEEEccCCCCChHHHHHHHHHHHHHh-----cCCCeEEEEccCC--HHHHHHHhhcc
Confidence            578999999999988 679999999999999999999999999998873     5667999999987  444443332  


Q ss_pred             HcCCCcc-------------------cccc--cEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCC
Q 047388          183 RFGMDPG-------------------AVLD--NIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGR  241 (352)
Q Consensus       183 ~~~~~~~-------------------~~~~--~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~  241 (352)
                      .-+++..                   ..+.  ++++ .....-...++..++++...++++++++||+++.+....    
T Consensus       248 ~s~v~~~kirtg~l~~~d~~~l~~a~~~l~~~~i~I-dD~~~~si~eir~~aRrlk~~~~l~~i~iDYLqLm~~~~----  322 (435)
T COG0305         248 ESGIESSKLRTGRLSDDEWERLIKAASELSEAPIFI-DDTPGLTITEIRSKARRLKLKHNLGLIVIDYLQLMTGGK----  322 (435)
T ss_pred             ccccchhccccccccHHHHHHHHHHHHHHhhCCeee-cCCCcCCHHHHHHHHHHHHHhcCccEEEEEEEEeecccc----
Confidence            1222210                   0011  1222 222222334445566666677789999999999885432    


Q ss_pred             cchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCC-----CCcchhhhhccceEEEEEeecC----
Q 047388          242 GELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKK-----PAGGHVLAHAVTIRLMFRKGKG----  312 (352)
Q Consensus       242 g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~-----~~gg~~~~~~~~~~i~L~~~~~----  312 (352)
                       ....|++.+.++.+.|+.+|++++++||..+|+++.++.+    .+++     ...+.++++.+|.++++.|+..    
T Consensus       323 -~~~~r~qevs~iSr~LK~lAkEl~vpvialSQLsR~~E~R----~dkrP~lSDLRESGsIEQDAD~VmflyRde~y~~~  397 (435)
T COG0305         323 -KSENRKQEVSEISRSLKGLAKELGVPVIALSQLNRSVEQR----TDKRPMLSDLRESGALEQDADIVIFLHRDEAYLKD  397 (435)
T ss_pred             -cchhHHHHHHHHHHHHHHHHHhcCCcEEehhhhcccchhc----cccCCccccCccCCchhhhCCEEEEEechhhccCC
Confidence             1256888999999999999999999999999999987764    1122     3456689999999999998631    


Q ss_pred             ----CeEEEEEEeCCCCCccccc
Q 047388          313 ----EQRVCKVFDAPNLPEAEAI  331 (352)
Q Consensus       313 ----~~R~~~i~Ks~~~~~~~~~  331 (352)
                          ...-+.|.|+|++|.+...
T Consensus       398 ~~~~g~aeiIi~K~RnGp~GtV~  420 (435)
T COG0305         398 TPDRGEAEVIVAKNRNGPTGTVK  420 (435)
T ss_pred             CCCCceEEEEEEeccCCCCceEE
Confidence                3457889999999999776

>PRK05973 replicative DNA helicase; Provisional

Probab=99.86  E-value=2.7e-20  Score=165.13  Aligned_cols=185  Identities=16%  Similarity=0.123  Sum_probs=129.3

Q ss_pred             hhHHhhhCCCHHHHHHHHHHHHHHhhcCCCchhhhHHhhhcccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHH
Q 047388           64 KHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLA  143 (352)
Q Consensus        64 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~  143 (352)
                      +.|++-.+++..++.   +.+.  ...+|.+.+.+-.....    +|   ..|++. ||+++|++++|.|+||+|||+|+
T Consensus        15 ~~~~~~~~~~~~~~~---~~~a--~~~g~~~w~~~~~~~~~----~~---p~~~l~-GGl~~Gsl~LIaG~PG~GKT~la   81 (237)
T PRK05973         15 KLLSRAQNIPLHEAL---DRIA--AEEGFSSWSLLAAKAAA----TT---PAEELF-SQLKPGDLVLLGARPGHGKTLLG   81 (237)
T ss_pred             HHHHHhcCCcHHHHH---HHHH--HHhccchHHHHHHhccC----CC---CHHHhc-CCCCCCCEEEEEeCCCCCHHHHH
Confidence            467777788765443   3322  23577776655322111    11   278855 89999999999999999999999


Q ss_pred             HHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCce
Q 047388          144 HTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFR  223 (352)
Q Consensus       144 ~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~  223 (352)
                      ++++.+.+.      .+.+|+||+.|++  +..+...+.++|++.++..+.+.+.... .......+.+   .....+++
T Consensus        82 lqfa~~~a~------~Ge~vlyfSlEes--~~~i~~R~~s~g~d~~~~~~~~~~d~~d-~~~~~~ii~~---l~~~~~~~  149 (237)
T PRK05973         82 LELAVEAMK------SGRTGVFFTLEYT--EQDVRDRLRALGADRAQFADLFEFDTSD-AICADYIIAR---LASAPRGT  149 (237)
T ss_pred             HHHHHHHHh------cCCeEEEEEEeCC--HHHHHHHHHHcCCChHHhccceEeecCC-CCCHHHHHHH---HHHhhCCC
Confidence            999999876      6789999999987  7788888999999887665543333221 1111222222   33345789


Q ss_pred             EEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCC
Q 047388          224 LLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGG  282 (352)
Q Consensus       224 lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~  282 (352)
                      +|||||++.+....         +...+..++..|+.+|+++|++||+++|+++..++.
T Consensus       150 lVVIDsLq~l~~~~---------~~~el~~~~~~Lk~~Ak~~gitvIl~sQl~r~~e~~  199 (237)
T PRK05973        150 LVVIDYLQLLDQRR---------EKPDLSVQVRALKSFARERGLIIVFISQIDRSFDPS  199 (237)
T ss_pred             EEEEEcHHHHhhcc---------cchhHHHHHHHHHHHHHhCCCeEEEEecCccccccC
Confidence            99999999874211         011245667889999999999999999999976653

>COG2874 FlaH Predicted ATPases involved in biogenesis of archaeal flagella [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.80  E-value=6e-18  Score=144.09  Aligned_cols=208  Identities=21%  Similarity=0.297  Sum_probs=151.1

Q ss_pred             ccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCC
Q 047388          107 KITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGM  186 (352)
Q Consensus       107 ~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~  186 (352)
                      .+++|.++||+-||||+|-|+++.|.|+.|+|||.||.++++..+.      .+.++.|++||.+  ....-.-++..++
T Consensus         9 ii~~gndelDkrLGGGiP~GsL~lIEGd~~tGKSvLsqr~~YG~L~------~g~~v~yvsTe~T--~refi~qm~sl~y   80 (235)
T COG2874           9 IIKSGNDELDKRLGGGIPVGSLILIEGDNGTGKSVLSQRFAYGFLM------NGYRVTYVSTELT--VREFIKQMESLSY   80 (235)
T ss_pred             hccCCcHHHHhhccCCCccCeEEEEECCCCccHHHHHHHHHHHHHh------CCceEEEEEechh--HHHHHHHHHhcCC
Confidence            5899999999999999999999999999999999999999999887      7889999999987  3333333455666


Q ss_pred             Cccc--ccccEEEEec------CCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHH
Q 047388          187 DPGA--VLDNIIYARA------YTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRL  258 (352)
Q Consensus       187 ~~~~--~~~~i~~~~~------~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L  258 (352)
                      +..+  +..++.++..      .+......+++.+.+..+..+-+++||||++.+...+       ++  ..+-.++..+
T Consensus        81 dv~~~~l~G~l~~~~~~~~~~~~~~~~~~~~L~~l~~~~k~~~~dViIIDSls~~~~~~-------~~--~~vl~fm~~~  151 (235)
T COG2874          81 DVSDFLLSGRLLFFPVNLEPVNWGRRSARKLLDLLLEFIKRWEKDVIIIDSLSAFATYD-------SE--DAVLNFMTFL  151 (235)
T ss_pred             CchHHHhcceeEEEEecccccccChHHHHHHHHHHHhhHHhhcCCEEEEecccHHhhcc-------cH--HHHHHHHHHH
Confidence            5432  3345666553      2333444556666666666788999999999886532       12  2356889999


Q ss_pred             HHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeec-C--CeEEEEEEeCCCCCcccccccce
Q 047388          259 TKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGK-G--EQRVCKVFDAPNLPEAEAISFSY  335 (352)
Q Consensus       259 ~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~-~--~~R~~~i~Ks~~~~~~~~~~~~~  335 (352)
                      +.++. .|.+||+|-|...-.+..           -..+..+||+.+.|+... |  ..+.+.++|-+..+..-..    
T Consensus       152 r~l~d-~gKvIilTvhp~~l~e~~-----------~~rirs~~d~~l~L~~~~~Gg~~~~~~~i~K~~ga~~s~~~----  215 (235)
T COG2874         152 RKLSD-LGKVIILTVHPSALDEDV-----------LTRIRSACDVYLRLRLEELGGDLIKVLEIVKYRGARKSFQN----  215 (235)
T ss_pred             HHHHh-CCCEEEEEeChhhcCHHH-----------HHHHHHhhheeEEEEhhhhCCeeeEEEEEeeecCchhhcCC----
Confidence            99986 488888888865432221           234688999999998643 2  3578899998887654221    


Q ss_pred             eeeeEEEeCC-Ccc
Q 047388          336 HIILIKITPG-GIA  348 (352)
Q Consensus       336 ~~~~f~I~~~-Gi~  348 (352)
                       ..+|+|.++ ||.
T Consensus       216 -~I~F~V~P~~Glk  228 (235)
T COG2874         216 -IISFRVEPGFGLK  228 (235)
T ss_pred             -ceeEEecCCCceE
Confidence             246998876 543

>PRK07773 replicative DNA helicase; Validated

Probab=99.80  E-value=5.8e-19  Score=185.14  Aligned_cols=163  Identities=16%  Similarity=0.170  Sum_probs=118.9

Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHH-
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAER-  183 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~-  183 (352)
                      ..+++||++.||+++ ||+++|++++|+|+||+|||+|++++|.+++..     .+.+|+||+.|++  ...+..++.. 
T Consensus       197 ~~Gi~TG~~~LD~l~-~Gl~~G~livIagrPg~GKT~fal~ia~~~a~~-----~~~~V~~fSlEms--~~ql~~R~~s~  268 (886)
T PRK07773        197 ARGVPTGFTELDAMT-NGLHPGQLIIVAARPSMGKTTFGLDFARNCAIR-----HRLAVAIFSLEMS--KEQLVMRLLSA  268 (886)
T ss_pred             CCCccCChhHhcccc-CCCCCCcEEEEEeCCCCCcHHHHHHHHHHHHHh-----cCCeEEEEecCCC--HHHHHHHHHHH
Confidence            468999999999988 899999999999999999999999999998763     4678999999987  5444444332 


Q ss_pred             -cCCCcccc-------------------c--ccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCC
Q 047388          184 -FGMDPGAV-------------------L--DNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGR  241 (352)
Q Consensus       184 -~~~~~~~~-------------------~--~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~  241 (352)
                       .+++...+                   +  .++++.+..+ ....++..++.+...+.++++||||+++.+-..   . 
T Consensus       269 ~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~i~i~d~~~-~~i~~i~~~~r~~~~~~~~~lvvIDyLql~~~~---~-  343 (886)
T PRK07773        269 EAKIKLSDMRSGRMSDDDWTRLARAMGEISEAPIFIDDTPN-LTVMEIRAKARRLRQEANLGLIVVDYLQLMTSG---K-  343 (886)
T ss_pred             hcCCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCC-CCHHHHHHHHHHHHHhcCCCEEEEcchhhcCCC---C-
Confidence             23321110                   0  1233332221 123334444555555678999999999987421   1 


Q ss_pred             cchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCC
Q 047388          242 GELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGG  281 (352)
Q Consensus       242 g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~  281 (352)
                       ....|++.+.++.+.||.+|++++|+||+++|+++.++.
T Consensus       344 -~~~~r~~ei~~isr~LK~lAkel~vpvi~lsQLnR~~e~  382 (886)
T PRK07773        344 -KYENRQQEVSEISRHLKLLAKELEVPVVALSQLSRGVEQ  382 (886)
T ss_pred             -CCCCHHHHHHHHHHHHHHHHHHHCCcEEEecccCcchhc
Confidence             123566788999999999999999999999999997644

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=99.76  E-value=2.9e-18  Score=149.14  Aligned_cols=164  Identities=24%  Similarity=0.264  Sum_probs=93.9

Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCC----CCCeEEEEeCCCCCChhhHHHH
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRG----GNGKVAYIDTEGTFRPDRIVPI  180 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg----~~~~vl~i~~e~~~~~~rl~~~  180 (352)
                      ...++++++.+|+++.|++++|+++.|+|+||+|||+|+++++...+....+-|    .+.+|+|+++|++  ...+..+
T Consensus        11 ~~~~~~~~~~~~~li~g~~~~g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~--~~~~~~r   88 (193)
T PF13481_consen   11 FEDLDTGFPPLDWLIDGLLPRGELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS--ESQIARR   88 (193)
T ss_dssp             --HHHS------EEETTEE-TTSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS---HHHHHHH
T ss_pred             hhhccCCCCCcceeECCcccCCeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC--HHHHHHH
Confidence            345889999999999999999999999999999999999999998876443322    5789999999987  5455555


Q ss_pred             HHHcCCCcc-----ccc-----ccEEEEecCCHHH-HHHHHHHHHHHhhc-CCceEEEEcccccchhcccCCCcchHHHH
Q 047388          181 AERFGMDPG-----AVL-----DNIIYARAYTYEH-QYNLLLGLAAKMSE-EPFRLLIVDSVIALFRVDFTGRGELADRQ  248 (352)
Q Consensus       181 ~~~~~~~~~-----~~~-----~~i~~~~~~~~~~-~~~~l~~l~~~l~~-~~~~lvvIDsl~~l~~~~~~~~g~~~~r~  248 (352)
                      +........     .+.     ..+.+........ ....+.++.+.+.. .++++||||+++.+.....     -..  
T Consensus        89 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~lvviD~l~~~~~~~~-----~~~--  161 (193)
T PF13481_consen   89 LRALLQDYDDDANLFFVDLSNWGCIRLFEPDSGGPLLDEDLEELEAALKELYGPDLVVIDPLQSLHDGDE-----NSN--  161 (193)
T ss_dssp             HHHHHTTS-HHHHHHHHHH--E-EE---TTS---TTSHHHHHHHHHHHTT----SEEEEE-GGGG--S-T-----T-H--
T ss_pred             HHHHhcccCCccceEEeeccccccceeeecccccccchHHHHHHHHHHhhcCCCcEEEEcCHHHHhcCCC-----CCH--
Confidence            544322211     011     1122222111111 23345566677777 6899999999999976411     111  


Q ss_pred             HHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          249 QKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       249 ~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      ....++++.|+++|+++|++|++++|.++
T Consensus       162 ~~~~~~~~~l~~la~~~~~~vi~v~H~~K  190 (193)
T PF13481_consen  162 SAVAQLMQELKRLAKEYGVAVILVHHTNK  190 (193)
T ss_dssp             HHHHHHHHHHHHHHHHH--EEEEEEEE--
T ss_pred             HHHHHHHHHHHHHHHHcCCEEEEEECCCC
Confidence            12368999999999999999999999987

>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=99.74  E-value=1.2e-16  Score=138.16  Aligned_cols=174  Identities=21%  Similarity=0.227  Sum_probs=120.7

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccc--cEEEEecCC---
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLD--NIIYARAYT---  202 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~--~i~~~~~~~---  202 (352)
                      +++|.|+||+|||+|+.+++...+.      .+.+|+|+++|.+  ++.+.+.++++|++.+.+.+  .+.+.....   
T Consensus         1 ~~li~G~~G~GKT~l~~~~~~~~~~------~g~~v~~~s~e~~--~~~~~~~~~~~g~~~~~l~~~g~l~~~d~~~~~~   72 (187)
T cd01124           1 STLLSGGPGTGKTTFALQFLYAGLA------RGEPGLYVTLEES--PEELIENAESLGWDLERLEDEGLLAIVDADPDEI   72 (187)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHH------CCCcEEEEECCCC--HHHHHHHHHHcCCChHHHHhcCCeEEEecCcccc
Confidence            4789999999999999999998876      6889999999987  77788888899988654322  233333211   


Q ss_pred             -HHHH---HHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccC
Q 047388          203 -YEHQ---YNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIAD  278 (352)
Q Consensus       203 -~~~~---~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~  278 (352)
                       ....   .+++..+...+...+++++|||+++.++..+     ....+    ..+.+.++.+. +.|+++|+++|....
T Consensus        73 s~~~~~~~~~~~~~i~~~~~~~~~~~lviD~~~~~~~~~-----~~~~~----~~i~~l~~~l~-~~g~tvi~v~~~~~~  142 (187)
T cd01124          73 GPAESSLRLELIQRLKDAIEEFKAKRVVIDSVSGLLLME-----QSTAR----LEIRRLLFALK-RFGVTTLLTSEQSGL  142 (187)
T ss_pred             chhhhhhhHHHHHHHHHHHHHhCCCEEEEeCcHHHhhcC-----hHHHH----HHHHHHHHHHH-HCCCEEEEEeccccC
Confidence             1111   1334455555566789999999999886421     11111    23444444444 459999999998763


Q ss_pred             CCCCcccCCCCCCCcchhhhhccceEEEEEeec-C--CeEEEEEEeCCCCCcc
Q 047388          279 PGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGK-G--EQRVCKVFDAPNLPEA  328 (352)
Q Consensus       279 ~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~-~--~~R~~~i~Ks~~~~~~  328 (352)
                      .+ .        +.+...+.+.+|.++.|++.. +  ..|.++|.|+|+.++.
T Consensus       143 ~~-~--------~~~~~~~~~~aD~ii~l~~~~~~~~~~r~l~i~K~R~~~~~  186 (187)
T cd01124         143 EG-T--------GFGGGDVEYLVDGVIRLRLDEEGGRLRRSLSVVKMRGGPHD  186 (187)
T ss_pred             CC-c--------ccCcCceeEeeeEEEEEEEEccCCEEEEEEEEEEccCCCCC
Confidence            21 1        344567899999999998753 2  3688999999988764

A related protein is found in archaea.

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=99.66  E-value=8.5e-15  Score=131.81  Aligned_cols=173  Identities=16%  Similarity=0.244  Sum_probs=113.9

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcCCCccCC------CCCeEEEEeCCCCCC--hhhHHHHHHHcCCCcccccccEEE
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRG------GNGKVAYIDTEGTFR--PDRIVPIAERFGMDPGAVLDNIIY  197 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg------~~~~vl~i~~e~~~~--~~rl~~~~~~~~~~~~~~~~~i~~  197 (352)
                      |.+..|+|+||+|||+|++++|.+++.+.++.|      .+++|+|++.|++..  ..|+..+...++..  .+.+++.+
T Consensus         1 g~~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed~~~~i~~Rl~~i~~~~~~~--~~~~rl~~   78 (239)
T cd01125           1 GYVSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDPREEIHRRLEAILQHLEPD--DAGDRLFI   78 (239)
T ss_pred             CceeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCCCHHHHHHHHHHHHhhcCCc--CcccceEE
Confidence            678999999999999999999999887766655      578999999998743  23444444444422  12233322


Q ss_pred             E----------ecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCc
Q 047388          198 A----------RAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNV  267 (352)
Q Consensus       198 ~----------~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~  267 (352)
                      .          .... ......+..+.+.+...++++||||+++.+....     +...  .....++..|+++++++|+
T Consensus        79 ~~g~~~~l~~~~~~~-~~~~~~~~~l~~~~~~~~~~lvviDpl~~~~~~~-----~~d~--~~~~~~~~~L~~~a~~~g~  150 (239)
T cd01125          79 DSGRIQPISIAREGR-IIVVPEFERIIEQLLIRRIDLVVIDPLVSFHGVS-----ENDN--GAMDAVIKALRRIAAQTGA  150 (239)
T ss_pred             eccCCCceecccCCc-ccccHHHHHHHHHHHhcCCCEEEECChHHhCCCC-----cCCH--HHHHHHHHHHHHHHHHhCC
Confidence            1          1000 0111223333334445689999999988773211     1111  1234788889999999999


Q ss_pred             EEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEee
Q 047388          268 AVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKG  310 (352)
Q Consensus       268 ~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~  310 (352)
                      +|++++|.++......  .......|+..|...++..+.|.+.
T Consensus       151 avl~v~H~~K~~~~~~--~~~~~~rGssal~~~~r~~~~l~~~  191 (239)
T cd01125         151 AILLVHHVRKGSAKDG--DTQEAARGASALVDGARWVRALTRM  191 (239)
T ss_pred             EEEEEeccCcccccCc--ccccccCcHHHHhcccceEEEEeeC
Confidence            9999999987432110  0123467889999999999999863

RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=99.54  E-value=1.1e-13  Score=116.16  Aligned_cols=164  Identities=24%  Similarity=0.216  Sum_probs=104.5

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCCHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQY  207 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~  207 (352)
                      +++|+|+||+|||+|+.+++.....      .+++++|++.+......  .......  ......+++.+..........
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~~~------~~~~v~~~~~e~~~~~~--~~~~~~~--~~~~~~~~~~~~~~~~~~~~~   70 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNIAT------KGGKVVYVDIEEEIEEL--TERLIGE--SLKGALDNLIIVFATADDPAA   70 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHHHh------cCCEEEEEECCcchHHH--HHHHhhh--hhccccccEEEEEcCCCCCcH
Confidence            4789999999999999999888765      57899999999874432  2211111  111122444444433222111


Q ss_pred             -HHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccC
Q 047388          208 -NLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFIS  286 (352)
Q Consensus       208 -~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~  286 (352)
                       .............+++++|||+++.+......+.   ......+.+.+..|...+++.++++|+++|.....+.. +  
T Consensus        71 ~~~~~~~~~~~~~~~~~~lviDe~~~~~~~~~~~~---~~~~~~~~~~l~~l~~~~~~~~~~vv~~~~~~~~~~~~-~--  144 (165)
T cd01120          71 ARLLSKAERLRERGGDDLIILDELTRLVRALREIR---EGYPGELDEELRELLERARKGGVTVIFTLQVPSGDKGD-P--  144 (165)
T ss_pred             HHHHHHHHHHHhCCCCEEEEEEcHHHHHHHHHHHH---hcCChHHHHHHHHHHHHHhcCCceEEEEEecCCccccC-c--
Confidence             1112223344456899999999998865422100   00012345777788888888999999999998743321 1  


Q ss_pred             CCCCCCcchhhhhccceEEEEEe
Q 047388          287 DPKKPAGGHVLAHAVTIRLMFRK  309 (352)
Q Consensus       287 ~~~~~~gg~~~~~~~~~~i~L~~  309 (352)
                        ..+.++..+.+.+|.++.|++
T Consensus       145 --~~~~~~~~~~~~~d~~~~l~~  165 (165)
T cd01120         145 --RLTRGAQNLEDIADTVIVLSR  165 (165)
T ss_pred             --ccccCccceeeecceEEEEeC
Confidence              125677889999999999864

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.

>KOG2859 consensus DNA repair protein, member of the recA/RAD51 family [Replication, recombination and repair]

Probab=99.51  E-value=4.6e-13  Score=114.04  Aligned_cols=153  Identities=21%  Similarity=0.291  Sum_probs=122.4

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHH----cCC--------Cc----
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAER----FGM--------DP----  188 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~----~~~--------~~----  188 (352)
                      .|.+++|.||.++|||..+.|+++.+.+|+.+||.+..|+|+|+...|+..|+.++.+.    +.+        ..    
T Consensus        37 aG~~vEi~Gp~~sgKt~vL~ql~a~CilPk~~GGl~~~VLfidld~~fd~lrL~~~l~hrL~q~~~~e~~~~~c~te~~~  116 (293)
T KOG2859|consen   37 AGTLVEISGPGNSGKTLVLQQLVAHCILPKKFGGLQWSVLFIDLDHKFDRLRLAKSLRHRLKQYSVGEVIAAKCPTEEQL  116 (293)
T ss_pred             cCcEEEEeCCCCccHHHHHHHHHHHeecccccCCceeEEEEEeccccccHHHHHHHHHHHHHHhhhhhhhhhcCCcHhHH
Confidence            68999999999999999999999999999999999999999999999999888877653    211        00    


Q ss_pred             ----ccccccEEEEecCCHHHHHHHHHHHHHHhhcC-CceEEEEcccccchhcccCCCcchH-HHHHHHHHHHHHHHHHH
Q 047388          189 ----GAVLDNIIYARAYTYEHQYNLLLGLAAKMSEE-PFRLLIVDSVIALFRVDFTGRGELA-DRQQKLGQMLSRLTKIS  262 (352)
Q Consensus       189 ----~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~-~~~lvvIDsl~~l~~~~~~~~g~~~-~r~~~l~~i~~~L~~la  262 (352)
                          .+.+.++.++++++..++...+..++..+.++ ++.++++||++++++.+-...++-- .....++.+.+.|++++
T Consensus       117 eEi~~~Cm~Rf~~v~C~~s~~ll~sL~~l~y~i~~~p~~cll~~DslsaFyW~Dr~~~le~~n~~~~~lr~~~q~LeKL~  196 (293)
T KOG2859|consen  117 EEIAGECMSRFRFVNCFASDDLLTSLIDLRYAIINDPGICLLAMDSLSAFYWLDRPKILEKRNSMYRHLRLLQQRLEKLC  196 (293)
T ss_pred             HHHHHHHHhhEEEEEeeccHHHHHHHHHHHHHHhcCCceeEEeecchhhheeecccchHhhhhhHHHHHHHHHHHHHHHH
Confidence                13467899999999999888888888777776 4899999999999987543211111 11235678889999999


Q ss_pred             HHhCcEEEEEccccc
Q 047388          263 EEFNVAVYMTNQVIA  277 (352)
Q Consensus       263 ~~~~~~viv~~h~~~  277 (352)
                      +.+...++.|.+...
T Consensus       197 ~d~~lv~~aT~~ti~  211 (293)
T KOG2859|consen  197 KDAILVGMATVETIF  211 (293)
T ss_pred             hhheeeeeeehhHHH
Confidence            998888888877543

>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]

Probab=99.47  E-value=2.5e-13  Score=122.20  Aligned_cols=178  Identities=19%  Similarity=0.331  Sum_probs=119.6

Q ss_pred             hcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCC----CCCeEEEEeCCCCCC--hhhHHHHHHHcCCCccccc
Q 047388          119 LGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRG----GNGKVAYIDTEGTFR--PDRIVPIAERFGMDPGAVL  192 (352)
Q Consensus       119 L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg----~~~~vl~i~~e~~~~--~~rl~~~~~~~~~~~~~~~  192 (352)
                      +.+-+..|-...|+|++|+|||+++++++.......++-|    .+++|+|++.|...+  -.|++.+..++++.|.++ 
T Consensus        82 Id~~fr~g~~~~~~gdsg~GKttllL~l~IalaaG~~lfG~~v~epGkvlyvslEl~re~~L~Rl~~v~a~mgLsPadv-  160 (402)
T COG3598          82 IDEFFRKGYVSILYGDSGVGKTTLLLYLCIALAAGKNLFGNKVKEPGKVLYVSLELYREDILERLEPVRARMGLSPADV-  160 (402)
T ss_pred             hhHHhhcCeeEEEecCCcccHhHHHHHHHHHHHhhHHHhcccccCCCeEEEEEeccChHHHHHHHHHHHHHcCCChHhh-
Confidence            3456677888889999999999999999988776555433    478999999997633  246677788899988544 


Q ss_pred             ccEEEEec---CCHHHH--HHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCc
Q 047388          193 DNIIYARA---YTYEHQ--YNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNV  267 (352)
Q Consensus       193 ~~i~~~~~---~~~~~~--~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~  267 (352)
                      .|+...+.   ....+.  ..++.+....+.+..+++||||++.+++..+     +...  ..+..+++.++++|..++|
T Consensus       161 rn~dltd~~Gaa~~~d~l~pkl~rRfek~~~Q~rp~~vViDp~v~f~~G~-----s~s~--vqv~~fi~~~rkla~~l~c  233 (402)
T COG3598         161 RNMDLTDVSGAADESDVLSPKLYRRFEKILEQKRPDFVVIDPFVAFYEGK-----SISD--VQVKEFIKKTRKLARNLEC  233 (402)
T ss_pred             hheeccccccCCCccccccHHHHHHHHHHHHHhCCCeEEEcchhhhcCCc-----cchh--HHHHHHHHHHHHHHHhcCC
Confidence            33433211   110010  1334445555666789999999999886422     2222  3457999999999999999


Q ss_pred             EEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEe
Q 047388          268 AVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRK  309 (352)
Q Consensus       268 ~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~  309 (352)
                      +||+++|..+...++     ...-.|+..|.....+++++..
T Consensus       234 aIiy~hHtskss~~~-----ksgrsGs~~dg~~l~~~l~l~~  270 (402)
T COG3598         234 AIIYIHHTSKSSGKN-----KSGRSGSVSDGKFLTTPLMLAY  270 (402)
T ss_pred             eEEEEeccccccCCC-----CCCCCCccCccHHHhhHHHHhc
Confidence            999999998743221     1112344455555555555543

>KOG2373 consensus Predicted mitochondrial DNA helicase twinkle [Replication, recombination and repair]

Probab=99.36  E-value=2.5e-12  Score=116.78  Aligned_cols=202  Identities=13%  Similarity=0.174  Sum_probs=133.5

Q ss_pred             CChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHH-HHHc-CCCc
Q 047388          111 GSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPI-AERF-GMDP  188 (352)
Q Consensus       111 G~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~-~~~~-~~~~  188 (352)
                      -++.|+++| +|.++|++++++||+|+|||||+...+...+.      ++-+.+|-+.|.+  ..|+..+ +.++ |...
T Consensus       259 RFpvLNk~L-kGhR~GElTvlTGpTGsGKTTFlsEYsLDL~~------QGVnTLwgSFEi~--n~rla~~mL~Qyagyrl  329 (514)
T KOG2373|consen  259 RFPVLNKYL-KGHRPGELTVLTGPTGSGKTTFLSEYSLDLFT------QGVNTLWGSFEIP--NKRLAHWMLVQYAGYRL  329 (514)
T ss_pred             hhhHHHHHh-ccCCCCceEEEecCCCCCceeEehHhhHHHHh------hhhhheeeeeecc--hHHHHHHHHHHHccCch
Confidence            457899999 89999999999999999999999888887776      7888999999975  4455443 3333 3221


Q ss_pred             cc-------ccccE----EEEecCCHHH-HHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHH
Q 047388          189 GA-------VLDNI----IYARAYTYEH-QYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLS  256 (352)
Q Consensus       189 ~~-------~~~~i----~~~~~~~~~~-~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~  256 (352)
                      ++       ..+++    .+...+...+ +...++.+.-.+.-+++.-||||+++.++....-.    .+|-.....++.
T Consensus       330 ~drl~~y~HWadrFErlplyfmtfhgqq~~~~vi~~i~ha~yV~di~HViIDNLQFmmg~~~~~----~Drf~~QD~iig  405 (514)
T KOG2373|consen  330 LDRLNSYKHWADRFERLPLYFMTFHGQQFMEKVINEIAHAIYVEDIQHVIIDNLQFMMGQGMMA----LDRFHLQDRIIG  405 (514)
T ss_pred             HhhhhhhhHHHHHHhccchHhhhhcccchHHHHHHHHHHHHHHHhhhhhhhhhHHHHhccchhc----cchhhhHHHHHH
Confidence            10       00110    1111122222 22334444444444578999999999987643211    234334468888


Q ss_pred             HHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeec----CCeEEEEEEeCCCCCc
Q 047388          257 RLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGK----GEQRVCKVFDAPNLPE  327 (352)
Q Consensus       257 ~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~----~~~R~~~i~Ks~~~~~  327 (352)
                      .++++|.++||.|-++-|..+..+....  +....-|+-...+-+|+++.+.+.+    ...+++.|.|+|....
T Consensus       406 ~fR~fAT~nn~HvTlVvHPRKed~d~El--~t~s~fGsAkatQEADNVliiQdkrl~~~rgkkyLqi~KNRy~Gd  478 (514)
T KOG2373|consen  406 YFRQFATQNNIHVTLVVHPRKEDGDTEL--DTQSFFGSAKATQEADNVLIIQDKRLDRDRGKKYLQILKNRYYGD  478 (514)
T ss_pred             HHHHHhhccceeEEEEecccccCCCcee--eehhhccccccccccccEEEEeecccccccchhhhhhhhhcccCc
Confidence            9999999999999999999885322211  1112345556678899999997532    1467899999998654

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

Probab=99.25  E-value=1e-10  Score=100.45  Aligned_cols=135  Identities=19%  Similarity=0.321  Sum_probs=87.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCc--------ccccc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDP--------GAVLD  193 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~--------~~~~~  193 (352)
                      -+.+|+++.|+||||||||||+.  |.|.+.+     ...+-++|+.+.......+.++.++.|+-+        ..+++
T Consensus        24 ~v~~Gevv~iiGpSGSGKSTlLR--clN~LE~-----~~~G~I~i~g~~~~~~~~~~~~R~~vGmVFQ~fnLFPHlTvle   96 (240)
T COG1126          24 SVEKGEVVVIIGPSGSGKSTLLR--CLNGLEE-----PDSGSITVDGEDVGDKKDILKLRRKVGMVFQQFNLFPHLTVLE   96 (240)
T ss_pred             eEcCCCEEEEECCCCCCHHHHHH--HHHCCcC-----CCCceEEECCEeccchhhHHHHHHhcCeecccccccccchHHH
Confidence            57899999999999999999999  6677765     355678888864433324555555554433        24566


Q ss_pred             cEEEEec----CCHHHH----HHHHHH-----------------------HHHHhhcCCceEEEEcccccchhcccCCCc
Q 047388          194 NIIYARA----YTYEHQ----YNLLLG-----------------------LAAKMSEEPFRLLIVDSVIALFRVDFTGRG  242 (352)
Q Consensus       194 ~i~~~~~----~~~~~~----~~~l~~-----------------------l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g  242 (352)
                      |+.....    .+..+.    .+++.+                       |.+.+ ..+|+++..|+.++.+.+++    
T Consensus        97 Nv~lap~~v~~~~k~eA~~~A~~lL~~VGL~~ka~~yP~qLSGGQqQRVAIARAL-aM~P~vmLFDEPTSALDPEl----  171 (240)
T COG1126          97 NVTLAPVKVKKLSKAEAREKALELLEKVGLADKADAYPAQLSGGQQQRVAIARAL-AMDPKVMLFDEPTSALDPEL----  171 (240)
T ss_pred             HHHhhhHHHcCCCHHHHHHHHHHHHHHcCchhhhhhCccccCcHHHHHHHHHHHH-cCCCCEEeecCCcccCCHHH----
Confidence            6554321    111111    111111                       01111 13799999999998876533    


Q ss_pred             chHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          243 ELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       243 ~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                              ..+++..++.||++ |.|.|+++|-..
T Consensus       172 --------v~EVL~vm~~LA~e-GmTMivVTHEM~  197 (240)
T COG1126         172 --------VGEVLDVMKDLAEE-GMTMIIVTHEMG  197 (240)
T ss_pred             --------HHHHHHHHHHHHHc-CCeEEEEechhH
Confidence                    35899999999986 899999998553

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=99.12  E-value=7.6e-10  Score=97.17  Aligned_cols=151  Identities=18%  Similarity=0.211  Sum_probs=87.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC--CCCh-hhHHHHHHHcCCCc--------cc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG--TFRP-DRIVPIAERFGMDP--------GA  190 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~--~~~~-~rl~~~~~~~~~~~--------~~  190 (352)
                      -+++|+++.|.||||||||||+.-+. ....|      ..+.++|+..+  .++. .+...+.+.+|+-+        -+
T Consensus        27 ~i~~Ge~vaI~GpSGSGKSTLLniig-~ld~p------t~G~v~i~g~d~~~l~~~~~~~~R~~~iGfvFQ~~nLl~~lt   99 (226)
T COG1136          27 EIEAGEFVAIVGPSGSGKSTLLNLLG-GLDKP------TSGEVLINGKDLTKLSEKELAKLRRKKIGFVFQNFNLLPDLT   99 (226)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHh-cccCC------CCceEEECCEEcCcCCHHHHHHHHHHhEEEECccCCCCCCCC
Confidence            58999999999999999999998443 33332      23344555422  1222 22333344444332        24


Q ss_pred             ccccEEE----EecCCH--HH-HHHHHHH--HH------------------HHhh---cCCceEEEEcccccchhcccCC
Q 047388          191 VLDNIIY----ARAYTY--EH-QYNLLLG--LA------------------AKMS---EEPFRLLIVDSVIALFRVDFTG  240 (352)
Q Consensus       191 ~~~~i~~----~~~~~~--~~-~~~~l~~--l~------------------~~l~---~~~~~lvvIDsl~~l~~~~~~~  240 (352)
                      +.+|+.+    ......  .. ...++..  +.                  -.+.   -.+|++|+-|+.+.-+..    
T Consensus       100 v~ENv~lpl~~~~~~~~~~~~~~~~l~~~lgl~~~~~~~~p~eLSGGqqQRVAIARAL~~~P~iilADEPTgnLD~----  175 (226)
T COG1136         100 VLENVELPLLIAGKSAGRRKRAAEELLEVLGLEDRLLKKKPSELSGGQQQRVAIARALINNPKIILADEPTGNLDS----  175 (226)
T ss_pred             HHHHHHhHHHHcCCChhHHHHHHHHHHHhcCChhhhccCCchhcCHHHHHHHHHHHHHhcCCCeEEeeCccccCCh----
Confidence            4556542    111110  00 1111111  00                  0001   137899999988765421    


Q ss_pred             CcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEee
Q 047388          241 RGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKG  310 (352)
Q Consensus       241 ~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~  310 (352)
                            ..  -.+++..|+.+++++|.|||+++|-..                   ++..+|-+|.+..+
T Consensus       176 ------~t--~~~V~~ll~~~~~~~g~tii~VTHd~~-------------------lA~~~dr~i~l~dG  218 (226)
T COG1136         176 ------KT--AKEVLELLRELNKERGKTIIMVTHDPE-------------------LAKYADRVIELKDG  218 (226)
T ss_pred             ------HH--HHHHHHHHHHHHHhcCCEEEEEcCCHH-------------------HHHhCCEEEEEeCC
Confidence                  11  238899999999999999999999442                   46677888888754

>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=99.08  E-value=3.6e-10  Score=99.29  Aligned_cols=136  Identities=19%  Similarity=0.254  Sum_probs=81.3

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCC--hh----hHHHHHHHcCCCcc-ccccc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFR--PD----RIVPIAERFGMDPG-AVLDN  194 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~--~~----rl~~~~~~~~~~~~-~~~~~  194 (352)
                      -++.|+++.+.|||||||||++.  +.|.+..     ...+.++|+.+...+  ..    ++....+..|+.|. .+.+|
T Consensus        23 ~I~~gef~vliGpSGsGKTTtLk--MINrLie-----pt~G~I~i~g~~i~~~d~~~LRr~IGYviQqigLFPh~Tv~eN   95 (309)
T COG1125          23 TIEEGEFLVLIGPSGSGKTTTLK--MINRLIE-----PTSGEILIDGEDISDLDPVELRRKIGYVIQQIGLFPHLTVAEN   95 (309)
T ss_pred             EecCCeEEEEECCCCCcHHHHHH--HHhcccC-----CCCceEEECCeecccCCHHHHHHhhhhhhhhcccCCCccHHHH
Confidence            58899999999999999999999  4455554     245567888876433  22    23334455666553 55667


Q ss_pred             EEEEec---CCHHHHHHHHHHHH-----------------------------HHhhcCCceEEEEcccccchhcccCCCc
Q 047388          195 IIYARA---YTYEHQYNLLLGLA-----------------------------AKMSEEPFRLLIVDSVIALFRVDFTGRG  242 (352)
Q Consensus       195 i~~~~~---~~~~~~~~~l~~l~-----------------------------~~l~~~~~~lvvIDsl~~l~~~~~~~~g  242 (352)
                      +.++..   ++.....+...++.                             +.+ ...|.++..|+.-..+.+      
T Consensus        96 Ia~VP~L~~w~k~~i~~r~~ELl~lvgL~p~~~~~RyP~eLSGGQQQRVGv~RAL-AadP~ilLMDEPFgALDp------  168 (309)
T COG1125          96 IATVPKLLGWDKERIKKRADELLDLVGLDPSEYADRYPHELSGGQQQRVGVARAL-AADPPILLMDEPFGALDP------  168 (309)
T ss_pred             HHhhhhhcCCCHHHHHHHHHHHHHHhCCCHHHHhhcCchhcCcchhhHHHHHHHH-hcCCCeEeecCCccccCh------
Confidence            655432   22222111111111                             011 125778888864433221      


Q ss_pred             chHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          243 ELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       243 ~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                       . .|.    ++-..++++-++.+.|||+++|-..
T Consensus       169 -I-~R~----~lQ~e~~~lq~~l~kTivfVTHDid  197 (309)
T COG1125         169 -I-TRK----QLQEEIKELQKELGKTIVFVTHDID  197 (309)
T ss_pred             -h-hHH----HHHHHHHHHHHHhCCEEEEEecCHH
Confidence             1 232    4556678888999999999999543

>COG1127 Ttg2A ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]

Probab=99.08  E-value=3.8e-10  Score=98.47  Aligned_cols=136  Identities=18%  Similarity=0.272  Sum_probs=84.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC--CChhhHHHHHHHcCCCcc--------cc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT--FRPDRIVPIAERFGMDPG--------AV  191 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~--~~~~rl~~~~~~~~~~~~--------~~  191 (352)
                      -+++|+++.|.|+||+|||||+..++.-  +++     ..+-+++++++-  .+..+...+.+++|+-++        .+
T Consensus        30 ~V~~Gei~~iiGgSGsGKStlLr~I~Gl--l~P-----~~GeI~i~G~~i~~ls~~~~~~ir~r~GvlFQ~gALFssltV  102 (263)
T COG1127          30 DVPRGEILAILGGSGSGKSTLLRLILGL--LRP-----DKGEILIDGEDIPQLSEEELYEIRKRMGVLFQQGALFSSLTV  102 (263)
T ss_pred             eecCCcEEEEECCCCcCHHHHHHHHhcc--CCC-----CCCeEEEcCcchhccCHHHHHHHHhheeEEeeccccccccch
Confidence            5899999999999999999999977543  332     334556666542  334556667777775432        56


Q ss_pred             cccEEEEec----CCHHHHHHHH-HHH---------------------------HHHhhcCCceEEEEcccccchhcccC
Q 047388          192 LDNIIYARA----YTYEHQYNLL-LGL---------------------------AAKMSEEPFRLLIVDSVIALFRVDFT  239 (352)
Q Consensus       192 ~~~i~~~~~----~~~~~~~~~l-~~l---------------------------~~~l~~~~~~lvvIDsl~~l~~~~~~  239 (352)
                      .+|+.+.-.    .+.....++. .++                           .+.+ ..+|++++.|+.++-..+   
T Consensus       103 ~eNVafplre~~~lp~~~i~~lv~~KL~~VGL~~~~~~~~PsELSGGM~KRvaLARAi-aldPell~~DEPtsGLDP---  178 (263)
T COG1127         103 FENVAFPLREHTKLPESLIRELVLMKLELVGLRGAAADLYPSELSGGMRKRVALARAI-ALDPELLFLDEPTSGLDP---  178 (263)
T ss_pred             hHhhheehHhhccCCHHHHHHHHHHHHHhcCCChhhhhhCchhhcchHHHHHHHHHHH-hcCCCEEEecCCCCCCCc---
Confidence            677665311    1111111110 001                           0111 137889999988766433   


Q ss_pred             CCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          240 GRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       240 ~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                          .+     ...+...++++.+..++|+++++|-..
T Consensus       179 ----I~-----a~~~~~LI~~L~~~lg~T~i~VTHDl~  207 (263)
T COG1127         179 ----IS-----AGVIDELIRELNDALGLTVIMVTHDLD  207 (263)
T ss_pred             ----ch-----HHHHHHHHHHHHHhhCCEEEEEECChH
Confidence                22     236677788888899999999999543

>COG1135 AbcC ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=99.05  E-value=7e-10  Score=100.14  Aligned_cols=144  Identities=17%  Similarity=0.283  Sum_probs=91.3

Q ss_pred             ChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC--CCChhhHHHHHHHcCCCcc
Q 047388          112 SQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG--TFRPDRIVPIAERFGMDPG  189 (352)
Q Consensus       112 ~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~--~~~~~rl~~~~~~~~~~~~  189 (352)
                      +..||.+- =-+++|+++.|.|.||+|||||+.  +.|.+..++    .+ -+++++.+  .++...+++..++.|+-++
T Consensus        19 ~~al~~vs-L~I~~GeI~GIIG~SGAGKSTLiR--~iN~Le~Pt----sG-~v~v~G~di~~l~~~~Lr~~R~~IGMIFQ   90 (339)
T COG1135          19 VTALDDVS-LEIPKGEIFGIIGYSGAGKSTLLR--LINLLERPT----SG-SVFVDGQDLTALSEAELRQLRQKIGMIFQ   90 (339)
T ss_pred             eeeeccce-EEEcCCcEEEEEcCCCCcHHHHHH--HHhccCCCC----Cc-eEEEcCEecccCChHHHHHHHhhccEEec
Confidence            45566542 368999999999999999999999  667666532    33 45555533  2445566776677665442


Q ss_pred             --------cccccEEEEec---CCHHHHH----HHHHH-----------------------HHHHhhcCCceEEEEcccc
Q 047388          190 --------AVLDNIIYARA---YTYEHQY----NLLLG-----------------------LAAKMSEEPFRLLIVDSVI  231 (352)
Q Consensus       190 --------~~~~~i~~~~~---~~~~~~~----~~l~~-----------------------l~~~l~~~~~~lvvIDsl~  231 (352)
                              .+.+|+.+.-.   .+-.+..    ++++.                       +.+.+ ..+|++++-|+.+
T Consensus        91 hFnLLssrTV~~NvA~PLeiag~~k~ei~~RV~elLelVgL~dk~~~yP~qLSGGQKQRVaIARAL-a~~P~iLL~DEaT  169 (339)
T COG1135          91 HFNLLSSRTVFENVAFPLELAGVPKAEIKQRVAELLELVGLSDKADRYPAQLSGGQKQRVAIARAL-ANNPKILLCDEAT  169 (339)
T ss_pred             cccccccchHHhhhhhhHhhcCCCHHHHHHHHHHHHHHcCChhhhccCchhcCcchhhHHHHHHHH-hcCCCEEEecCcc
Confidence                    34555544211   1111111    11110                       11111 1379999999998


Q ss_pred             cchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          232 ALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       232 ~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                      +.+.+..            ...++..|+++.+++|+|||++||-.
T Consensus       170 SALDP~T------------T~sIL~LL~~In~~lglTIvlITHEm  202 (339)
T COG1135         170 SALDPET------------TQSILELLKDINRELGLTIVLITHEM  202 (339)
T ss_pred             ccCChHH------------HHHHHHHHHHHHHHcCCEEEEEechH
Confidence            8865421            24899999999999999999999944

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

Probab=99.04  E-value=4e-09  Score=92.36  Aligned_cols=61  Identities=20%  Similarity=0.297  Sum_probs=48.3

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhh
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAH  299 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~  299 (352)
                      .+|+++|.|+.++.+..        .    ..+++++.|..+.+++|.+.|+++|-..                  .+.|
T Consensus       158 ~~PklLIlDEptSaLD~--------s----iQa~IlnlL~~l~~~~~lt~l~IsHdl~------------------~v~~  207 (252)
T COG1124         158 PEPKLLILDEPTSALDV--------S----VQAQILNLLLELKKERGLTYLFISHDLA------------------LVEH  207 (252)
T ss_pred             cCCCEEEecCchhhhcH--------H----HHHHHHHHHHHHHHhcCceEEEEeCcHH------------------HHHH
Confidence            37999999998887532        1    1258999999999999999999999543                  3688


Q ss_pred             ccceEEEEEee
Q 047388          300 AVTIRLMFRKG  310 (352)
Q Consensus       300 ~~~~~i~L~~~  310 (352)
                      +||-++.+..+
T Consensus       208 ~cdRi~Vm~~G  218 (252)
T COG1124         208 MCDRIAVMDNG  218 (252)
T ss_pred             HhhheeeeeCC
Confidence            88888888764

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=99.02  E-value=3.6e-09  Score=94.80  Aligned_cols=133  Identities=21%  Similarity=0.206  Sum_probs=83.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCccc--ccccEEEE-
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGA--VLDNIIYA-  198 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~--~~~~i~~~-  198 (352)
                      -+++|+++.|.||+|||||||+..++..  ++     ...+.++++...-. ...-+++++.+++-|+.  .-..+.+. 
T Consensus        24 ~i~~G~i~~iiGpNG~GKSTLLk~l~g~--l~-----p~~G~V~l~g~~i~-~~~~kelAk~ia~vpQ~~~~~~~~tV~d   95 (258)
T COG1120          24 SIPKGEITGILGPNGSGKSTLLKCLAGL--LK-----PKSGEVLLDGKDIA-SLSPKELAKKLAYVPQSPSAPFGLTVYE   95 (258)
T ss_pred             EecCCcEEEEECCCCCCHHHHHHHHhcc--CC-----CCCCEEEECCCchh-hcCHHHHhhhEEEeccCCCCCCCcEEee
Confidence            5889999999999999999999976543  22     24556778776532 22346677777665542  11122221 


Q ss_pred             -----ec--------CCHHH---HHHHHHHH-----------------------HHHhhcCCceEEEEcccccchhcccC
Q 047388          199 -----RA--------YTYEH---QYNLLLGL-----------------------AAKMSEEPFRLLIVDSVIALFRVDFT  239 (352)
Q Consensus       199 -----~~--------~~~~~---~~~~l~~l-----------------------~~~l~~~~~~lvvIDsl~~l~~~~~~  239 (352)
                           +.        .+.++   ..+.++.+                       .+.+. -+++++++|+.++.+.    
T Consensus        96 ~V~~GR~p~~~~~~~~~~~D~~~v~~aL~~~~~~~la~r~~~~LSGGerQrv~iArALa-Q~~~iLLLDEPTs~LD----  170 (258)
T COG1120          96 LVLLGRYPHLGLFGRPSKEDEEIVEEALELLGLEHLADRPVDELSGGERQRVLIARALA-QETPILLLDEPTSHLD----  170 (258)
T ss_pred             hHhhcCCcccccccCCCHhHHHHHHHHHHHhCcHHHhcCcccccChhHHHHHHHHHHHh-cCCCEEEeCCCccccC----
Confidence                 11        11111   11111111                       01111 2689999999998753    


Q ss_pred             CCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccc
Q 047388          240 GRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQV  275 (352)
Q Consensus       240 ~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~  275 (352)
                          +.  ++  .++++.+++++++.|.|||++.|-
T Consensus       171 ----i~--~Q--~evl~ll~~l~~~~~~tvv~vlHD  198 (258)
T COG1120         171 ----IA--HQ--IEVLELLRDLNREKGLTVVMVLHD  198 (258)
T ss_pred             ----HH--HH--HHHHHHHHHHHHhcCCEEEEEecC
Confidence                22  22  489999999999999999999884

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

Probab=98.99  E-value=6.7e-10  Score=97.86  Aligned_cols=136  Identities=18%  Similarity=0.242  Sum_probs=72.8

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCC-ChhhHHHHHHHcCCCc-ccccccEEEEe
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTF-RPDRIVPIAERFGMDP-GAVLDNIIYAR  199 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~-~~~rl~~~~~~~~~~~-~~~~~~i~~~~  199 (352)
                      -+.+|+++.|.||||||||||+.-+|  .+..+     ..+.+.+++.... +...+..++|+..+-| .++++|+.+.-
T Consensus        25 ~v~~GEfvsilGpSGcGKSTLLriiA--GL~~p-----~~G~V~~~g~~v~~p~~~~~~vFQ~~~LlPW~Tv~~NV~l~l   97 (248)
T COG1116          25 SVEKGEFVAILGPSGCGKSTLLRLIA--GLEKP-----TSGEVLLDGRPVTGPGPDIGYVFQEDALLPWLTVLDNVALGL   97 (248)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHh--CCCCC-----CCceEEECCcccCCCCCCEEEEeccCcccchhhHHhhheehh
Confidence            57899999999999999999999554  33332     2223344433211 1112223333333222 34445554431


Q ss_pred             cC---CHHH----HHHHHH-----------------------HHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHH
Q 047388          200 AY---TYEH----QYNLLL-----------------------GLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQ  249 (352)
Q Consensus       200 ~~---~~~~----~~~~l~-----------------------~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~  249 (352)
                      ..   ...+    ..+.++                       .+.+.+ -.+|+++++|+.-..+.       .+. |  
T Consensus        98 ~~~~~~~~e~~~~a~~~L~~VgL~~~~~~~P~qLSGGMrQRVaiARAL-~~~P~lLLlDEPFgALD-------alT-R--  166 (248)
T COG1116          98 ELRGKSKAEARERAKELLELVGLAGFEDKYPHQLSGGMRQRVAIARAL-ATRPKLLLLDEPFGALD-------ALT-R--  166 (248)
T ss_pred             hccccchHhHHHHHHHHHHHcCCcchhhcCccccChHHHHHHHHHHHH-hcCCCEEEEcCCcchhh-------HHH-H--
Confidence            11   1111    111111                       011111 13789999997544321       111 2  


Q ss_pred             HHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          250 KLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       250 ~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                        ..+-+.|.++.++.+.||++++|-..
T Consensus       167 --~~lq~~l~~lw~~~~~TvllVTHdi~  192 (248)
T COG1116         167 --EELQDELLRLWEETRKTVLLVTHDVD  192 (248)
T ss_pred             --HHHHHHHHHHHHhhCCEEEEEeCCHH
Confidence              25566788889999999999999765

>COG1131 CcmA ABC-type multidrug transport system, ATPase component [Defense mechanisms]

Probab=98.97  E-value=6.3e-09  Score=96.32  Aligned_cols=46  Identities=17%  Similarity=0.312  Sum_probs=36.6

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      ++|+++++|+.++-+.+        ..|    .++.+.|+.++++.+.+|++++|...
T Consensus       153 ~~P~lliLDEPt~GLDp--------~~~----~~~~~~l~~l~~~g~~tvlissH~l~  198 (293)
T COG1131         153 HDPELLILDEPTSGLDP--------ESR----REIWELLRELAKEGGVTILLSTHILE  198 (293)
T ss_pred             cCCCEEEECCCCcCCCH--------HHH----HHHHHHHHHHHhCCCcEEEEeCCcHH
Confidence            47899999998876532        222    37888899999988899999999876

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=98.93  E-value=1.7e-08  Score=83.52  Aligned_cols=148  Identities=18%  Similarity=0.218  Sum_probs=90.8

Q ss_pred             cCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC--CCChhhHH----HHHHH
Q 047388          110 TGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG--TFRPDRIV----PIAER  183 (352)
Q Consensus       110 TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~--~~~~~rl~----~~~~~  183 (352)
                      ++-+-||.+- =-+.+|+.+.|+||||||||||+.++|.-. .      ...+.+||.+|.  ...++..+    ..++.
T Consensus        14 ~~a~il~~is-l~v~~Ge~iaitGPSG~GKStllk~va~Li-s------p~~G~l~f~Ge~vs~~~pea~Rq~VsY~~Q~   85 (223)
T COG4619          14 GDAKILNNIS-LSVRAGEFIAITGPSGCGKSTLLKIVASLI-S------PTSGTLLFEGEDVSTLKPEAYRQQVSYCAQT   85 (223)
T ss_pred             CCCeeeccee-eeecCCceEEEeCCCCccHHHHHHHHHhcc-C------CCCceEEEcCccccccChHHHHHHHHHHHcC
Confidence            3444455432 367899999999999999999999776432 2      345678887774  23344333    33444


Q ss_pred             cCCCcccccccEEEE-----ecCCHHHHHHHHHHH---------------------HHHhh--cCCceEEEEcccccchh
Q 047388          184 FGMDPGAVLDNIIYA-----RAYTYEHQYNLLLGL---------------------AAKMS--EEPFRLLIVDSVIALFR  235 (352)
Q Consensus       184 ~~~~~~~~~~~i~~~-----~~~~~~~~~~~l~~l---------------------~~~l~--~~~~~lvvIDsl~~l~~  235 (352)
                      -.+..+.+.+|+.+.     +.++.....+++.+.                     ...++  +..|+++.+|++++.+.
T Consensus        86 paLfg~tVeDNlifP~~~r~rr~dr~aa~~llar~~l~~~~L~k~it~lSGGE~QriAliR~Lq~~P~ILLLDE~TsALD  165 (223)
T COG4619          86 PALFGDTVEDNLIFPWQIRNRRPDRAAALDLLARFALPDSILTKNITELSGGEKQRIALIRNLQFMPKILLLDEITSALD  165 (223)
T ss_pred             ccccccchhhccccchHHhccCCChHHHHHHHHHcCCchhhhcchhhhccchHHHHHHHHHHhhcCCceEEecCchhhcC
Confidence            455566777886653     223333333322211                     01111  24799999999988754


Q ss_pred             cccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          236 VDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       236 ~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      .       .+.|     .+-..+.++.++.+++|+-++|-..
T Consensus       166 ~-------~nkr-----~ie~mi~~~v~~q~vAv~WiTHd~d  195 (223)
T COG4619         166 E-------SNKR-----NIEEMIHRYVREQNVAVLWITHDKD  195 (223)
T ss_pred             h-------hhHH-----HHHHHHHHHhhhhceEEEEEecChH
Confidence            2       1222     3444566666788999999999654

>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=98.92  E-value=1.3e-09  Score=101.78  Aligned_cols=144  Identities=16%  Similarity=0.207  Sum_probs=86.4

Q ss_pred             ChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC----CChhhHHHHHHHcCCC
Q 047388          112 SQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT----FRPDRIVPIAERFGMD  187 (352)
Q Consensus       112 ~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~----~~~~rl~~~~~~~~~~  187 (352)
                      ...+|.+ .--+++|+++.|.|||||||||++..||.--..       .++-++++.+.-    .....+..+++.|.+.
T Consensus        18 ~~av~~i-sl~i~~Gef~~lLGPSGcGKTTlLR~IAGfe~p-------~~G~I~l~G~~i~~lpp~kR~ig~VFQ~YALF   89 (352)
T COG3842          18 FTAVDDI-SLDIKKGEFVTLLGPSGCGKTTLLRMIAGFEQP-------SSGEILLDGEDITDVPPEKRPIGMVFQSYALF   89 (352)
T ss_pred             eeEEecc-eeeecCCcEEEEECCCCCCHHHHHHHHhCCCCC-------CCceEEECCEECCCCChhhcccceeecCcccC
Confidence            3445542 356899999999999999999999977654332       344566766542    1223455667777766


Q ss_pred             cc-cccccEEEEec----CCHHHHHHHHHHHH-----------------------HHhh---cCCceEEEEcccccchhc
Q 047388          188 PG-AVLDNIIYARA----YTYEHQYNLLLGLA-----------------------AKMS---EEPFRLLIVDSVIALFRV  236 (352)
Q Consensus       188 ~~-~~~~~i~~~~~----~~~~~~~~~l~~l~-----------------------~~l~---~~~~~lvvIDsl~~l~~~  236 (352)
                      |. ++.+|+.|.-.    ....+..+...++.                       ..+.   ..+|+++.+|+..+.+. 
T Consensus        90 PHltV~~NVafGLk~~~~~~~~~i~~rv~e~L~lV~L~~~~~R~p~qLSGGQqQRVALARAL~~~P~vLLLDEPlSaLD-  168 (352)
T COG3842          90 PHMTVEENVAFGLKVRKKLKKAEIKARVEEALELVGLEGFADRKPHQLSGGQQQRVALARALVPEPKVLLLDEPLSALD-  168 (352)
T ss_pred             CCCcHHHHhhhhhhhcCCCCHHHHHHHHHHHHHHcCchhhhhhChhhhChHHHHHHHHHHHhhcCcchhhhcCcccchh-
Confidence            53 66677655321    11111111111110                       0111   13688888886544321 


Q ss_pred             ccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccc
Q 047388          237 DFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQV  275 (352)
Q Consensus       237 ~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~  275 (352)
                             ..-|    .++-..|+++.++.|+|+|+++|-
T Consensus       169 -------~kLR----~~mr~Elk~lq~~~giT~i~VTHD  196 (352)
T COG3842         169 -------AKLR----EQMRKELKELQRELGITFVYVTHD  196 (352)
T ss_pred             -------HHHH----HHHHHHHHHHHHhcCCeEEEEECC
Confidence                   1223    266678899999999999999993

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

Probab=98.92  E-value=9.6e-09  Score=91.76  Aligned_cols=138  Identities=18%  Similarity=0.263  Sum_probs=87.1

Q ss_pred             hhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC------CChhhHHHHHHHcCC
Q 047388          113 QALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT------FRPDRIVPIAERFGM  186 (352)
Q Consensus       113 ~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~------~~~~rl~~~~~~~~~  186 (352)
                      ..+|.+- =-+.+|++..|+|+|||||||++..++.- ..|      ..+.+||+...-      -..+++.++++..|+
T Consensus        27 ~avd~Vs-f~i~~ge~~glVGESG~GKSTlgr~i~~L-~~p------t~G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl   98 (268)
T COG4608          27 KAVDGVS-FSIKEGETLGLVGESGCGKSTLGRLILGL-EEP------TSGEILFEGKDITKLSKEERRERVLELLEKVGL   98 (268)
T ss_pred             EEeccee-EEEcCCCEEEEEecCCCCHHHHHHHHHcC-cCC------CCceEEEcCcchhhcchhHHHHHHHHHHHHhCC
Confidence            3445432 25889999999999999999999966532 222      334556665431      113457777788886


Q ss_pred             CcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhC
Q 047388          187 DPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFN  266 (352)
Q Consensus       187 ~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~  266 (352)
                      ..+. +.+  +...++. .+.+.+.-.+ .+ ..+|+++|.|.+.+.+..        +-+    +++++.|+.+.+++|
T Consensus        99 ~~~~-~~r--yPhelSG-GQrQRi~IAR-AL-al~P~liV~DEpvSaLDv--------Siq----aqIlnLL~dlq~~~~  160 (268)
T COG4608          99 PEEF-LYR--YPHELSG-GQRQRIGIAR-AL-ALNPKLIVADEPVSALDV--------SVQ----AQILNLLKDLQEELG  160 (268)
T ss_pred             CHHH-hhc--CCcccCc-hhhhhHHHHH-HH-hhCCcEEEecCchhhcch--------hHH----HHHHHHHHHHHHHhC
Confidence            5421 111  1111222 2333333222 22 247999999998887532        222    489999999999999


Q ss_pred             cEEEEEcccc
Q 047388          267 VAVYMTNQVI  276 (352)
Q Consensus       267 ~~viv~~h~~  276 (352)
                      ++.++++|-.
T Consensus       161 lt~lFIsHDL  170 (268)
T COG4608         161 LTYLFISHDL  170 (268)
T ss_pred             CeEEEEEEEH
Confidence            9999999954

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=98.90  E-value=3.1e-09  Score=94.80  Aligned_cols=59  Identities=15%  Similarity=0.194  Sum_probs=42.3

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +++++++|+...-...        ..+    ..+.+.|+++.++ |++|++++|--..                  ....
T Consensus       157 ~p~lllLDEP~~gvD~--------~~~----~~i~~lL~~l~~e-g~tIl~vtHDL~~------------------v~~~  205 (254)
T COG1121         157 NPDLLLLDEPFTGVDV--------AGQ----KEIYDLLKELRQE-GKTVLMVTHDLGL------------------VMAY  205 (254)
T ss_pred             CCCEEEecCCcccCCH--------HHH----HHHHHHHHHHHHC-CCEEEEEeCCcHH------------------hHhh
Confidence            7999999987665321        111    3788889999888 9999999994431                  3445


Q ss_pred             cceEEEEEee
Q 047388          301 VTIRLMFRKG  310 (352)
Q Consensus       301 ~~~~i~L~~~  310 (352)
                      +|.++.|.+.
T Consensus       206 ~D~vi~Ln~~  215 (254)
T COG1121         206 FDRVICLNRH  215 (254)
T ss_pred             CCEEEEEcCe
Confidence            6777777763

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.88  E-value=6.1e-09  Score=89.39  Aligned_cols=141  Identities=15%  Similarity=0.221  Sum_probs=77.5

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChh-hHHHHHHHcCC-------Cccccc
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPD-RIVPIAERFGM-------DPGAVL  192 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~-rl~~~~~~~~~-------~~~~~~  192 (352)
                      ..|+++.++.|.||||||||||+..+  |.......+-.-.+-++++.++-+++. .+..+.++.|+       .|.++.
T Consensus        28 l~i~~~~VTAlIGPSGcGKST~LR~l--NRmndl~~~~r~~G~v~~~g~ni~~~~~d~~~lRr~vGMVFQkPnPFp~SIy  105 (253)
T COG1117          28 LDIPKNKVTALIGPSGCGKSTLLRCL--NRMNDLIPGARVEGEVLLDGKNIYDPKVDVVELRRRVGMVFQKPNPFPMSIY  105 (253)
T ss_pred             eeccCCceEEEECCCCcCHHHHHHHH--HhhcccCcCceEEEEEEECCeeccCCCCCHHHHHHHheeeccCCCCCCchHH
Confidence            57999999999999999999999954  443322212122234455555544431 12333334443       345677


Q ss_pred             ccEEEEec-CCH--HHHHHHHH----------HHHHHh--------------------hcCCceEEEEcccccchhcccC
Q 047388          193 DNIIYARA-YTY--EHQYNLLL----------GLAAKM--------------------SEEPFRLLIVDSVIALFRVDFT  239 (352)
Q Consensus       193 ~~i~~~~~-~~~--~~~~~~l~----------~l~~~l--------------------~~~~~~lvvIDsl~~l~~~~~~  239 (352)
                      +|+.+... ...  ..+.++++          ++...+                    -..+|+++..|+.++.+.+-  
T Consensus       106 dNVayG~r~~g~~~~~ldeiVe~sLk~AaLWdEVKDrL~~sa~~LSGGQQQRLcIARalAv~PeVlLmDEPtSALDPI--  183 (253)
T COG1117         106 DNVAYGLRLHGIKDKELDEIVESSLKKAALWDEVKDRLHKSALGLSGGQQQRLCIARALAVKPEVLLMDEPTSALDPI--  183 (253)
T ss_pred             HHHHHhHHhhccchHHHHHHHHHHHHHhHhHHHhHHHhhCCccCCChhHHHHHHHHHHHhcCCcEEEecCcccccCch--
Confidence            77665421 110  11111111          111111                    01379999999998876432  


Q ss_pred             CCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          240 GRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       240 ~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                           +-  ..+.+++..|+     .+.|||+++|-..
T Consensus       184 -----sT--~kIEeLi~eLk-----~~yTIviVTHnmq  209 (253)
T COG1117         184 -----ST--LKIEELITELK-----KKYTIVIVTHNMQ  209 (253)
T ss_pred             -----hH--HHHHHHHHHHH-----hccEEEEEeCCHH
Confidence                 21  23445555554     3569999988654

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.87  E-value=2.1e-08  Score=87.45  Aligned_cols=149  Identities=17%  Similarity=0.282  Sum_probs=91.1

Q ss_pred             cccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC--CChhhHHHHHHHcC
Q 047388          108 ITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT--FRPDRIVPIAERFG  185 (352)
Q Consensus       108 i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~--~~~~rl~~~~~~~~  185 (352)
                      +|-|-..|+.+= =-|++|+++.|.|+||+|||||+..+..  +.++     ..+.+++..++.  .....++++..+.|
T Consensus        13 yp~~~~aL~~Vn-l~I~~GE~VaiIG~SGaGKSTLLR~lng--l~d~-----t~G~i~~~g~~i~~~~~k~lr~~r~~iG   84 (258)
T COG3638          13 YPGGHQALKDVN-LEINQGEMVAIIGPSGAGKSTLLRSLNG--LVDP-----TSGEILFNGVQITKLKGKELRKLRRDIG   84 (258)
T ss_pred             cCCCceeeeeEe-EEeCCCcEEEEECCCCCcHHHHHHHHhc--ccCC-----CcceEEecccchhccchHHHHHHHHhce
Confidence            334555555532 3689999999999999999999996654  4443     233566666432  23344666666666


Q ss_pred             CCcc--------cccccEEEEec------------CCHHHHHHHHHHHH--------------------------HHhhc
Q 047388          186 MDPG--------AVLDNIIYARA------------YTYEHQYNLLLGLA--------------------------AKMSE  219 (352)
Q Consensus       186 ~~~~--------~~~~~i~~~~~------------~~~~~~~~~l~~l~--------------------------~~l~~  219 (352)
                      +-.+        .+++|+...+.            ++.++....+..+.                          +.+. 
T Consensus        85 mIfQ~~nLv~r~sv~~NVl~grl~~~s~~~slfglfsk~dk~~Al~aLervgi~~~A~qra~~LSGGQQQRVaIARaL~-  163 (258)
T COG3638          85 MIFQQFNLVPRLSVLENVLLGRLGYTSTWRSLFGLFSKEDKAQALDALERVGILDKAYQRASTLSGGQQQRVAIARALV-  163 (258)
T ss_pred             eEeccCCcccccHHHHHHHhhhcccchHHHHHhCCCCHHHHHHHHHHHHHcCcHHHHHHHhccCCcchhHHHHHHHHHh-
Confidence            5332        45555544332            12222221221111                          1111 


Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      .+++++.-|+..+-+.+.       .     ...++..|++++++.|+|||+.-|...
T Consensus       164 Q~pkiILADEPvasLDp~-------~-----a~~Vm~~l~~in~~~g~Tvi~nLH~vd  209 (258)
T COG3638         164 QQPKIILADEPVASLDPE-------S-----AKKVMDILKDINQEDGITVIVNLHQVD  209 (258)
T ss_pred             cCCCEEecCCcccccChh-------h-----HHHHHHHHHHHHHHcCCEEEEEechHH
Confidence            268999999876654332       1     238899999999999999999988543

>PRK04296 thymidine kinase; Provisional

Probab=98.86  E-value=7.5e-08  Score=83.53  Aligned_cols=139  Identities=14%  Similarity=0.145  Sum_probs=85.0

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeC--CCCCChhhHHHHHHHcCCCcccccccEEEEecCCH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDT--EGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTY  203 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~--e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~  203 (352)
                      |.+++++|++|+||||+++.++.....      .+.+|+++..  +....   ...++.++|+....    +.+   ...
T Consensus         2 g~i~litG~~GsGKTT~~l~~~~~~~~------~g~~v~i~k~~~d~~~~---~~~i~~~lg~~~~~----~~~---~~~   65 (190)
T PRK04296          2 AKLEFIYGAMNSGKSTELLQRAYNYEE------RGMKVLVFKPAIDDRYG---EGKVVSRIGLSREA----IPV---SSD   65 (190)
T ss_pred             cEEEEEECCCCCHHHHHHHHHHHHHHH------cCCeEEEEecccccccc---CCcEecCCCCcccc----eEe---CCh
Confidence            789999999999999999999887765      5778888854  22111   22345555543311    111   122


Q ss_pred             HHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCc
Q 047388          204 EHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGV  283 (352)
Q Consensus       204 ~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~  283 (352)
                      .+.   +..+..  ...++++||||+++.+-           ..     ++.. |.+.++..|++||++...... .+..
T Consensus        66 ~~~---~~~~~~--~~~~~dvviIDEaq~l~-----------~~-----~v~~-l~~~l~~~g~~vi~tgl~~~~-~~~~  122 (190)
T PRK04296         66 TDI---FELIEE--EGEKIDCVLIDEAQFLD-----------KE-----QVVQ-LAEVLDDLGIPVICYGLDTDF-RGEP  122 (190)
T ss_pred             HHH---HHHHHh--hCCCCCEEEEEccccCC-----------HH-----HHHH-HHHHHHHcCCeEEEEecCccc-ccCc
Confidence            222   222222  34578999999996541           11     2222 344446789999998776542 2222


Q ss_pred             ccCCCCCCCcchhhhhccceEEEEEee
Q 047388          284 FISDPKKPAGGHVLAHAVTIRLMFRKG  310 (352)
Q Consensus       284 ~~~~~~~~~gg~~~~~~~~~~i~L~~~  310 (352)
                      |       .....+...+|.+..|+..
T Consensus       123 f-------~~~~~L~~~aD~V~~l~~v  142 (190)
T PRK04296        123 F-------EGSPYLLALADKVTELKAI  142 (190)
T ss_pred             C-------chHHHHHHhcCeEEEeeEE
Confidence            2       1234677889999999864

>COG1122 CbiO ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.84  E-value=9.2e-09  Score=91.72  Aligned_cols=153  Identities=18%  Similarity=0.201  Sum_probs=89.6

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcc---------cc
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPG---------AV  191 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~---------~~  191 (352)
                      -.+++|+.+.|.|++|||||||+..+  +.+.++    ..+.+ +++.........+.++.++.|+-.+         .+
T Consensus        25 ~~i~~Ge~~~i~G~nGsGKSTL~~~l--~GLl~p----~~G~v-~~~g~~~~~~~~~~~~~~~vG~VfQnpd~q~~~~tV   97 (235)
T COG1122          25 LEIEKGERVLLIGPNGSGKSTLLKLL--NGLLKP----TSGEV-LVDGLDTSSEKSLLELRQKVGLVFQNPDDQLFGPTV   97 (235)
T ss_pred             EEECCCCEEEEECCCCCCHHHHHHHH--cCcCcC----CCCEE-EECCeeccchhhHHHhhcceEEEEECcccccccCcH
Confidence            47899999999999999999999955  444432    23344 6666543222334555555554221         12


Q ss_pred             cccEEEEec---CCHHHHHHHHHHHHH--------------------------HhhcCCceEEEEcccccchhcccCCCc
Q 047388          192 LDNIIYARA---YTYEHQYNLLLGLAA--------------------------KMSEEPFRLLIVDSVIALFRVDFTGRG  242 (352)
Q Consensus       192 ~~~i~~~~~---~~~~~~~~~l~~l~~--------------------------~l~~~~~~lvvIDsl~~l~~~~~~~~g  242 (352)
                      .+.+.+...   ...++....+.....                          -+-..+|+++|+|+.++...+      
T Consensus        98 ~~evafg~~n~g~~~~e~~~rv~~~l~~vgl~~~~~r~p~~LSGGqkqRvaIA~vLa~~P~iliLDEPta~LD~------  171 (235)
T COG1122          98 EDEVAFGLENLGLPREEIEERVAEALELVGLEELLDRPPFNLSGGQKQRVAIAGVLAMGPEILLLDEPTAGLDP------  171 (235)
T ss_pred             HHHHhhchhhcCCCHHHHHHHHHHHHHHcCchhhccCCccccCCcceeeHHhhHHHHcCCCEEEEcCCCCCCCH------
Confidence            222222111   111111111111110                          001137999999999888542      


Q ss_pred             chHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEee
Q 047388          243 ELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKG  310 (352)
Q Consensus       243 ~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~  310 (352)
                        ..+    .++++.|+++.++.+.|+|+++|-...                  +...+|.++.|+.+
T Consensus       172 --~~~----~~l~~~l~~L~~~~~~tii~~tHd~~~------------------~~~~ad~v~vl~~G  215 (235)
T COG1122         172 --KGR----RELLELLKKLKEEGGKTIIIVTHDLEL------------------VLEYADRVVVLDDG  215 (235)
T ss_pred             --HHH----HHHHHHHHHHHhcCCCeEEEEeCcHHH------------------HHhhCCEEEEEECC
Confidence              111    378888999999889999999996642                  34456777777653

>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=98.80  E-value=1.8e-08  Score=86.04  Aligned_cols=126  Identities=18%  Similarity=0.209  Sum_probs=69.7

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcc-------ccccc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPG-------AVLDN  194 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~-------~~~~~  194 (352)
                      -+++|+++.|.|++|+|||||+..++... .|     ..+. ++++.+.... .....+.+..++-++       .+.+|
T Consensus        24 ~i~~Ge~~~i~G~nGsGKStLl~~l~G~~-~~-----~~G~-i~~~g~~~~~-~~~~~~~~~i~~~~q~~~~~~~tv~~~   95 (173)
T cd03246          24 SIEPGESLAIIGPSGSGKSTLARLILGLL-RP-----TSGR-VRLDGADISQ-WDPNELGDHVGYLPQDDELFSGSIAEN   95 (173)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHHhcc-CC-----CCCe-EEECCEEccc-CCHHHHHhheEEECCCCccccCcHHHH
Confidence            46799999999999999999999776532 22     2333 4555442111 111122223333221       11122


Q ss_pred             EEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcc
Q 047388          195 IIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQ  274 (352)
Q Consensus       195 i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h  274 (352)
                      +     .+..+ .+.+. +.+.+. .+++++++|+.++.+..        ..+    ..+.+.|+++++ .+.+||+++|
T Consensus        96 l-----LS~G~-~qrv~-la~al~-~~p~~lllDEPt~~LD~--------~~~----~~l~~~l~~~~~-~~~tii~~sh  154 (173)
T cd03246          96 I-----LSGGQ-RQRLG-LARALY-GNPRILVLDEPNSHLDV--------EGE----RALNQAIAALKA-AGATRIVIAH  154 (173)
T ss_pred             C-----cCHHH-HHHHH-HHHHHh-cCCCEEEEECCccccCH--------HHH----HHHHHHHHHHHh-CCCEEEEEeC
Confidence            1     11111 11111 112221 37899999998876532        222    266677777765 4899999988


Q ss_pred             cc
Q 047388          275 VI  276 (352)
Q Consensus       275 ~~  276 (352)
                      -.
T Consensus       155 ~~  156 (173)
T cd03246         155 RP  156 (173)
T ss_pred             CH
Confidence            54

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

>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]

Probab=98.80  E-value=2.6e-08  Score=83.48  Aligned_cols=136  Identities=18%  Similarity=0.216  Sum_probs=74.8

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCC---Ch-hhHHHHHHHcCCCc-ccccccEE
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTF---RP-DRIVPIAERFGMDP-GAVLDNII  196 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~---~~-~rl~~~~~~~~~~~-~~~~~~i~  196 (352)
                      -++.|+++.|.||||+|||||+.-+|.. ..|      ..+.++|..++.-   +. .-+..+++..++.. -++.+|+-
T Consensus        21 ~v~~ge~vAi~GpSGaGKSTLLnLIAGF-~~P------~~G~i~i~g~d~t~~~P~~RPVSmlFQEnNLFaHLtV~qNig   93 (231)
T COG3840          21 TVPAGEIVAILGPSGAGKSTLLNLIAGF-ETP------ASGEILINGVDHTASPPAERPVSMLFQENNLFAHLTVAQNIG   93 (231)
T ss_pred             eecCCcEEEEECCCCccHHHHHHHHHhc-cCC------CCceEEEcCeecCcCCcccCChhhhhhccccchhhhhhhhhc
Confidence            5789999999999999999999866544 333      3455666655321   11 12334444433322 12333433


Q ss_pred             EEecC----CHHHHH---H---------HHHH--------------HHHHhhcCCceEEEEcccccchhcccCCCcchHH
Q 047388          197 YARAY----TYEHQY---N---------LLLG--------------LAAKMSEEPFRLLIVDSVIALFRVDFTGRGELAD  246 (352)
Q Consensus       197 ~~~~~----~~~~~~---~---------~l~~--------------l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~  246 (352)
                      .....    +..+..   .         .+++              +.+.+.+.+ .++.+|+.-+.+.+        .-
T Consensus        94 LGl~P~LkL~a~~r~~v~~aa~~vGl~~~~~RLP~~LSGGqRQRvALARclvR~~-PilLLDEPFsALdP--------~L  164 (231)
T COG3840          94 LGLSPGLKLNAEQREKVEAAAAQVGLAGFLKRLPGELSGGQRQRVALARCLVREQ-PILLLDEPFSALDP--------AL  164 (231)
T ss_pred             ccCCcccccCHHHHHHHHHHHHHhChhhHhhhCccccCchHHHHHHHHHHHhccC-CeEEecCchhhcCH--------HH
Confidence            32111    111100   0         0111              111222223 35667765443322        33


Q ss_pred             HHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          247 RQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       247 r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      |+    +++..+..+|.|.+.|+++++|-..
T Consensus       165 R~----eMl~Lv~~l~~E~~~TllmVTH~~~  191 (231)
T COG3840         165 RA----EMLALVSQLCDERKMTLLMVTHHPE  191 (231)
T ss_pred             HH----HHHHHHHHHHHhhCCEEEEEeCCHH
Confidence            43    7888899999999999999998664

>PF13479 AAA_24: AAA domain

Probab=98.80  E-value=1.2e-07  Score=83.67  Aligned_cols=162  Identities=20%  Similarity=0.195  Sum_probs=94.1

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCCHHH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEH  205 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~~  205 (352)
                      +-.+.|+|+||+|||+|+..+              .+++||++|.....  +...            .+...+++.+..+
T Consensus         3 ~~~~lIyG~~G~GKTt~a~~~--------------~k~l~id~E~g~~~--~~~~------------~~~~~i~i~s~~~   54 (213)
T PF13479_consen    3 PIKILIYGPPGSGKTTLAASL--------------PKPLFIDTENGSDS--LKFL------------DDGDVIPITSWED   54 (213)
T ss_pred             ceEEEEECCCCCCHHHHHHhC--------------CCeEEEEeCCCccc--hhhh------------cCCCeeCcCCHHH
Confidence            346899999999999999854              36899999987221  1111            1122233446666


Q ss_pred             HHHHHHHHHHHhhcCCceEEEEcccccchhc---ccC----------CC----cchHHHHHHHHHHHHHHHHHHHHhCcE
Q 047388          206 QYNLLLGLAAKMSEEPFRLLIVDSVIALFRV---DFT----------GR----GELADRQQKLGQMLSRLTKISEEFNVA  268 (352)
Q Consensus       206 ~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~---~~~----------~~----g~~~~r~~~l~~i~~~L~~la~~~~~~  268 (352)
                      +.+.+..+...  ..+.+.|||||++.+...   ...          +.    ...+.-+   ..+.+.+..+.+..+..
T Consensus        55 ~~~~~~~l~~~--~~~y~tiVIDsis~~~~~~~~~~~~~~~~~~~~~~~~~~~~~yg~~~---~~~~~~i~~l~~~~~~~  129 (213)
T PF13479_consen   55 FLEALDELEED--EADYDTIVIDSISWLEDMCLEYICRQNKKKIKRSGDPDYGKGYGELQ---QEFMRFIDKLLNALGKN  129 (213)
T ss_pred             HHHHHHHHHhc--cCCCCEEEEECHHHHHHHHHHHHhhhhcccccccCCCcccchHHHHH---HHHHHHHHHHHHHCCCc
Confidence            66666554433  358999999999987431   111          00    1122222   34444445555668999


Q ss_pred             EEEEcccccCCC--CCccc--CCCCCCCcchhhhhccceEEEEEee---c-CCeEEEEEE
Q 047388          269 VYMTNQVIADPG--GGVFI--SDPKKPAGGHVLAHAVTIRLMFRKG---K-GEQRVCKVF  320 (352)
Q Consensus       269 viv~~h~~~~~~--~~~~~--~~~~~~~gg~~~~~~~~~~i~L~~~---~-~~~R~~~i~  320 (352)
                      ||+|.|.....+  +..+.  .....+.....+...+|.+..+...   . ...|++...
T Consensus       130 VI~tah~~~~~~~~~~~~~~~~~~l~~k~~~~l~~~~D~V~~l~~~~~~~~~~~R~~~~~  189 (213)
T PF13479_consen  130 VIFTAHAKEEEDEDGGKYTRYKPKLGKKVRNELPGWFDVVGRLRVETVDDETGKRVIYFQ  189 (213)
T ss_pred             EEEEEEEEEEEcCCCCceeEEeeccChhHHhhhhecccEEEEEEEEEecCCCCceEEEEC
Confidence            999999876544  11110  0001123345677888888777632   1 234666543

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=98.80  E-value=6e-08  Score=81.99  Aligned_cols=122  Identities=17%  Similarity=0.255  Sum_probs=69.7

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAY  201 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~  201 (352)
                      -+++|+++.|.|++|+|||||+..++..  .++    ..+. ++++.... ..........          .++.+....
T Consensus        22 ~i~~Ge~~~l~G~nGsGKSTLl~~i~G~--~~~----~~G~-v~~~g~~~-~~~~~~~~~~----------~~i~~~~qL   83 (163)
T cd03216          22 SVRRGEVHALLGENGAGKSTLMKILSGL--YKP----DSGE-ILVDGKEV-SFASPRDARR----------AGIAMVYQL   83 (163)
T ss_pred             EEeCCCEEEEECCCCCCHHHHHHHHhCC--CCC----CCeE-EEECCEEC-CcCCHHHHHh----------cCeEEEEec
Confidence            4789999999999999999999966543  222    2333 55555422 1100111110          122232223


Q ss_pred             CHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          202 TYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       202 ~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +..+... +. +.+.+. .+++++++|+.+.-+..        ..+    ..+...|++++++ +.++|+++|-..
T Consensus        84 S~G~~qr-l~-laral~-~~p~illlDEP~~~LD~--------~~~----~~l~~~l~~~~~~-~~tiii~sh~~~  143 (163)
T cd03216          84 SVGERQM-VE-IARALA-RNARLLILDEPTAALTP--------AEV----ERLFKVIRRLRAQ-GVAVIFISHRLD  143 (163)
T ss_pred             CHHHHHH-HH-HHHHHh-cCCCEEEEECCCcCCCH--------HHH----HHHHHHHHHHHHC-CCEEEEEeCCHH
Confidence            3333222 22 222222 37899999998776431        222    2666777777644 889999988654

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.

>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=98.80  E-value=7.3e-08  Score=82.36  Aligned_cols=128  Identities=16%  Similarity=0.155  Sum_probs=68.7

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCC-ccCCC-----CCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccE
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPT-NMRGG-----NGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNI  195 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~-~~gg~-----~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i  195 (352)
                      =+++|+++.|.||||||||||+..++..  ... ...+.     ..++.|+..         .+.++++++..... +. 
T Consensus        17 ~i~~G~~~~l~G~nG~GKSTLl~~il~~--~G~v~~~~~~~~~~~~~~~~~~q---------~~~l~~~~L~~~~~-~~-   83 (176)
T cd03238          17 SIPLNVLVVVTGVSGSGKSTLVNEGLYA--SGKARLISFLPKFSRNKLIFIDQ---------LQFLIDVGLGYLTL-GQ-   83 (176)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhhc--CCcEEECCcccccccccEEEEhH---------HHHHHHcCCCcccc-CC-
Confidence            4789999999999999999999865310  000 00000     012333211         23556666543111 11 


Q ss_pred             EEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccc
Q 047388          196 IYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQV  275 (352)
Q Consensus       196 ~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~  275 (352)
                       .....+..+ ...+.-....+...+++++++|+.++-+..        ..+    ..+.+.|+++++ .+.+||+++|-
T Consensus        84 -~~~~LSgGq-~qrl~laral~~~~~p~llLlDEPt~~LD~--------~~~----~~l~~~l~~~~~-~g~tvIivSH~  148 (176)
T cd03238          84 -KLSTLSGGE-LQRVKLASELFSEPPGTLFILDEPSTGLHQ--------QDI----NQLLEVIKGLID-LGNTVILIEHN  148 (176)
T ss_pred             -CcCcCCHHH-HHHHHHHHHHhhCCCCCEEEEeCCcccCCH--------HHH----HHHHHHHHHHHh-CCCEEEEEeCC
Confidence             011222222 222222222332223899999998876532        222    256666777754 68999999996


Q ss_pred             cc
Q 047388          276 IA  277 (352)
Q Consensus       276 ~~  277 (352)
                      ..
T Consensus       149 ~~  150 (176)
T cd03238         149 LD  150 (176)
T ss_pred             HH
Confidence            53

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.

>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D

Probab=98.79  E-value=2.5e-08  Score=89.24  Aligned_cols=60  Identities=22%  Similarity=0.307  Sum_probs=43.4

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +++++++|+.++-+..        ..+    ..+.+.|++++++.+.+||+++|-..                  .+...
T Consensus       132 ~p~lllLDEPt~gLD~--------~~~----~~l~~~l~~~~~~~~~tii~~sH~~~------------------~~~~~  181 (230)
T TIGR01184       132 RPKVLLLDEPFGALDA--------LTR----GNLQEELMQIWEEHRVTVLMVTHDVD------------------EALLL  181 (230)
T ss_pred             CCCEEEEcCCCcCCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEeCCHH------------------HHHHh
Confidence            7899999998876532        222    37777788888878999999999653                  13556


Q ss_pred             cceEEEEEee
Q 047388          301 VTIRLMFRKG  310 (352)
Q Consensus       301 ~~~~i~L~~~  310 (352)
                      +|.++.+..+
T Consensus       182 ~d~v~~l~~G  191 (230)
T TIGR01184       182 SDRVVMLTNG  191 (230)
T ss_pred             cCEEEEEeCC
Confidence            7777777653

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.

>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=98.77  E-value=5.5e-08  Score=83.45  Aligned_cols=132  Identities=21%  Similarity=0.308  Sum_probs=72.5

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChh-hHHHHHHHcCCCcc--------ccc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPD-RIVPIAERFGMDPG--------AVL  192 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~-rl~~~~~~~~~~~~--------~~~  192 (352)
                      -+++|+++.|.|++|+|||||+..++..  .++    ..+ -++++........ ......+..++-++        .+.
T Consensus        22 ~i~~G~~~~i~G~nGsGKSTLl~~l~G~--~~~----~~G-~i~~~g~~~~~~~~~~~~~~~~i~~~~q~~~~~~~~t~~   94 (178)
T cd03229          22 NIEAGEIVALLGPSGSGKSTLLRCIAGL--EEP----DSG-SILIDGEDLTDLEDELPPLRRRIGMVFQDFALFPHLTVL   94 (178)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCC--CCC----Cce-EEEECCEEccccchhHHHHhhcEEEEecCCccCCCCCHH
Confidence            4789999999999999999999977643  221    233 3455443211100 01112222222111        222


Q ss_pred             ccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEE
Q 047388          193 DNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMT  272 (352)
Q Consensus       193 ~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~  272 (352)
                      +++.+.  .+..+ .+.+. +...+. .+++++++|+.++-+..        ..+    ..+...|++++++++.++|++
T Consensus        95 ~~l~~~--lS~G~-~qr~~-la~al~-~~p~llilDEP~~~LD~--------~~~----~~l~~~l~~~~~~~~~tiii~  157 (178)
T cd03229          95 ENIALG--LSGGQ-QQRVA-LARALA-MDPDVLLLDEPTSALDP--------ITR----REVRALLKSLQAQLGITVVLV  157 (178)
T ss_pred             Hheeec--CCHHH-HHHHH-HHHHHH-CCCCEEEEeCCcccCCH--------HHH----HHHHHHHHHHHHhcCCEEEEE
Confidence            333221  22222 11111 122222 37899999998876432        222    267777888877768999999


Q ss_pred             ccccc
Q 047388          273 NQVIA  277 (352)
Q Consensus       273 ~h~~~  277 (352)
                      +|-..
T Consensus       158 sH~~~  162 (178)
T cd03229         158 THDLD  162 (178)
T ss_pred             eCCHH
Confidence            99654

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.

>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=98.76  E-value=7e-08  Score=82.39  Aligned_cols=127  Identities=20%  Similarity=0.264  Sum_probs=70.5

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcc--------cccc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPG--------AVLD  193 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~--------~~~~  193 (352)
                      -+++|+++.|.|++|+|||||+..++..  .++    ..+ .++++.+......  ..+.+..++-++        .+.+
T Consensus        22 ~i~~Ge~~~i~G~nGsGKStLl~~l~G~--~~~----~~G-~i~~~g~~~~~~~--~~~~~~i~~~~q~~~~~~~~tv~~   92 (173)
T cd03230          22 TVEKGEIYGLLGPNGAGKTTLIKIILGL--LKP----DSG-EIKVLGKDIKKEP--EEVKRRIGYLPEEPSLYENLTVRE   92 (173)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCC--CCC----CCe-EEEECCEEcccch--HhhhccEEEEecCCccccCCcHHH
Confidence            4789999999999999999999966543  222    233 3455543221110  112222332221        1111


Q ss_pred             cEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEc
Q 047388          194 NIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTN  273 (352)
Q Consensus       194 ~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~  273 (352)
                      |+.    .+..+ .+.+. +.+.+. .+++++++|+.++.+..        ..+    ..+.+.|++++++ +.++|+++
T Consensus        93 ~~~----LS~G~-~qrv~-laral~-~~p~illlDEPt~~LD~--------~~~----~~l~~~l~~~~~~-g~tiii~t  152 (173)
T cd03230          93 NLK----LSGGM-KQRLA-LAQALL-HDPELLILDEPTSGLDP--------ESR----REFWELLRELKKE-GKTILLSS  152 (173)
T ss_pred             Hhh----cCHHH-HHHHH-HHHHHH-cCCCEEEEeCCccCCCH--------HHH----HHHHHHHHHHHHC-CCEEEEEC
Confidence            111    11111 11111 122222 37899999998877532        222    3677778888776 88999998


Q ss_pred             cccc
Q 047388          274 QVIA  277 (352)
Q Consensus       274 h~~~  277 (352)
                      |-..
T Consensus       153 h~~~  156 (173)
T cd03230         153 HILE  156 (173)
T ss_pred             CCHH
Confidence            8543

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.

>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=98.76  E-value=1.8e-07  Score=83.79  Aligned_cols=59  Identities=14%  Similarity=0.259  Sum_probs=42.2

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +++++++|+.++-+..        ..+    ..+.+.|+.++++.+.+||+++|-..                  .+..+
T Consensus       158 ~p~lllLDEP~~~LD~--------~~~----~~l~~~l~~~~~~~~~tvii~sH~~~------------------~~~~~  207 (233)
T cd03258         158 NPKVLLCDEATSALDP--------ETT----QSILALLRDINRELGLTIVLITHEME------------------VVKRI  207 (233)
T ss_pred             CCCEEEecCCCCcCCH--------HHH----HHHHHHHHHHHHHcCCEEEEEeCCHH------------------HHHHh
Confidence            7899999998776431        222    26777788887777899999999653                  13556


Q ss_pred             cceEEEEEe
Q 047388          301 VTIRLMFRK  309 (352)
Q Consensus       301 ~~~~i~L~~  309 (352)
                      +|.++.|+.
T Consensus       208 ~d~i~~l~~  216 (233)
T cd03258         208 CDRVAVMEK  216 (233)
T ss_pred             CCEEEEEEC
Confidence            677777764

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.

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=98.76  E-value=1.9e-07  Score=84.16  Aligned_cols=59  Identities=15%  Similarity=0.165  Sum_probs=41.8

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +++++++|+.++-+..        ..+    ..+.+.|++++++.+.+||+++|-...                  +...
T Consensus       163 ~p~llllDEPt~~LD~--------~~~----~~l~~~l~~~~~~~~~tiii~tH~~~~------------------~~~~  212 (243)
T TIGR02315       163 QPDLILADEPIASLDP--------KTS----KQVMDYLKRINKEDGITVIINLHQVDL------------------AKKY  212 (243)
T ss_pred             CCCEEEEeCCcccCCH--------HHH----HHHHHHHHHHHHHcCCEEEEEeCCHHH------------------HHHh
Confidence            7899999998876432        222    266777888877778999999996541                  3456


Q ss_pred             cceEEEEEe
Q 047388          301 VTIRLMFRK  309 (352)
Q Consensus       301 ~~~~i~L~~  309 (352)
                      +|.++.|..
T Consensus       213 ~d~v~~l~~  221 (243)
T TIGR02315       213 ADRIVGLKA  221 (243)
T ss_pred             cCeEEEEEC
Confidence            677777764

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.

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=98.75  E-value=1.4e-07  Score=79.98  Aligned_cols=88  Identities=24%  Similarity=0.311  Sum_probs=54.6

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHc-CCCcccccccEEEEecCCHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERF-GMDPGAVLDNIIYARAYTYEHQ  206 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~-~~~~~~~~~~i~~~~~~~~~~~  206 (352)
                      ++.|.|++|||||+|+.+++..         .+.+++|+++...++.+ ++++.++. ...+    ..+...     +..
T Consensus         1 ~~li~G~~~sGKS~~a~~~~~~---------~~~~~~y~at~~~~d~e-m~~rI~~H~~~R~----~~w~t~-----E~~   61 (169)
T cd00544           1 IILVTGGARSGKSRFAERLAAE---------LGGPVTYIATAEAFDDE-MAERIARHRKRRP----AHWRTI-----ETP   61 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHHHh---------cCCCeEEEEccCcCCHH-HHHHHHHHHHhCC----CCceEe-----ecH
Confidence            5789999999999999999864         34689999999887754 33322221 1112    112221     111


Q ss_pred             HHHHHHHHHHhhcC-CceEEEEcccccchhccc
Q 047388          207 YNLLLGLAAKMSEE-PFRLLIVDSVIALFRVDF  238 (352)
Q Consensus       207 ~~~l~~l~~~l~~~-~~~lvvIDsl~~l~~~~~  238 (352)
                      .+    +.+.+... +.+.|+||+++.+....+
T Consensus        62 ~~----l~~~l~~~~~~~~VLIDclt~~~~n~l   90 (169)
T cd00544          62 RD----LVSALKELDPGDVVLIDCLTLWVTNLL   90 (169)
T ss_pred             HH----HHHHHHhcCCCCEEEEEcHhHHHHHhC
Confidence            12    22222222 567999999999887654

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.

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=98.75  E-value=1.8e-07  Score=84.13  Aligned_cols=59  Identities=15%  Similarity=0.228  Sum_probs=42.6

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +++++++|+.++-+..        ..+    ..+.+.|++++++.+.+||+++|-..                  .+...
T Consensus       162 ~p~llllDEPt~~LD~--------~~~----~~l~~~l~~~~~~~~~tii~~tH~~~------------------~~~~~  211 (241)
T cd03256         162 QPKLILADEPVASLDP--------ASS----RQVMDLLKRINREEGITVIVSLHQVD------------------LAREY  211 (241)
T ss_pred             CCCEEEEeCccccCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEeCCHH------------------HHHHh
Confidence            7899999998876532        222    36777788888777999999999653                  13456


Q ss_pred             cceEEEEEe
Q 047388          301 VTIRLMFRK  309 (352)
Q Consensus       301 ~~~~i~L~~  309 (352)
                      +|.++.|..
T Consensus       212 ~d~v~~l~~  220 (241)
T cd03256         212 ADRIVGLKD  220 (241)
T ss_pred             CCEEEEEEC
Confidence            787778764

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.

>TIGR02314 ABC_MetN D-methionine ABC transporter, ATP-binding protein

Probab=98.75  E-value=1.5e-07  Score=89.03  Aligned_cols=136  Identities=15%  Similarity=0.232  Sum_probs=76.3

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC--CChhhHHHHHHHcCCCcc--------cc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT--FRPDRIVPIAERFGMDPG--------AV  191 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~--~~~~rl~~~~~~~~~~~~--------~~  191 (352)
                      -+++|+++.|.|+||+|||||+..++.  ..++     ..+.++++.+.-  .++..++...++.++-++        .+
T Consensus        27 ~i~~Gei~gIiG~sGaGKSTLlr~I~g--l~~p-----~~G~I~i~G~~i~~~~~~~l~~~r~~Ig~v~Q~~~l~~~~tv   99 (343)
T TIGR02314        27 HVPAGQIYGVIGASGAGKSTLIRCVNL--LERP-----TSGSVIVDGQDLTTLSNSELTKARRQIGMIFQHFNLLSSRTV   99 (343)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhc--CCCC-----CceEEEECCEECCcCCHHHHHHHhcCEEEEECCccccccCcH
Confidence            478999999999999999999996643  3332     233455655432  122223333333333221        23


Q ss_pred             cccEEEEe---cCCHHH----HHHHHHHH-----------------------HHHhhcCCceEEEEcccccchhcccCCC
Q 047388          192 LDNIIYAR---AYTYEH----QYNLLLGL-----------------------AAKMSEEPFRLLIVDSVIALFRVDFTGR  241 (352)
Q Consensus       192 ~~~i~~~~---~~~~~~----~~~~l~~l-----------------------~~~l~~~~~~lvvIDsl~~l~~~~~~~~  241 (352)
                      .+|+.+..   ..+..+    ..++++.+                       .+.+ -.+|+++++|+.++.+.+     
T Consensus       100 ~eni~~~~~~~~~~~~~~~~~v~e~l~~vgL~~~~~~~~~~LSgGqkQRV~IARAL-~~~P~iLLlDEPts~LD~-----  173 (343)
T TIGR02314       100 FGNVALPLELDNTPKDEIKRKVTELLALVGLGDKHDSYPSNLSGGQKQRVAIARAL-ASNPKVLLCDEATSALDP-----  173 (343)
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHHcCCchhhhCChhhCCHHHHHHHHHHHHH-HhCCCEEEEeCCcccCCH-----
Confidence            33332210   011111    11111110                       0111 137899999998876532     


Q ss_pred             cchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          242 GELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       242 g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                         ..+    ..+++.|++++++.++|||+++|-..
T Consensus       174 ---~t~----~~i~~lL~~l~~~~g~tiiliTH~~~  202 (343)
T TIGR02314       174 ---ATT----QSILELLKEINRRLGLTILLITHEMD  202 (343)
T ss_pred             ---HHH----HHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence               122    37888899998888999999999543

Members of this family are the ATP-binding protein of the D-methionine ABC transporter complex. Known members belong to the Proteobacteria.

>COG0410 LivF ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]

Probab=98.75  E-value=8.8e-08  Score=83.42  Aligned_cols=135  Identities=19%  Similarity=0.235  Sum_probs=79.3

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHH-cCCCc--------cccc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAER-FGMDP--------GAVL  192 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~-~~~~~--------~~~~  192 (352)
                      -+++|+++.+.|++|+||||++.+++.....      ..+. +.++.++- ....-.++++. +++-|        .++.
T Consensus        25 ~v~~Geiv~llG~NGaGKTTlLkti~Gl~~~------~~G~-I~~~G~di-t~~p~~~r~r~Gi~~VPegR~iF~~LTVe   96 (237)
T COG0410          25 EVERGEIVALLGRNGAGKTTLLKTIMGLVRP------RSGR-IIFDGEDI-TGLPPHERARLGIAYVPEGRRIFPRLTVE   96 (237)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCC------CCee-EEECCeec-CCCCHHHHHhCCeEeCcccccchhhCcHH
Confidence            4789999999999999999999977643322      3344 44555432 11112223321 22222        1455


Q ss_pred             ccEEEEec--C-------CHHHHHHHHHHHHHHhh--------------------cCCceEEEEcccccchhcccCCCcc
Q 047388          193 DNIIYARA--Y-------TYEHQYNLLLGLAAKMS--------------------EEPFRLLIVDSVIALFRVDFTGRGE  243 (352)
Q Consensus       193 ~~i~~~~~--~-------~~~~~~~~l~~l~~~l~--------------------~~~~~lvvIDsl~~l~~~~~~~~g~  243 (352)
                      +|+.+...  .       +.++..+++-.+.+...                    -.+|+++++|+.+.-..+       
T Consensus        97 ENL~~g~~~~~~~~~~~~~~e~v~~lFP~Lker~~~~aG~LSGGEQQMLAiaRALm~~PklLLLDEPs~GLaP-------  169 (237)
T COG0410          97 ENLLLGAYARRDKEAQERDLEEVYELFPRLKERRNQRAGTLSGGEQQMLAIARALMSRPKLLLLDEPSEGLAP-------  169 (237)
T ss_pred             HHHhhhhhcccccccccccHHHHHHHChhHHHHhcCcccCCChHHHHHHHHHHHHhcCCCEEEecCCccCcCH-------
Confidence            56543211  0       12223332222221110                    137999999998876543       


Q ss_pred             hHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          244 LADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       244 ~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                           ....++.+.++++.++.++||+++-|-.
T Consensus       170 -----~iv~~I~~~i~~l~~~~g~tIlLVEQn~  197 (237)
T COG0410         170 -----KIVEEIFEAIKELRKEGGMTILLVEQNA  197 (237)
T ss_pred             -----HHHHHHHHHHHHHHHcCCcEEEEEeccH
Confidence                 2345889999999988899999998744

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=98.74  E-value=2.3e-08  Score=93.05  Aligned_cols=133  Identities=17%  Similarity=0.239  Sum_probs=77.9

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC--CCh--hhHHHHHHHcCCCcc-cccccEE
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT--FRP--DRIVPIAERFGMDPG-AVLDNII  196 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~--~~~--~rl~~~~~~~~~~~~-~~~~~i~  196 (352)
                      -+..|+++.|.||||||||||+..+|.  +..     ..++-++|+.+.-  ++|  ..+...++.+.+-|. ++.+|+.
T Consensus        25 ~i~~Gef~vllGPSGcGKSTlLr~IAG--Le~-----~~~G~I~i~g~~vt~l~P~~R~iamVFQ~yALyPhmtV~~Nia   97 (338)
T COG3839          25 DIEDGEFVVLLGPSGCGKSTLLRMIAG--LEE-----PTSGEILIDGRDVTDLPPEKRGIAMVFQNYALYPHMTVYENIA   97 (338)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhC--CCC-----CCCceEEECCEECCCCChhHCCEEEEeCCccccCCCcHHHHhh
Confidence            478899999999999999999996653  332     2455677776532  222  223344455554443 5666655


Q ss_pred             EEecC---CHHHHHHHHHHHH---------------------------HHhhcCCceEEEEcccccchhcccCCCcchHH
Q 047388          197 YARAY---TYEHQYNLLLGLA---------------------------AKMSEEPFRLLIVDSVIALFRVDFTGRGELAD  246 (352)
Q Consensus       197 ~~~~~---~~~~~~~~l~~l~---------------------------~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~  246 (352)
                      +.-..   ...+....+.++.                           +.+ -.+|+++.+|+..+.+..        .-
T Consensus        98 f~Lk~~~~~k~ei~~rV~eva~~L~l~~lL~r~P~~LSGGQrQRVAlaRAl-Vr~P~v~L~DEPlSnLDa--------~l  168 (338)
T COG3839          98 FGLKLRGVPKAEIDKRVKEVAKLLGLEHLLNRKPLQLSGGQRQRVALARAL-VRKPKVFLLDEPLSNLDA--------KL  168 (338)
T ss_pred             hhhhhCCCchHHHHHHHHHHHHHcCChhHHhcCcccCChhhHHHHHHHHHH-hcCCCEEEecCchhHhhH--------HH
Confidence            53111   1111111111110                           111 136899999986554321        11


Q ss_pred             HHHHHHHHHHHHHHHHHHhCcEEEEEcc
Q 047388          247 RQQKLGQMLSRLTKISEEFNVAVYMTNQ  274 (352)
Q Consensus       247 r~~~l~~i~~~L~~la~~~~~~viv~~h  274 (352)
                      |    ..+-..|+++.+++++|+|.++|
T Consensus       169 R----~~mr~ei~~lh~~l~~T~IYVTH  192 (338)
T COG3839         169 R----VLMRSEIKKLHERLGTTTIYVTH  192 (338)
T ss_pred             H----HHHHHHHHHHHHhcCCcEEEEcC
Confidence            2    25556788888999999999999

>PRK11153 metN DL-methionine transporter ATP-binding subunit; Provisional

Probab=98.74  E-value=1.3e-07  Score=89.71  Aligned_cols=46  Identities=15%  Similarity=0.301  Sum_probs=34.9

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      .+|+++++|+.++.+..        ..+    ..+.+.|++++++.+++||+++|-..
T Consensus       157 ~~p~iLlLDEPts~LD~--------~~~----~~l~~~L~~l~~~~g~tiilvtH~~~  202 (343)
T PRK11153        157 SNPKVLLCDEATSALDP--------ATT----RSILELLKDINRELGLTIVLITHEMD  202 (343)
T ss_pred             cCCCEEEEeCCcccCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence            37999999998876532        222    37778888888888999999999654

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=98.74  E-value=2.1e-07  Score=82.26  Aligned_cols=27  Identities=19%  Similarity=0.254  Sum_probs=24.4

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|+|||||+..++.
T Consensus        25 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G   51 (216)
T TIGR00960        25 HITKGEMVFLVGHSGAGKSTFLKLILG   51 (216)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            578999999999999999999997664

>PRK13537 nodulation ABC transporter NodI; Provisional

Probab=98.73  E-value=9.7e-08  Score=89.08  Aligned_cols=45  Identities=16%  Similarity=0.213  Sum_probs=33.1

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      ++|+++++|+.++-+.+        ..|    ..+.+.|+++++ .|.+||+++|...
T Consensus       155 ~~P~lllLDEPt~gLD~--------~~~----~~l~~~l~~l~~-~g~till~sH~l~  199 (306)
T PRK13537        155 NDPDVLVLDEPTTGLDP--------QAR----HLMWERLRSLLA-RGKTILLTTHFME  199 (306)
T ss_pred             CCCCEEEEeCCCcCCCH--------HHH----HHHHHHHHHHHh-CCCEEEEECCCHH
Confidence            47999999998876532        222    266677777754 4999999999765

>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=98.73  E-value=2.4e-07  Score=79.56  Aligned_cols=130  Identities=22%  Similarity=0.331  Sum_probs=73.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC--CChhhHH-------HHHHHcCCCccccc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT--FRPDRIV-------PIAERFGMDPGAVL  192 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~--~~~~rl~-------~~~~~~~~~~~~~~  192 (352)
                      -+.+|+++.|.|++|+|||||+..++..  .++    ..+. ++++....  .....++       ++++.+++..  ..
T Consensus        21 ~i~~G~~~~l~G~nGsGKStLl~~i~G~--~~~----~~G~-v~~~g~~~~~~~~~~~~~~i~~~~q~l~~~gl~~--~~   91 (180)
T cd03214          21 SIEAGEIVGILGPNGAGKSTLLKTLAGL--LKP----SSGE-ILLDGKDLASLSPKELARKIAYVPQALELLGLAH--LA   91 (180)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhCC--CCC----CCcE-EEECCEECCcCCHHHHHHHHhHHHHHHHHcCCHh--Hh
Confidence            4789999999999999999999966543  322    2334 45554321  1221111       1234444431  11


Q ss_pred             ccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEE
Q 047388          193 DNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMT  272 (352)
Q Consensus       193 ~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~  272 (352)
                      ..  .....+..+. ..+. +.+.+. .+++++++|+.++-+..        ..+    ..+.+.|++++++++.++|++
T Consensus        92 ~~--~~~~LS~G~~-qrl~-laral~-~~p~llllDEP~~~LD~--------~~~----~~~~~~l~~~~~~~~~tiii~  154 (180)
T cd03214          92 DR--PFNELSGGER-QRVL-LARALA-QEPPILLLDEPTSHLDI--------AHQ----IELLELLRRLARERGKTVVMV  154 (180)
T ss_pred             cC--CcccCCHHHH-HHHH-HHHHHh-cCCCEEEEeCCccCCCH--------HHH----HHHHHHHHHHHHhcCCEEEEE
Confidence            11  0112222222 2222 222222 37899999998876432        222    266777777777668999999


Q ss_pred             ccccc
Q 047388          273 NQVIA  277 (352)
Q Consensus       273 ~h~~~  277 (352)
                      +|-..
T Consensus       155 sh~~~  159 (180)
T cd03214         155 LHDLN  159 (180)
T ss_pred             eCCHH
Confidence            88654

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.

>COG1123 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]

Probab=98.72  E-value=1.3e-07  Score=92.55  Aligned_cols=60  Identities=22%  Similarity=0.319  Sum_probs=46.4

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +|+++|.|+..+.+..        .    ....+++.|+++-+++|+|.++++|-..                  .+.+.
T Consensus       447 ~P~lli~DEp~SaLDv--------s----vqa~VlnLl~~lq~e~g~t~lfISHDl~------------------vV~~i  496 (539)
T COG1123         447 EPKLLILDEPVSALDV--------S----VQAQVLNLLKDLQEELGLTYLFISHDLA------------------VVRYI  496 (539)
T ss_pred             CCCEEEecCCccccCH--------H----HHHHHHHHHHHHHHHhCCEEEEEeCCHH------------------HHHhh
Confidence            7899999987776432        1    2248999999999999999999999654                  25677


Q ss_pred             cceEEEEEee
Q 047388          301 VTIRLMFRKG  310 (352)
Q Consensus       301 ~~~~i~L~~~  310 (352)
                      ||-+..++.+
T Consensus       497 ~drv~vm~~G  506 (539)
T COG1123         497 ADRVAVMYDG  506 (539)
T ss_pred             CceEEEEECC
Confidence            8877777764

>PRK13650 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.72  E-value=6.4e-08  Score=89.16  Aligned_cols=136  Identities=15%  Similarity=0.220  Sum_probs=75.2

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCc---------ccc
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDP---------GAV  191 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~---------~~~  191 (352)
                      --+++|+++.|.|++|+|||||+..++..  .++    . .+.++++...- .........+..++-+         ..+
T Consensus        28 l~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl--~~p----~-~G~i~~~g~~i-~~~~~~~~~~~i~~v~q~~~~~~~~~tv   99 (279)
T PRK13650         28 FHVKQGEWLSIIGHNGSGKSTTVRLIDGL--LEA----E-SGQIIIDGDLL-TEENVWDIRHKIGMVFQNPDNQFVGATV   99 (279)
T ss_pred             EEEeCCCEEEEECCCCCCHHHHHHHHhcC--CCC----C-CcEEEECCEEC-CcCcHHHHHhhceEEEcChHHhcccccH
Confidence            35789999999999999999999976543  222    2 23455555432 1111112222333221         133


Q ss_pred             cccEEEEec---CCHHH----HHHHHHH-----------------------HHHHhhcCCceEEEEcccccchhcccCCC
Q 047388          192 LDNIIYARA---YTYEH----QYNLLLG-----------------------LAAKMSEEPFRLLIVDSVIALFRVDFTGR  241 (352)
Q Consensus       192 ~~~i~~~~~---~~~~~----~~~~l~~-----------------------l~~~l~~~~~~lvvIDsl~~l~~~~~~~~  241 (352)
                      .+|+.+...   .+..+    ..+.+..                       +.+.+ -.+++++++|+.++.+..     
T Consensus       100 ~eni~~~~~~~~~~~~~~~~~~~~~l~~~gL~~~~~~~~~~LSgGq~qrv~lAral-~~~p~lLlLDEPt~~LD~-----  173 (279)
T PRK13650        100 EDDVAFGLENKGIPHEEMKERVNEALELVGMQDFKEREPARLSGGQKQRVAIAGAV-AMRPKIIILDEATSMLDP-----  173 (279)
T ss_pred             HHHHHhhHHhCCCCHHHHHHHHHHHHHHCCCHhHhhCCcccCCHHHHHHHHHHHHH-HcCCCEEEEECCcccCCH-----
Confidence            344433211   11111    1111110                       00111 137899999998877532     


Q ss_pred             cchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          242 GELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       242 g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                         ..+    ..+.+.|++++++.|.|||+++|-..
T Consensus       174 ---~~~----~~l~~~l~~l~~~~g~tilivtH~~~  202 (279)
T PRK13650        174 ---EGR----LELIKTIKGIRDDYQMTVISITHDLD  202 (279)
T ss_pred             ---HHH----HHHHHHHHHHHHhcCCEEEEEecCHH
Confidence               222    37778888888878999999999653

>cd03298 ABC_ThiQ_thiamine_transporter ABC-type thiamine tranport system; part of the binding-protein-dependent transport system tbpA-thiPQ for thiamine and TPP

Probab=98.71  E-value=6.3e-08  Score=85.33  Aligned_cols=45  Identities=22%  Similarity=0.268  Sum_probs=34.3

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +++++++|+.++-+..        ..+    ..+.+.|++++++.+.+||+++|-..
T Consensus       146 ~p~llllDEP~~~LD~--------~~~----~~l~~~l~~~~~~~~~tii~~sH~~~  190 (211)
T cd03298         146 DKPVLLLDEPFAALDP--------ALR----AEMLDLVLDLHAETKMTVLMVTHQPE  190 (211)
T ss_pred             CCCEEEEcCCcccCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEecCHH
Confidence            7899999998876532        222    26777788888777999999999654

Probably responsible for the translocation of thiamine across the membrane. 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.

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=98.71  E-value=5.9e-08  Score=81.92  Aligned_cols=149  Identities=15%  Similarity=0.178  Sum_probs=85.0

Q ss_pred             ccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC-CChhhHHHHHHHcC
Q 047388          107 KITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT-FRPDRIVPIAERFG  185 (352)
Q Consensus       107 ~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~-~~~~rl~~~~~~~~  185 (352)
                      ..+.|-+.|+.+- =-+++|+++-|+||||+|||||+.-+......      ..+++++.+.+-+ .....+-..-++.|
T Consensus        10 ~Y~~g~~aL~~vs-~~i~~Gef~fl~GpSGAGKSTllkLi~~~e~p------t~G~i~~~~~dl~~l~~~~iP~LRR~IG   82 (223)
T COG2884          10 AYPGGREALRDVS-FHIPKGEFVFLTGPSGAGKSTLLKLIYGEERP------TRGKILVNGHDLSRLKGREIPFLRRQIG   82 (223)
T ss_pred             hcCCCchhhhCce-EeecCceEEEEECCCCCCHHHHHHHHHhhhcC------CCceEEECCeecccccccccchhhheee
Confidence            3556655777653 36899999999999999999999966554333      3455555443321 12223333444455


Q ss_pred             CCcc--------cccccEEEEe---cCCHHHHH----HHHHH-----------------------HHHHhhcCCceEEEE
Q 047388          186 MDPG--------AVLDNIIYAR---AYTYEHQY----NLLLG-----------------------LAAKMSEEPFRLLIV  227 (352)
Q Consensus       186 ~~~~--------~~~~~i~~~~---~~~~~~~~----~~l~~-----------------------l~~~l~~~~~~lvvI  227 (352)
                      +-++        .+.+|+.+.-   .....+..    +.++.                       +.+.+ -++|.+++-
T Consensus        83 vVFQD~rLL~~~tvyeNVA~pL~v~G~~~~~i~~rV~~~L~~VgL~~k~~~lP~~LSGGEQQRvaIARAi-V~~P~vLlA  161 (223)
T COG2884          83 VVFQDFRLLPDRTVYENVALPLRVIGKPPREIRRRVSEVLDLVGLKHKARALPSQLSGGEQQRVAIARAI-VNQPAVLLA  161 (223)
T ss_pred             eEeeeccccccchHhhhhhhhhhccCCCHHHHHHHHHHHHHHhccchhhhcCccccCchHHHHHHHHHHH-ccCCCeEee
Confidence            4332        3445544321   11111111    11110                       11111 147899999


Q ss_pred             cccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          228 DSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       228 Dsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                      |+.+.-+.++.      +      .++++.|.++.+ .|.||++.+|-.
T Consensus       162 DEPTGNLDp~~------s------~~im~lfeeinr-~GtTVl~ATHd~  197 (223)
T COG2884         162 DEPTGNLDPDL------S------WEIMRLFEEINR-LGTTVLMATHDL  197 (223)
T ss_pred             cCCCCCCChHH------H------HHHHHHHHHHhh-cCcEEEEEeccH
Confidence            98876654332      1      277788888754 799999999954

>COG1118 CysA ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=98.71  E-value=3.2e-08  Score=89.40  Aligned_cols=135  Identities=15%  Similarity=0.201  Sum_probs=75.7

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCc--------ccccc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDP--------GAVLD  193 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~--------~~~~~  193 (352)
                      -|+.|+++.+.|||||||||++..||.  +..+     ..+-++++.+--|+...+....++.|+-.        ..+.+
T Consensus        24 ~i~~Ge~vaLlGpSGaGKsTlLRiIAG--Le~p-----~~G~I~~~~~~l~D~~~~~~~~R~VGfvFQ~YALF~HmtVa~   96 (345)
T COG1118          24 DIKSGELVALLGPSGAGKSTLLRIIAG--LETP-----DAGRIRLNGRVLFDVSNLAVRDRKVGFVFQHYALFPHMTVAD   96 (345)
T ss_pred             eecCCcEEEEECCCCCcHHHHHHHHhC--cCCC-----CCceEEECCEeccchhccchhhcceeEEEechhhcccchHHh
Confidence            578999999999999999999996653  3332     33445555553333333334444444433        24556


Q ss_pred             cEEEEec-----CCHHH----HHHHHH--HHH-----------------HHhh---cCCceEEEEcccccchhcccCCCc
Q 047388          194 NIIYARA-----YTYEH----QYNLLL--GLA-----------------AKMS---EEPFRLLIVDSVIALFRVDFTGRG  242 (352)
Q Consensus       194 ~i~~~~~-----~~~~~----~~~~l~--~l~-----------------~~l~---~~~~~lvvIDsl~~l~~~~~~~~g  242 (352)
                      ||.+.-.     .+...    ..+++.  ++.                 -.+.   ...|+++.+|+...-+..      
T Consensus        97 NIAFGl~~~~~~p~~~~~r~rv~elL~lvqL~~la~ryP~QLSGGQrQRVALARALA~eP~vLLLDEPf~ALDa------  170 (345)
T COG1118          97 NIAFGLKVRKERPSEAEIRARVEELLRLVQLEGLADRYPAQLSGGQRQRVALARALAVEPKVLLLDEPFGALDA------  170 (345)
T ss_pred             hhhhcccccccCCChhhHHHHHHHHHHHhcccchhhcCchhcChHHHHHHHHHHHhhcCCCeEeecCCchhhhH------
Confidence            6655321     11111    111111  000                 0000   126788888875444321      


Q ss_pred             chHHHHHHHHHHHHHHHHHHHHhCcEEEEEccc
Q 047388          243 ELADRQQKLGQMLSRLTKISEEFNVAVYMTNQV  275 (352)
Q Consensus       243 ~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~  275 (352)
                        .    .-.++-+.|+++..++++++|+++|-
T Consensus       171 --~----vr~~lr~wLr~~~~~~~~ttvfVTHD  197 (345)
T COG1118         171 --K----VRKELRRWLRKLHDRLGVTTVFVTHD  197 (345)
T ss_pred             --H----HHHHHHHHHHHHHHhhCceEEEEeCC
Confidence              1    12355667788888999999999994

>PRK13635 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.70  E-value=4e-08  Score=90.45  Aligned_cols=45  Identities=13%  Similarity=0.302  Sum_probs=34.2

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +|+++++|+.++-+..        ..+    ..+.+.|++++++.+.+||+++|-..
T Consensus       158 ~p~lllLDEPt~gLD~--------~~~----~~l~~~l~~l~~~~~~tilivsH~~~  202 (279)
T PRK13635        158 QPDIIILDEATSMLDP--------RGR----REVLETVRQLKEQKGITVLSITHDLD  202 (279)
T ss_pred             CCCEEEEeCCcccCCH--------HHH----HHHHHHHHHHHHcCCCEEEEEecCHH
Confidence            7999999998876432        222    37777888888878999999998654

>PRK13636 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.70  E-value=1.5e-07  Score=86.90  Aligned_cols=45  Identities=13%  Similarity=0.281  Sum_probs=34.2

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +|+++++|+.++-+..        ..+    ..+...|++++++.|.+||+++|-..
T Consensus       159 ~p~lLilDEPt~gLD~--------~~~----~~l~~~l~~l~~~~g~tillvsH~~~  203 (283)
T PRK13636        159 EPKVLVLDEPTAGLDP--------MGV----SEIMKLLVEMQKELGLTIIIATHDID  203 (283)
T ss_pred             CCCEEEEeCCccCCCH--------HHH----HHHHHHHHHHHHhCCCEEEEEecCHH
Confidence            7899999998876531        222    26777788888877999999998654

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=98.70  E-value=8.6e-08  Score=83.07  Aligned_cols=27  Identities=26%  Similarity=0.331  Sum_probs=24.0

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+.+|+++.|.|++|+|||||+..++.
T Consensus        14 ~i~~Ge~~~i~G~nGsGKSTLl~~i~G   40 (190)
T TIGR01166        14 AAERGEVLALLGANGAGKSTLLLHLNG   40 (190)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999999999996653

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.

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=98.69  E-value=1.9e-07  Score=82.85  Aligned_cols=45  Identities=9%  Similarity=0.192  Sum_probs=33.3

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +++++++|+.++-+..        ..+    ..+.+.|++++++.+.+||+++|-..
T Consensus       159 ~p~illlDEPt~~LD~--------~~~----~~l~~~l~~~~~~~~~tii~~tH~~~  203 (221)
T TIGR02211       159 QPSLVLADEPTGNLDN--------NNA----KIIFDLMLELNRELNTSFLVVTHDLE  203 (221)
T ss_pred             CCCEEEEeCCCCcCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence            7899999998876431        222    26777788888777899999999653

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.

>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=98.69  E-value=2.8e-08  Score=88.20  Aligned_cols=58  Identities=16%  Similarity=0.168  Sum_probs=41.7

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +++++++|+.++-+..        ..+    ..+.+.|++++++.+.+||+++|-..                  .+...
T Consensus       149 ~p~lllLDEPt~~LD~--------~~~----~~~~~~l~~~~~~~~~tiii~sH~~~------------------~~~~~  198 (220)
T cd03293         149 DPDVLLLDEPFSALDA--------LTR----EQLQEELLDIWRETGKTVLLVTHDID------------------EAVFL  198 (220)
T ss_pred             CCCEEEECCCCCCCCH--------HHH----HHHHHHHHHHHHHcCCEEEEEecCHH------------------HHHHh
Confidence            7899999998876432        222    26777788887777899999998653                  13456


Q ss_pred             cceEEEEE
Q 047388          301 VTIRLMFR  308 (352)
Q Consensus       301 ~~~~i~L~  308 (352)
                      +|.++.|.
T Consensus       199 ~d~i~~l~  206 (220)
T cd03293         199 ADRVVVLS  206 (220)
T ss_pred             CCEEEEEE
Confidence            67777776

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.

>PRK13634 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.69  E-value=1.1e-07  Score=88.01  Aligned_cols=45  Identities=13%  Similarity=0.194  Sum_probs=34.8

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +|+++++|+.++-+..        ..    ...+.+.|+.++++.|.|||+++|-..
T Consensus       163 ~P~llllDEPt~~LD~--------~~----~~~l~~~L~~l~~~~g~tviiitHd~~  207 (290)
T PRK13634        163 EPEVLVLDEPTAGLDP--------KG----RKEMMEMFYKLHKEKGLTTVLVTHSME  207 (290)
T ss_pred             CCCEEEEECCcccCCH--------HH----HHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence            7899999998876532        11    237778888888888999999999654

>TIGR01188 drrA daunorubicin resistance ABC transporter ATP-binding subunit

Probab=98.69  E-value=2.9e-07  Score=85.80  Aligned_cols=45  Identities=16%  Similarity=0.260  Sum_probs=32.9

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      .+|+++++|+.++-+.+        ..+    ..+.+.|++++++ |.+||+++|-..
T Consensus       141 ~~p~lllLDEPt~gLD~--------~~~----~~l~~~l~~~~~~-g~tvi~~sH~~~  185 (302)
T TIGR01188       141 HQPDVLFLDEPTTGLDP--------RTR----RAIWDYIRALKEE-GVTILLTTHYME  185 (302)
T ss_pred             cCCCEEEEeCCCcCCCH--------HHH----HHHHHHHHHHHhC-CCEEEEECCCHH
Confidence            37999999998877532        222    2666777777654 899999999654

This model describes daunorubicin resistance ABC transporter, ATP binding subunit in bacteria and archaea. This model is restricted in its scope to preferentially recognize the ATP binding subunit associated with effux of the drug, daunorubicin. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. In eukaryotes proteins of similar function include p-gyco proteins, multidrug resistance protein etc.

>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=98.69  E-value=3.5e-08  Score=87.41  Aligned_cols=45  Identities=7%  Similarity=0.161  Sum_probs=33.6

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +++++++|+.++-+..        ..+    ..+.+.|++++++.+.+||+++|-..
T Consensus       158 ~p~lllLDEP~~~LD~--------~~~----~~l~~~l~~~~~~~~~tii~~sH~~~  202 (218)
T cd03255         158 DPKIILADEPTGNLDS--------ETG----KEVMELLRELNKEAGTTIVVVTHDPE  202 (218)
T ss_pred             CCCEEEEcCCcccCCH--------HHH----HHHHHHHHHHHHhcCCeEEEEECCHH
Confidence            7899999998876532        222    36777788887767899999999653

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.

>PRK11650 ugpC glycerol-3-phosphate transporter ATP-binding subunit; Provisional

Probab=98.69  E-value=3.1e-08  Score=94.16  Aligned_cols=135  Identities=12%  Similarity=0.143  Sum_probs=72.9

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCC--Chhh--HHHHHHHcCCCc-ccccccEE
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTF--RPDR--IVPIAERFGMDP-GAVLDNII  196 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~--~~~r--l~~~~~~~~~~~-~~~~~~i~  196 (352)
                      -+++|+++.|.||||||||||+..++..  .++     ..+-++++.+.-.  .+.+  +..+.+.+.+.+ ..+.+|+.
T Consensus        26 ~i~~Ge~~~llG~sGsGKSTLLr~iaGl--~~p-----~~G~I~~~g~~i~~~~~~~r~ig~v~Q~~~lfp~~tv~eNi~   98 (356)
T PRK11650         26 DVADGEFIVLVGPSGCGKSTLLRMVAGL--ERI-----TSGEIWIGGRVVNELEPADRDIAMVFQNYALYPHMSVRENMA   98 (356)
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHHCC--CCC-----CceEEEECCEECCCCCHHHCCEEEEeCCccccCCCCHHHHHH
Confidence            4779999999999999999999976543  222     2334555554221  1110  111112222222 23444443


Q ss_pred             EEec---CCHHH----HHHHHHH-----------------------HHHHhhcCCceEEEEcccccchhcccCCCcchHH
Q 047388          197 YARA---YTYEH----QYNLLLG-----------------------LAAKMSEEPFRLLIVDSVIALFRVDFTGRGELAD  246 (352)
Q Consensus       197 ~~~~---~~~~~----~~~~l~~-----------------------l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~  246 (352)
                      +...   .+..+    ..+++..                       +.+.+ -.+|+++++|+..+-+.        ...
T Consensus        99 ~~~~~~~~~~~~~~~~~~~~l~~~gL~~~~~~~~~~LSgGq~QRvalARAL-~~~P~llLLDEP~s~LD--------~~~  169 (356)
T PRK11650         99 YGLKIRGMPKAEIEERVAEAARILELEPLLDRKPRELSGGQRQRVAMGRAI-VREPAVFLFDEPLSNLD--------AKL  169 (356)
T ss_pred             hHHhhcCCCHHHHHHHHHHHHHHcCChhHhhCChhhCCHHHHHHHHHHHHH-hcCCCEEEEeCCcccCC--------HHH
Confidence            3211   11111    1111110                       00111 13799999998876542        122


Q ss_pred             HHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          247 RQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       247 r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                      |    ..+...|+++.++.++++|+++|-.
T Consensus       170 r----~~l~~~l~~l~~~~g~tii~vTHd~  195 (356)
T PRK11650        170 R----VQMRLEIQRLHRRLKTTSLYVTHDQ  195 (356)
T ss_pred             H----HHHHHHHHHHHHhcCCEEEEEeCCH
Confidence            2    2677778888888899999999943

>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=98.69  E-value=4.4e-08  Score=83.11  Aligned_cols=27  Identities=26%  Similarity=0.257  Sum_probs=24.3

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|+|||||+..++.
T Consensus        23 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G   49 (166)
T cd03223          23 EIKPGDRLLITGPSGTGKSSLFRALAG   49 (166)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhc
Confidence            478999999999999999999997654

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

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=98.69  E-value=6.3e-08  Score=85.49  Aligned_cols=59  Identities=10%  Similarity=0.143  Sum_probs=42.3

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +++++++|+.++-+..        ..+    ..+.+.|++++++.+.+||+++|-..                  .+...
T Consensus       148 ~p~~lllDEPt~~LD~--------~~~----~~l~~~l~~~~~~~~~tii~~sH~~~------------------~~~~~  197 (213)
T cd03259         148 EPSLLLLDEPLSALDA--------KLR----EELREELKELQRELGITTIYVTHDQE------------------EALAL  197 (213)
T ss_pred             CCCEEEEcCCcccCCH--------HHH----HHHHHHHHHHHHHcCCEEEEEecCHH------------------HHHHh
Confidence            7899999998877532        222    36777788887777999999999653                  13456


Q ss_pred             cceEEEEEe
Q 047388          301 VTIRLMFRK  309 (352)
Q Consensus       301 ~~~~i~L~~  309 (352)
                      +|.++.|..
T Consensus       198 ~d~v~~l~~  206 (213)
T cd03259         198 ADRIAVMNE  206 (213)
T ss_pred             cCEEEEEEC
Confidence            677777764

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.

>PF07088 GvpD: GvpD gas vesicle protein; InterPro: IPR009788 This family consists of several archaeal GvpD gas vesicle proteins

Probab=98.68  E-value=2.8e-07  Score=85.93  Aligned_cols=174  Identities=16%  Similarity=0.226  Sum_probs=109.1

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHH--HcCCCccccc---cc----
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAE--RFGMDPGAVL---DN----  194 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~--~~~~~~~~~~---~~----  194 (352)
                      ..|...+|=|.||+|||+|++.++-...       ..+.++|+++.-+  +.++.++.-  +-.+++..++   ++    
T Consensus         8 ~~G~TLLIKG~PGTGKTtfaLelL~~l~-------~~~~v~YISTRVd--~d~vy~~y~~~~~~i~~~~vlDatQd~~~~   78 (484)
T PF07088_consen    8 EPGQTLLIKGEPGTGKTTFALELLNSLK-------DHGNVMYISTRVD--QDTVYEMYPWIEESIDPTNVLDATQDPFEL   78 (484)
T ss_pred             CCCcEEEEecCCCCCceeeehhhHHHHh-------ccCCeEEEEeccC--HHHHHHhhhhhccccChhhhhhhccchhhc
Confidence            5799999999999999999998865443       4678999999854  776665541  1112211111   11    


Q ss_pred             ----EEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEE
Q 047388          195 ----IIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVY  270 (352)
Q Consensus       195 ----i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~vi  270 (352)
                          ...........+.++++++..   ..+..+|++||.-+++.. .+.  ....++ .+..+.+.|..+|++.++-+|
T Consensus        79 ~~~~~vp~~~l~~ds~~~f~~~i~~---~~k~~iI~~DSWdaiiey-la~--~~~~~e-d~e~l~~dLv~lard~g~~LI  151 (484)
T PF07088_consen   79 PLDKDVPFERLDIDSFRDFVDKINE---AGKKPIIAFDSWDAIIEY-LAE--EHDEPE-DIETLTNDLVELARDMGINLI  151 (484)
T ss_pred             cccccCcccccCHHHHHHHHHHhhh---cccCcEEEEecHHHHHHH-hhh--hhcCcH-HHHHHHHHHHHHHhhcCceEE
Confidence                000111234445555554322   135678999996665431 000  111222 245677788889999999999


Q ss_pred             EEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEe-ec--C-CeEEEEEEeCCCCCccc
Q 047388          271 MTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRK-GK--G-EQRVCKVFDAPNLPEAE  329 (352)
Q Consensus       271 v~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~-~~--~-~~R~~~i~Ks~~~~~~~  329 (352)
                      ++......                ..+++.+|.++.|.- ..  | ..|.+++.|-|+.+-+.
T Consensus       152 lVsEsa~~----------------~~LdYivDGVVTL~v~~derGR~~R~L~LeKLRGV~I~q  198 (484)
T PF07088_consen  152 LVSESAEN----------------EPLDYIVDGVVTLQVKNDERGRTRRYLRLEKLRGVRIKQ  198 (484)
T ss_pred             EEEecCCC----------------CcchheeeeEEEEEeccccCCceEEEEEehhhcCcccCC
Confidence            98776542                237889999999962 11  2 35889999999877654

GvpD is thought to be involved in the regulation of gas vesicle formation [,].; GO: 0005524 ATP binding

>COG3845 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]

Probab=98.68  E-value=1.2e-07  Score=90.75  Aligned_cols=144  Identities=22%  Similarity=0.315  Sum_probs=82.9

Q ss_pred             ccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC-CCC-hhhHHHHHHHc
Q 047388          107 KITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG-TFR-PDRIVPIAERF  184 (352)
Q Consensus       107 ~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~-~~~-~~rl~~~~~~~  184 (352)
                      +++ |+..+|.+ .=-+++|+|..|.|++|+|||||+..+... ..|      ..+-+|++... .+. |.    -+.+.
T Consensus        13 ~f~-~~~And~V-~l~v~~GeIHaLLGENGAGKSTLm~iL~G~-~~P------~~GeI~v~G~~v~~~sP~----dA~~~   79 (501)
T COG3845          13 RFP-GVVANDDV-SLSVKKGEIHALLGENGAGKSTLMKILFGL-YQP------DSGEIRVDGKEVRIKSPR----DAIRL   79 (501)
T ss_pred             EcC-CEEecCce-eeeecCCcEEEEeccCCCCHHHHHHHHhCc-ccC------CcceEEECCEEeccCCHH----HHHHc
Confidence            344 66666664 247999999999999999999999855433 332      33445555432 111 11    11222


Q ss_pred             CCC---------c-ccccccEEEEecC------CHHHHHHHHHHHH---------------------------HHhhcCC
Q 047388          185 GMD---------P-GAVLDNIIYARAY------TYEHQYNLLLGLA---------------------------AKMSEEP  221 (352)
Q Consensus       185 ~~~---------~-~~~~~~i~~~~~~------~~~~~~~~l~~l~---------------------------~~l~~~~  221 (352)
                      |+.         + -++.+|+.+....      +.......+.++.                           +.+ -.+
T Consensus        80 GIGMVhQHF~Lv~~lTV~ENiiLg~e~~~~~~~~~~~~~~~i~~l~~~yGl~vdp~~~V~dLsVG~qQRVEIlKaL-yr~  158 (501)
T COG3845          80 GIGMVHQHFMLVPTLTVAENIILGLEPSKGGLIDRRQARARIKELSERYGLPVDPDAKVADLSVGEQQRVEILKAL-YRG  158 (501)
T ss_pred             CCcEEeeccccccccchhhhhhhcCccccccccCHHHHHHHHHHHHHHhCCCCCccceeecCCcchhHHHHHHHHH-hcC
Confidence            211         1 1344444433221      1111111111111                           111 137


Q ss_pred             ceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          222 FRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       222 ~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      ++++|+|+.++.+.+            +++.+++..|+++++ .|.+||+++|--.
T Consensus       159 a~iLILDEPTaVLTP------------~E~~~lf~~l~~l~~-~G~tIi~ITHKL~  201 (501)
T COG3845         159 ARLLILDEPTAVLTP------------QEADELFEILRRLAA-EGKTIIFITHKLK  201 (501)
T ss_pred             CCEEEEcCCcccCCH------------HHHHHHHHHHHHHHH-CCCEEEEEeccHH
Confidence            899999999998754            234588888998876 4999999999543

>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=98.68  E-value=8.8e-08  Score=81.94  Aligned_cols=128  Identities=16%  Similarity=0.139  Sum_probs=74.5

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAY  201 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~  201 (352)
                      -+++|+++.|.|++|+|||||+..++... .|     ..+.+ +++...             .++.++    +..    .
T Consensus        21 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~-~p-----~~G~i-~~~g~~-------------i~~~~q----~~~----L   72 (177)
T cd03222          21 VVKEGEVIGIVGPNGTGKTTAVKILAGQL-IP-----NGDND-EWDGIT-------------PVYKPQ----YID----L   72 (177)
T ss_pred             EECCCCEEEEECCCCChHHHHHHHHHcCC-CC-----CCcEE-EECCEE-------------EEEEcc----cCC----C
Confidence            56899999999999999999999665432 22     23343 333211             111110    000    2


Q ss_pred             CHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCC
Q 047388          202 TYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGG  281 (352)
Q Consensus       202 ~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~  281 (352)
                      +..+ .+.+. +.+.+. .+++++++|+.++.+..        ..+    ..+.+.|.+++++.+.+||+++|-...   
T Consensus        73 SgGq-~qrv~-laral~-~~p~lllLDEPts~LD~--------~~~----~~l~~~l~~~~~~~~~tiiivsH~~~~---  134 (177)
T cd03222          73 SGGE-LQRVA-IAAALL-RNATFYLFDEPSAYLDI--------EQR----LNAARAIRRLSEEGKKTALVVEHDLAV---  134 (177)
T ss_pred             CHHH-HHHHH-HHHHHh-cCCCEEEEECCcccCCH--------HHH----HHHHHHHHHHHHcCCCEEEEEECCHHH---
Confidence            2222 22222 222222 37899999998876432        222    266677777766655899999996541   


Q ss_pred             CcccCCCCCCCcchhhhhccceEEEEEee
Q 047388          282 GVFISDPKKPAGGHVLAHAVTIRLMFRKG  310 (352)
Q Consensus       282 ~~~~~~~~~~~gg~~~~~~~~~~i~L~~~  310 (352)
                                     +...++..+.+...
T Consensus       135 ---------------~~~~~d~i~~l~~~  148 (177)
T cd03222         135 ---------------LDYLSDRIHVFEGE  148 (177)
T ss_pred             ---------------HHHhCCEEEEEcCC
Confidence                           34466777777654

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.

>PRK13640 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.68  E-value=6.6e-08  Score=89.17  Aligned_cols=45  Identities=20%  Similarity=0.341  Sum_probs=33.8

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +|+++++|+.++-+..        ..+    ..+...|++++++.+.+||+++|-..
T Consensus       161 ~P~llllDEPt~gLD~--------~~~----~~l~~~l~~l~~~~g~tvli~tH~~~  205 (282)
T PRK13640        161 EPKIIILDESTSMLDP--------AGK----EQILKLIRKLKKKNNLTVISITHDID  205 (282)
T ss_pred             CCCEEEEECCcccCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEecCHH
Confidence            7899999998876432        222    36777788888777999999998653

>TIGR01186 proV glycine betaine/L-proline transport ATP binding subunit

Probab=98.68  E-value=1.7e-08  Score=95.96  Aligned_cols=136  Identities=18%  Similarity=0.276  Sum_probs=74.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCC--ChhhHHHH-HHHc-------CCCc-cc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTF--RPDRIVPI-AERF-------GMDP-GA  190 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~--~~~rl~~~-~~~~-------~~~~-~~  190 (352)
                      -+++|+++.|.|++|||||||+..++..  .++     ..+-++++.+...  ++..++.. .+.+       ++.+ .+
T Consensus        15 ~i~~Gei~~l~G~sGsGKSTLLr~L~Gl--~~p-----~~G~I~i~G~~i~~~~~~~~~~~rr~~i~~v~Q~~~l~~~~T   87 (363)
T TIGR01186        15 AIAKGEIFVIMGLSGSGKSTTVRMLNRL--IEP-----TAGQIFIDGENIMKQSPVELREVRRKKIGMVFQQFALFPHMT   87 (363)
T ss_pred             EEcCCCEEEEECCCCChHHHHHHHHhCC--CCC-----CceEEEECCEECCcCCHHHHHHHHhCcEEEEECCCcCCCCCC
Confidence            4789999999999999999999966543  332     2334566665322  22222111 1122       2222 13


Q ss_pred             ccccEEEEec---CCHHH----HHHHHHH-----------------------HHHHhhcCCceEEEEcccccchhcccCC
Q 047388          191 VLDNIIYARA---YTYEH----QYNLLLG-----------------------LAAKMSEEPFRLLIVDSVIALFRVDFTG  240 (352)
Q Consensus       191 ~~~~i~~~~~---~~~~~----~~~~l~~-----------------------l~~~l~~~~~~lvvIDsl~~l~~~~~~~  240 (352)
                      +.+|+.+...   ....+    ..+++..                       +.+.+ -.+++++++|+..+-+.+    
T Consensus        88 V~eNi~~~~~~~~~~~~~~~~~~~~~l~~vgL~~~~~~~p~~LSGGq~QRV~lARAL-~~~p~iLLlDEP~saLD~----  162 (363)
T TIGR01186        88 ILQNTSLGPELLGWPEQERKEKALELLKLVGLEEYEHRYPDELSGGMQQRVGLARAL-AAEPDILLMDEAFSALDP----  162 (363)
T ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCchhhhCChhhCCHHHHHHHHHHHHH-hcCCCEEEEeCCcccCCH----
Confidence            4444432111   11111    1111110                       00111 137899999987766432    


Q ss_pred             CcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          241 RGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       241 ~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                          ..|    ..+.+.|.++.++.+.|||+++|-..
T Consensus       163 ----~~r----~~l~~~l~~l~~~~~~Tii~vTHd~~  191 (363)
T TIGR01186       163 ----LIR----DSMQDELKKLQATLQKTIVFITHDLD  191 (363)
T ss_pred             ----HHH----HHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence                222    26777778887778999999999554

This model describes the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. Functionally, this transport system is involved in osmoregulation. Under conditions of stress, the organism recruits these transport system to accumulate glycine betaine and other solutes which offer osmo-protection. It has been demonstrated that glycine betaine uptake is accompanied by symport with sodium ions. The locus has been named variously as proU or opuA. A gene library from L.lact

>PRK13536 nodulation factor exporter subunit NodI; Provisional

Probab=98.68  E-value=2e-07  Score=88.17  Aligned_cols=45  Identities=18%  Similarity=0.231  Sum_probs=33.4

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      .+|+++++|+.++-+.+        ..|    ..+.+.|+++++ .|.+||+++|-..
T Consensus       189 ~~P~lLiLDEPt~gLD~--------~~r----~~l~~~l~~l~~-~g~tilisSH~l~  233 (340)
T PRK13536        189 NDPQLLILDEPTTGLDP--------HAR----HLIWERLRSLLA-RGKTILLTTHFME  233 (340)
T ss_pred             cCCCEEEEECCCCCCCH--------HHH----HHHHHHHHHHHh-CCCEEEEECCCHH
Confidence            37999999998876532        222    267777788765 4899999999765

>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=98.68  E-value=3e-07  Score=82.45  Aligned_cols=59  Identities=12%  Similarity=0.098  Sum_probs=42.2

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +++++++|+.++-+..        ..+    ..+.+.|++++++.+.+||+++|-..                  .+...
T Consensus       154 ~p~llllDEPt~~LD~--------~~~----~~l~~~l~~~~~~~~~tvi~vsH~~~------------------~~~~~  203 (235)
T cd03261         154 DPELLLYDEPTAGLDP--------IAS----GVIDDLIRSLKKELGLTSIMVTHDLD------------------TAFAI  203 (235)
T ss_pred             CCCEEEecCCcccCCH--------HHH----HHHHHHHHHHHHhcCcEEEEEecCHH------------------HHHHh
Confidence            7899999998876432        222    36777788887777899999999653                  13456


Q ss_pred             cceEEEEEe
Q 047388          301 VTIRLMFRK  309 (352)
Q Consensus       301 ~~~~i~L~~  309 (352)
                      +|.++.|..
T Consensus       204 ~d~v~~l~~  212 (235)
T cd03261         204 ADRIAVLYD  212 (235)
T ss_pred             cCEEEEEEC
Confidence            777777764

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.

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=98.67  E-value=2.4e-07  Score=81.76  Aligned_cols=27  Identities=22%  Similarity=0.406  Sum_probs=24.3

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|+|||||+..++.
T Consensus        22 ~i~~G~~~~l~G~nGsGKSTLl~~l~G   48 (213)
T cd03262          22 TVKKGEVVVIIGPSGSGKSTLLRCINL   48 (213)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999999999997764

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

>PRK13652 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.67  E-value=1.5e-07  Score=86.65  Aligned_cols=45  Identities=13%  Similarity=0.280  Sum_probs=33.9

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +++++++|+.++-+..        ..+    ..+.+.|++++++++.+||+++|-..
T Consensus       155 ~p~llilDEPt~gLD~--------~~~----~~l~~~l~~l~~~~g~tvli~tH~~~  199 (277)
T PRK13652        155 EPQVLVLDEPTAGLDP--------QGV----KELIDFLNDLPETYGMTVIFSTHQLD  199 (277)
T ss_pred             CCCEEEEeCCcccCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEecCHH
Confidence            7899999998876432        222    26777788888777999999999654

>COG4586 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=98.67  E-value=2.7e-07  Score=82.13  Aligned_cols=46  Identities=17%  Similarity=0.304  Sum_probs=35.8

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      |+|+++++|+.+--+.        ...+    ..+.+.|+.+++++++||++++|...
T Consensus       173 h~p~VLfLDEpTvgLD--------V~aq----~~ir~Flke~n~~~~aTVllTTH~~~  218 (325)
T COG4586         173 HPPKVLFLDEPTVGLD--------VNAQ----ANIREFLKEYNEERQATVLLTTHIFD  218 (325)
T ss_pred             CCCcEEEecCCccCcc--------hhHH----HHHHHHHHHHHHhhCceEEEEecchh
Confidence            5899999999875432        1222    36777899999999999999999775

>PRK13633 cobalt transporter ATP-binding subunit; Provisional

Probab=98.66  E-value=1.2e-07  Score=87.29  Aligned_cols=45  Identities=9%  Similarity=0.346  Sum_probs=33.9

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +|+++++|+.++-+..        ..+    ..+...|++++++.+.+||+++|-..
T Consensus       162 ~p~llllDEPt~gLD~--------~~~----~~l~~~l~~l~~~~g~tillvtH~~~  206 (280)
T PRK13633        162 RPECIIFDEPTAMLDP--------SGR----REVVNTIKELNKKYGITIILITHYME  206 (280)
T ss_pred             CCCEEEEeCCcccCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEecChH
Confidence            7899999998876432        222    26777788887777999999998654

>COG4107 PhnK ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.66  E-value=4e-07  Score=75.88  Aligned_cols=43  Identities=28%  Similarity=0.364  Sum_probs=34.4

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      -+.||++..|+|++|||||||+..++..+..      ..+.+.|..-..
T Consensus        28 ~l~PGeVLgiVGESGSGKtTLL~~is~rl~p------~~G~v~Y~~r~~   70 (258)
T COG4107          28 DLYPGEVLGIVGESGSGKTTLLKCISGRLTP------DAGTVTYRMRDG   70 (258)
T ss_pred             eecCCcEEEEEecCCCcHHhHHHHHhcccCC------CCCeEEEEcCCC
Confidence            4789999999999999999999977655544      567788876544

>PRK09452 potA putrescine/spermidine ABC transporter ATPase protein; Reviewed

Probab=98.66  E-value=5e-08  Score=93.30  Aligned_cols=135  Identities=13%  Similarity=0.229  Sum_probs=73.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCC--Chhh--HHHHHHHcCCCcc-cccccEE
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTF--RPDR--IVPIAERFGMDPG-AVLDNII  196 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~--~~~r--l~~~~~~~~~~~~-~~~~~i~  196 (352)
                      -+.+|+++.|.||||||||||+..++..  .++     ..+-++++.+.-.  .+.+  +..+.+.+.+.+. .+.+|+.
T Consensus        36 ~i~~Ge~~~LlGpsGsGKSTLLr~IaGl--~~p-----~~G~I~~~g~~i~~~~~~~r~ig~vfQ~~~lfp~ltv~eNi~  108 (375)
T PRK09452         36 TINNGEFLTLLGPSGCGKTTVLRLIAGF--ETP-----DSGRIMLDGQDITHVPAENRHVNTVFQSYALFPHMTVFENVA  108 (375)
T ss_pred             EEeCCCEEEEECCCCCcHHHHHHHHhCC--CCC-----CceEEEECCEECCCCCHHHCCEEEEecCcccCCCCCHHHHHH
Confidence            5789999999999999999999976643  222     2334455544211  1110  1111222222221 3445543


Q ss_pred             EEec---CCHHH----HHHHHHH-----------------------HHHHhhcCCceEEEEcccccchhcccCCCcchHH
Q 047388          197 YARA---YTYEH----QYNLLLG-----------------------LAAKMSEEPFRLLIVDSVIALFRVDFTGRGELAD  246 (352)
Q Consensus       197 ~~~~---~~~~~----~~~~l~~-----------------------l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~  246 (352)
                      +...   ....+    ..+.+..                       +.+.+ -.+|+++++|+..+-+.        ...
T Consensus       109 ~~l~~~~~~~~~~~~~~~~~l~~~~l~~~~~~~p~~LSgGq~QRVaLARaL-~~~P~llLLDEP~s~LD--------~~~  179 (375)
T PRK09452        109 FGLRMQKTPAAEITPRVMEALRMVQLEEFAQRKPHQLSGGQQQRVAIARAV-VNKPKVLLLDESLSALD--------YKL  179 (375)
T ss_pred             HHHhhcCCCHHHHHHHHHHHHHHcCCchhhhCChhhCCHHHHHHHHHHHHH-hcCCCEEEEeCCCCcCC--------HHH
Confidence            3210   11111    1111110                       01111 13789999998766542        122


Q ss_pred             HHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          247 RQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       247 r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                      |    ..+...|++++++.++++|+++|-.
T Consensus       180 r----~~l~~~L~~l~~~~g~tiI~vTHd~  205 (375)
T PRK09452        180 R----KQMQNELKALQRKLGITFVFVTHDQ  205 (375)
T ss_pred             H----HHHHHHHHHHHHhcCCEEEEEeCCH
Confidence            2    2677788888888899999999943

>PRK11432 fbpC ferric transporter ATP-binding subunit; Provisional

Probab=98.66  E-value=4.9e-08  Score=92.62  Aligned_cols=45  Identities=13%  Similarity=0.280  Sum_probs=33.3

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +|+++++|+..+-+.        ...|    .++...|+++.++.++++|+++|-..
T Consensus       154 ~P~lLLLDEP~s~LD--------~~~r----~~l~~~l~~l~~~~g~tii~vTHd~~  198 (351)
T PRK11432        154 KPKVLLFDEPLSNLD--------ANLR----RSMREKIRELQQQFNITSLYVTHDQS  198 (351)
T ss_pred             CCCEEEEcCCcccCC--------HHHH----HHHHHHHHHHHHhcCCEEEEEcCCHH
Confidence            789999998776542        1222    26677788888888999999999543

>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed

Probab=98.66  E-value=5e-07  Score=81.92  Aligned_cols=139  Identities=15%  Similarity=0.211  Sum_probs=70.8

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCC----CCCeEEEEeCCCCCChh---hHHHHHHH-cCCCcc---c
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRG----GNGKVAYIDTEGTFRPD---RIVPIAER-FGMDPG---A  190 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg----~~~~vl~i~~e~~~~~~---rl~~~~~~-~~~~~~---~  190 (352)
                      -+++|+++.|.|++|+|||||+..++..  .++..|.    ....+.|+..+..+...   .+...... .+...+   +
T Consensus        26 ~i~~Ge~~~I~G~NGsGKSTLl~~i~Gl--~~p~~G~i~~~~~~~i~~v~q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~  103 (251)
T PRK09544         26 ELKPGKILTLLGPNGAGKSTLVRVVLGL--VAPDEGVIKRNGKLRIGYVPQKLYLDTTLPLTVNRFLRLRPGTKKEDILP  103 (251)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCC--CCCCceEEEECCccCEEEeccccccccccChhHHHHHhccccccHHHHHH
Confidence            4789999999999999999999976543  3333221    11235555433222110   11111100 000000   0


Q ss_pred             ccccEEE-------EecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHH
Q 047388          191 VLDNIIY-------ARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISE  263 (352)
Q Consensus       191 ~~~~i~~-------~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~  263 (352)
                      +++.+-+       ....+..+ ...+. +...+ -.+++++++|+.++-+..        ..+    ..+.+.|+++++
T Consensus       104 ~l~~~gl~~~~~~~~~~LSgGq-~qrv~-laral-~~~p~lllLDEPt~~LD~--------~~~----~~l~~~L~~~~~  168 (251)
T PRK09544        104 ALKRVQAGHLIDAPMQKLSGGE-TQRVL-LARAL-LNRPQLLVLDEPTQGVDV--------NGQ----VALYDLIDQLRR  168 (251)
T ss_pred             HHHHcCChHHHhCChhhCCHHH-HHHHH-HHHHH-hcCCCEEEEeCCCcCCCH--------HHH----HHHHHHHHHHHH
Confidence            0000000       00111111 11111 11122 137899999998876432        222    267777888877


Q ss_pred             HhCcEEEEEccccc
Q 047388          264 EFNVAVYMTNQVIA  277 (352)
Q Consensus       264 ~~~~~viv~~h~~~  277 (352)
                      +++.+||+++|-..
T Consensus       169 ~~g~tiiivsH~~~  182 (251)
T PRK09544        169 ELDCAVLMVSHDLH  182 (251)
T ss_pred             hcCCEEEEEecCHH
Confidence            77899999998654

>PRK10851 sulfate/thiosulfate transporter subunit; Provisional

Probab=98.66  E-value=5.3e-08  Score=92.47  Aligned_cols=44  Identities=14%  Similarity=0.218  Sum_probs=33.1

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                      +++++++|+..+-+.        ...|    ..+.+.|+++.+++++++|+++|-.
T Consensus       154 ~P~llLLDEP~s~LD--------~~~r----~~l~~~L~~l~~~~g~tii~vTHd~  197 (353)
T PRK10851        154 EPQILLLDEPFGALD--------AQVR----KELRRWLRQLHEELKFTSVFVTHDQ  197 (353)
T ss_pred             CCCEEEEeCCCccCC--------HHHH----HHHHHHHHHHHHhcCCEEEEEeCCH
Confidence            789999998876642        1222    2677778888888899999999944

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=98.65  E-value=5.7e-08  Score=88.30  Aligned_cols=60  Identities=20%  Similarity=0.202  Sum_probs=42.3

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhh
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAH  299 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~  299 (352)
                      .+++++++|+.++-+..        ..+    ..+...|++++++.+.+||+++|-..                  .+..
T Consensus       145 ~~p~lllLDEPt~~LD~--------~~~----~~l~~~L~~~~~~~g~tviivsH~~~------------------~~~~  194 (255)
T PRK11248        145 ANPQLLLLDEPFGALDA--------FTR----EQMQTLLLKLWQETGKQVLLITHDIE------------------EAVF  194 (255)
T ss_pred             cCCCEEEEeCCCccCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEeCCHH------------------HHHH
Confidence            37899999998876432        222    26677777877667899999999653                  2455


Q ss_pred             ccceEEEEEe
Q 047388          300 AVTIRLMFRK  309 (352)
Q Consensus       300 ~~~~~i~L~~  309 (352)
                      .+|.++.|..
T Consensus       195 ~~d~i~~l~~  204 (255)
T PRK11248        195 MATELVLLSP  204 (255)
T ss_pred             hCCEEEEEeC
Confidence            6777777764

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=98.65  E-value=1.2e-07  Score=83.64  Aligned_cols=27  Identities=30%  Similarity=0.308  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|+|||||+..++.
T Consensus        23 ~i~~G~~~~l~G~nGsGKSTLl~~l~G   49 (211)
T cd03225          23 TIKKGEFVLIVGPNGSGKSTLLRLLNG   49 (211)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhc
Confidence            478999999999999999999997654

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.

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=98.65  E-value=4.3e-07  Score=81.31  Aligned_cols=45  Identities=11%  Similarity=0.172  Sum_probs=33.3

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +++++++|+.++-+..        ..+    ..+.+.|++++++.+.+||+++|-..
T Consensus       163 ~p~lllLDEPt~~LD~--------~~~----~~l~~~l~~~~~~~g~tvii~sH~~~  207 (233)
T PRK11629        163 NPRLVLADEPTGNLDA--------RNA----DSIFQLLGELNRLQGTAFLVVTHDLQ  207 (233)
T ss_pred             CCCEEEEeCCCCCCCH--------HHH----HHHHHHHHHHHHhCCCEEEEEeCCHH
Confidence            7899999998876432        222    26777788887767899999999654

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=98.65  E-value=6.4e-08  Score=85.41  Aligned_cols=45  Identities=11%  Similarity=0.200  Sum_probs=34.0

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +++++++|+.++-+..        ..+    ..+...|++++++.+.+||+++|-..
T Consensus       148 ~p~llllDEPt~~LD~--------~~~----~~l~~~l~~~~~~~~~tvi~~sH~~~  192 (213)
T cd03301         148 EPKVFLMDEPLSNLDA--------KLR----VQMRAELKRLQQRLGTTTIYVTHDQV  192 (213)
T ss_pred             CCCEEEEcCCcccCCH--------HHH----HHHHHHHHHHHHHcCCEEEEEeCCHH
Confidence            7899999998876532        222    36777888888777999999999653

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.

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=98.64  E-value=3.5e-07  Score=80.25  Aligned_cols=27  Identities=33%  Similarity=0.489  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|+|||||+..++.
T Consensus        20 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G   46 (206)
T TIGR03608        20 TIEKGKMYAIIGESGSGKSTLLNIIGL   46 (206)
T ss_pred             EEeCCcEEEEECCCCCCHHHHHHHHhc
Confidence            477999999999999999999997654

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.

>COG1123 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]

Probab=98.64  E-value=2.3e-07  Score=90.86  Aligned_cols=44  Identities=25%  Similarity=0.369  Sum_probs=34.8

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                      +|+++|.|+.+..+..        .    ...++++.|+++.+++|+++|+++|-.
T Consensus       172 ~P~LLIaDEPTTaLDv--------t----~q~qIL~llk~l~~e~g~a~l~ITHDl  215 (539)
T COG1123         172 KPKLLIADEPTTALDV--------T----TQAQILDLLKDLQRELGMAVLFITHDL  215 (539)
T ss_pred             CCCEEEECCCccccCH--------H----HHHHHHHHHHHHHHHcCcEEEEEcCCH
Confidence            6888888888776432        1    124899999999999999999999954

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=98.64  E-value=1.5e-06  Score=76.73  Aligned_cols=164  Identities=15%  Similarity=0.123  Sum_probs=90.1

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEe---cCC
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYAR---AYT  202 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~---~~~  202 (352)
                      ...+.|+|+||+|||+++.+++             ++.++++.+..  ..++      .+.      .++.+.+   ...
T Consensus        12 ~~~~liyG~~G~GKtt~a~~~~-------------~~~~~~~~d~~--~~~l------~g~------~~~~v~~~d~~~~   64 (220)
T TIGR01618        12 PNMYLIYGKPGTGKTSTIKYLP-------------GKTLVLSFDMS--SKVL------IGD------ENVDIADHDDMPP   64 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHhcC-------------CCCEEEecccc--chhc------cCC------CCCceeecCCCCC
Confidence            3569999999999999998652             35677787764  2111      111      1222222   223


Q ss_pred             HHHHHHHHHHHHHHhhcCCceEEEEcccccchhccc--------CC---CcchHHHHHHHHHHHHHHHHHHHHhCcEEEE
Q 047388          203 YEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDF--------TG---RGELADRQQKLGQMLSRLTKISEEFNVAVYM  271 (352)
Q Consensus       203 ~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~--------~~---~g~~~~r~~~l~~i~~~L~~la~~~~~~viv  271 (352)
                      .+...+.+..+...  ..+++.||||+++.+.+.-+        ++   ....+.   .-..+++.|+.|.. .++.||+
T Consensus        65 ~~~~~d~l~~~~~~--~~~ydtVVIDsI~~l~~~~~~~~~r~~k~~~~~~~~yg~---~~~~fl~~l~~L~~-~g~nII~  138 (220)
T TIGR01618        65 IQAMVEFYVMQNIQ--AVKYDNIVIDNISALQNLWLENIGRAAKNGQPELQHYQK---LDLWFLDLLTVLKE-SNKNIYA  138 (220)
T ss_pred             HHHHHHHHHHHHhc--cccCCEEEEecHHHHHHHHHHHHhhhcCCCCcccccHHH---HHHHHHHHHHHHHh-CCCcEEE
Confidence            34444444433222  24789999999998865210        00   111222   22356666777744 8999999


Q ss_pred             EcccccCCCCCcccCC---CCCCCcch----hhhhccceEEEEEee-cCCeEEEEEEeCC
Q 047388          272 TNQVIADPGGGVFISD---PKKPAGGH----VLAHAVTIRLMFRKG-KGEQRVCKVFDAP  323 (352)
Q Consensus       272 ~~h~~~~~~~~~~~~~---~~~~~gg~----~~~~~~~~~i~L~~~-~~~~R~~~i~Ks~  323 (352)
                      ++|...+.... ..+.   ...|....    .+.-.+|.+..+... +...|.+...-+.
T Consensus       139 tAhe~~~~~~d-e~G~~~~r~~P~i~~K~~n~l~G~~DvV~rl~i~~~~g~R~~~~~~~~  197 (220)
T TIGR01618       139 TAWELTNQSSG-ESGQIYNRYQPDIREKVLNAFLGLTDVVGRIVLNGETGERGFILDPSK  197 (220)
T ss_pred             EEeeccccccC-CCCCCcceechhhhhhHHHhhcccccEEEEEEEccCCCceEEEECCCC
Confidence            99985421110 1111   12344433    455577888877632 2244666544333

This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown.

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=98.64  E-value=3.9e-07  Score=78.47  Aligned_cols=134  Identities=18%  Similarity=0.185  Sum_probs=68.8

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAY  201 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~  201 (352)
                      -+++|+++.|.|++|+|||||+..++..  .++    ..+ .++++.+.......-....+..++-+++... ..+....
T Consensus        22 ~i~~G~~~~i~G~nGsGKSTLl~~l~G~--~~~----~~G-~i~~~g~~~~~~~~~~~~~~~i~~~~q~~~~-~~~~~~~   93 (182)
T cd03215          22 EVRAGEIVGIAGLVGNGQTELAEALFGL--RPP----ASG-EITLDGKPVTRRSPRDAIRAGIAYVPEDRKR-EGLVLDL   93 (182)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCC--CCC----CCc-eEEECCEECCccCHHHHHhCCeEEecCCccc-CcccCCC
Confidence            5789999999999999999999966543  222    233 3455554321110001111122322211000 0011111


Q ss_pred             CHHHHHHHH--------H--HHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEE
Q 047388          202 TYEHQYNLL--------L--GLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYM  271 (352)
Q Consensus       202 ~~~~~~~~l--------~--~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv  271 (352)
                      +..+.....        .  .+.+.+ -.+++++++|+.++-+..        ..+    ..+.+.|+++++ .+.++|+
T Consensus        94 t~~e~l~~~~~LS~G~~qrl~la~al-~~~p~llllDEP~~~LD~--------~~~----~~l~~~l~~~~~-~~~tiii  159 (182)
T cd03215          94 SVAENIALSSLLSGGNQQKVVLARWL-ARDPRVLILDEPTRGVDV--------GAK----AEIYRLIRELAD-AGKAVLL  159 (182)
T ss_pred             cHHHHHHHHhhcCHHHHHHHHHHHHH-ccCCCEEEECCCCcCCCH--------HHH----HHHHHHHHHHHH-CCCEEEE
Confidence            122211110        0  111122 137899999998876532        222    256667777765 4889999


Q ss_pred             Eccccc
Q 047388          272 TNQVIA  277 (352)
Q Consensus       272 ~~h~~~  277 (352)
                      ++|-..
T Consensus       160 ~sh~~~  165 (182)
T cd03215         160 ISSELD  165 (182)
T ss_pred             EeCCHH
Confidence            988653

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. In members of Carb_Monos family the single hydrophobic gene product forms a homodimer, while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>PRK11308 dppF dipeptide transporter ATP-binding subunit; Provisional

Probab=98.64  E-value=2.6e-07  Score=86.94  Aligned_cols=45  Identities=11%  Similarity=0.287  Sum_probs=34.9

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +++++|+|+.++.+..        ..+    .++++.|+++.++.+.++|+++|-..
T Consensus       172 ~P~lLilDEPts~LD~--------~~~----~~i~~lL~~l~~~~g~til~iTHdl~  216 (327)
T PRK11308        172 DPDVVVADEPVSALDV--------SVQ----AQVLNLMMDLQQELGLSYVFISHDLS  216 (327)
T ss_pred             CCCEEEEECCCccCCH--------HHH----HHHHHHHHHHHHHcCCEEEEEeCCHH
Confidence            7899999998877532        222    37888888998888999999999543

>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=98.63  E-value=4.5e-07  Score=80.48  Aligned_cols=45  Identities=18%  Similarity=0.328  Sum_probs=33.4

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +++++++|+.++-+..        ..+    ..+.+.|++++++++.+||+++|-..
T Consensus       149 ~p~llllDEPt~~LD~--------~~~----~~l~~~l~~~~~~~~~tvi~~tH~~~  193 (220)
T cd03265         149 RPEVLFLDEPTIGLDP--------QTR----AHVWEYIEKLKEEFGMTILLTTHYME  193 (220)
T ss_pred             CCCEEEEcCCccCCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence            7899999998876432        112    36777788888777899999999543

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.

>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=98.63  E-value=5.2e-07  Score=79.60  Aligned_cols=27  Identities=22%  Similarity=0.313  Sum_probs=24.3

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|||||||+..++.
T Consensus        23 ~i~~G~~~~i~G~nGsGKSTLl~~l~G   49 (214)
T cd03292          23 SISAGEFVFLVGPSGAGKSTLLKLIYK   49 (214)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhc
Confidence            478999999999999999999997764

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>COG0444 DppD ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=98.63  E-value=1.8e-07  Score=85.57  Aligned_cols=43  Identities=23%  Similarity=0.278  Sum_probs=32.4

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQV  275 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~  275 (352)
                      +|+++|-|+.+..+..            ....++++.|+++.+++|.++|+++|-
T Consensus       171 ~P~LlIADEPTTALDv------------t~QaqIl~Ll~~l~~e~~~aiilITHD  213 (316)
T COG0444         171 NPKLLIADEPTTALDV------------TVQAQILDLLKELQREKGTALILITHD  213 (316)
T ss_pred             CCCEEEeCCCcchhhH------------HHHHHHHHHHHHHHHhcCCEEEEEeCC
Confidence            5677777776655321            123589999999999999999999993

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=98.63  E-value=9e-08  Score=86.07  Aligned_cols=59  Identities=12%  Similarity=0.201  Sum_probs=41.6

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +++++++|+.++-+..        ..+    ..+...|++++++.+.+||+++|-..                  .+...
T Consensus       154 ~p~llllDEP~~~LD~--------~~~----~~l~~~l~~~~~~~~~tvii~sH~~~------------------~~~~~  203 (239)
T cd03296         154 EPKVLLLDEPFGALDA--------KVR----KELRRWLRRLHDELHVTTVFVTHDQE------------------EALEV  203 (239)
T ss_pred             CCCEEEEcCCcccCCH--------HHH----HHHHHHHHHHHHHcCCEEEEEeCCHH------------------HHHHh
Confidence            7899999998876532        222    26777788888777899999998653                  13455


Q ss_pred             cceEEEEEe
Q 047388          301 VTIRLMFRK  309 (352)
Q Consensus       301 ~~~~i~L~~  309 (352)
                      +|.++.|..
T Consensus       204 ~d~i~~l~~  212 (239)
T cd03296         204 ADRVVVMNK  212 (239)
T ss_pred             CCEEEEEEC
Confidence            677777754

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.

>cd03294 ABC_Pro_Gly_Bertaine This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea

Probab=98.63  E-value=1.2e-07  Score=86.89  Aligned_cols=60  Identities=10%  Similarity=0.143  Sum_probs=42.4

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhh
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAH  299 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~  299 (352)
                      .+++++++|+.++-+..        ..+    ..+.+.|++++++.+.+||+++|-..                  .+..
T Consensus       177 ~~p~illLDEPt~~LD~--------~~~----~~l~~~l~~~~~~~g~tiii~tH~~~------------------~~~~  226 (269)
T cd03294         177 VDPDILLMDEAFSALDP--------LIR----REMQDELLRLQAELQKTIVFITHDLD------------------EALR  226 (269)
T ss_pred             cCCCEEEEcCCCccCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEeCCHH------------------HHHH
Confidence            37899999998876432        222    36777788887777899999999653                  1355


Q ss_pred             ccceEEEEEe
Q 047388          300 AVTIRLMFRK  309 (352)
Q Consensus       300 ~~~~~i~L~~  309 (352)
                      .+|.++.|..
T Consensus       227 ~~d~v~~l~~  236 (269)
T cd03294         227 LGDRIAIMKD  236 (269)
T ss_pred             hcCEEEEEEC
Confidence            6777777764

This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporters is the obligatory coupling of ATP hydrolysis to substrate translocation. 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.

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=98.62  E-value=5e-07  Score=80.61  Aligned_cols=45  Identities=9%  Similarity=0.131  Sum_probs=33.8

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +++++++|+.+.-+..        ..+    ..+...|++++++++.+||+++|-..
T Consensus       164 ~p~llllDEPt~~LD~--------~~~----~~l~~~l~~~~~~~~~tii~~sH~~~  208 (228)
T PRK10584        164 RPDVLFADEPTGNLDR--------QTG----DKIADLLFSLNREHGTTLILVTHDLQ  208 (228)
T ss_pred             CCCEEEEeCCCCCCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEecCHH
Confidence            7899999998876431        222    36777788888777999999998653

>PRK13646 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.62  E-value=1.4e-07  Score=87.15  Aligned_cols=45  Identities=11%  Similarity=0.208  Sum_probs=33.7

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +|+++++|+.++-+..        ..+    ..+.+.|+++.++.+.|||+++|-..
T Consensus       163 ~p~illlDEPt~~LD~--------~~~----~~l~~~l~~l~~~~g~tvl~vtH~~~  207 (286)
T PRK13646        163 NPDIIVLDEPTAGLDP--------QSK----RQVMRLLKSLQTDENKTIILVSHDMN  207 (286)
T ss_pred             CCCEEEEECCcccCCH--------HHH----HHHHHHHHHHHHhCCCEEEEEecCHH
Confidence            7899999998876532        222    26777788887777999999999654

>COG4172 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]

Probab=98.62  E-value=8.4e-07  Score=83.08  Aligned_cols=61  Identities=15%  Similarity=0.248  Sum_probs=46.1

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhh
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAH  299 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~  299 (352)
                      .+|++|++|+.++.+..        +    ...+++..|+.|-+++|.+-++++|--+                  .+..
T Consensus       443 LkP~~i~LDEPTSALD~--------S----VQaQvv~LLr~LQ~k~~LsYLFISHDL~------------------VvrA  492 (534)
T COG4172         443 LKPELILLDEPTSALDR--------S----VQAQVLDLLRDLQQKHGLSYLFISHDLA------------------VVRA  492 (534)
T ss_pred             cCCcEEEecCCchHhhH--------H----HHHHHHHHHHHHHHHhCCeEEEEeccHH------------------HHHH
Confidence            37999999998876421        1    2258999999999999999999999554                  2455


Q ss_pred             ccceEEEEEee
Q 047388          300 AVTIRLMFRKG  310 (352)
Q Consensus       300 ~~~~~i~L~~~  310 (352)
                      .++.+|.++.+
T Consensus       493 l~~~viVm~~G  503 (534)
T COG4172         493 LCHRVIVMRDG  503 (534)
T ss_pred             hhceEEEEeCC
Confidence            67777777653

>TIGR03265 PhnT2 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein

Probab=98.62  E-value=5.4e-08  Score=92.46  Aligned_cols=45  Identities=13%  Similarity=0.249  Sum_probs=33.5

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +|+++++|+..+-+.        ...|    .++...|+++.++.++|+|+++|-..
T Consensus       152 ~P~llLLDEP~s~LD--------~~~r----~~l~~~L~~l~~~~~~tvi~vTHd~~  196 (353)
T TIGR03265       152 SPGLLLLDEPLSALD--------ARVR----EHLRTEIRQLQRRLGVTTIMVTHDQE  196 (353)
T ss_pred             CCCEEEEcCCcccCC--------HHHH----HHHHHHHHHHHHhcCCEEEEEcCCHH
Confidence            789999998776542        1222    26777788888888999999999443

This ABC transporter ATP-binding protein is found in a number of genomes in operon-like contexts strongly suggesting a substrate specificity for 2-aminoethylphosphonate (2-AEP). The characterized PhnSTUV system is absent in the genomes in which this system is found. These genomes encode systems for the catabolism of 2-AEP, making the need for a 2-AEP-specific transporter likely.

>COG4604 CeuD ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.62  E-value=3.9e-07  Score=77.47  Aligned_cols=42  Identities=26%  Similarity=0.293  Sum_probs=31.7

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      -+|+|.+|.|.||+|+|||||+.-++.-  .+     ...+.++++.-+
T Consensus        23 ~i~~g~iTs~IGPNGAGKSTLLS~~sRL--~~-----~d~G~i~i~g~~   64 (252)
T COG4604          23 DIPKGGITSIIGPNGAGKSTLLSMMSRL--LK-----KDSGEITIDGLE   64 (252)
T ss_pred             eecCCceeEEECCCCccHHHHHHHHHHh--cc-----ccCceEEEeeee
Confidence            5899999999999999999999854433  33     345567777543

>COG4555 NatA ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]

Probab=98.62  E-value=6e-07  Score=76.62  Aligned_cols=42  Identities=31%  Similarity=0.413  Sum_probs=31.6

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      -.+.|+++.|.|++|+||||++.-++. .+.|      ..++++++.-+
T Consensus        24 ~ae~Gei~GlLG~NGAGKTT~LRmiat-lL~P------~~G~v~idg~d   65 (245)
T COG4555          24 EAEEGEITGLLGENGAGKTTLLRMIAT-LLIP------DSGKVTIDGVD   65 (245)
T ss_pred             EeccceEEEEEcCCCCCchhHHHHHHH-hccC------CCceEEEeecc
Confidence            467899999999999999999996654 4443      34566776544

>PRK13548 hmuV hemin importer ATP-binding subunit; Provisional

Probab=98.62  E-value=2.5e-07  Score=84.17  Aligned_cols=46  Identities=20%  Similarity=0.294  Sum_probs=33.5

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      .+++++++|+.++-+..        ..+    ..+...|++++++.+.+||+++|-..
T Consensus       157 ~~p~lllLDEPt~~LD~--------~~~----~~l~~~l~~~~~~~~~tiii~sH~~~  202 (258)
T PRK13548        157 GPPRWLLLDEPTSALDL--------AHQ----HHVLRLARQLAHERGLAVIVVLHDLN  202 (258)
T ss_pred             CCCCEEEEeCCcccCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEECCHH
Confidence            47899999998876532        222    26777788887567899999999654

>PRK13647 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.62  E-value=1.5e-07  Score=86.47  Aligned_cols=44  Identities=9%  Similarity=0.258  Sum_probs=32.8

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +|+++++|+.++.+..        ..+    .++.+.|++++++ |.|||+++|-..
T Consensus       156 ~p~llllDEPt~~LD~--------~~~----~~l~~~l~~~~~~-g~tili~tH~~~  199 (274)
T PRK13647        156 DPDVIVLDEPMAYLDP--------RGQ----ETLMEILDRLHNQ-GKTVIVATHDVD  199 (274)
T ss_pred             CCCEEEEECCCcCCCH--------HHH----HHHHHHHHHHHHC-CCEEEEEeCCHH
Confidence            7999999998877532        222    3677778888765 899999999654

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=98.61  E-value=3e-07  Score=79.88  Aligned_cols=127  Identities=15%  Similarity=0.125  Sum_probs=68.5

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAY  201 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~  201 (352)
                      -+.+|+++.|.|++|+|||||+..++.....++    . .+.++++.+.. .    .......++.++.    ..++...
T Consensus        29 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~----~-~G~i~~~g~~~-~----~~~~~~i~~~~q~----~~~~~~~   94 (192)
T cd03232          29 YVKPGTLTALMGESGAGKTTLLDVLAGRKTAGV----I-TGEILINGRPL-D----KNFQRSTGYVEQQ----DVHSPNL   94 (192)
T ss_pred             EEeCCcEEEEECCCCCCHHHHHHHHhCCCcCCC----c-ceEEEECCEeh-H----HHhhhceEEeccc----CccccCC
Confidence            578999999999999999999997764322111    2 23455655432 1    1111223322211    0111111


Q ss_pred             CHHHHHHHH-------------HHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcE
Q 047388          202 TYEHQYNLL-------------LGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVA  268 (352)
Q Consensus       202 ~~~~~~~~l-------------~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~  268 (352)
                      +..+.....             -.+.+.+. .+++++++|+.++-+..        ..+    ..+...|+++++ .+.+
T Consensus        95 tv~~~l~~~~~~~~LSgGe~qrv~la~al~-~~p~vlllDEP~~~LD~--------~~~----~~l~~~l~~~~~-~~~t  160 (192)
T cd03232          95 TVREALRFSALLRGLSVEQRKRLTIGVELA-AKPSILFLDEPTSGLDS--------QAA----YNIVRFLKKLAD-SGQA  160 (192)
T ss_pred             cHHHHHHHHHHHhcCCHHHhHHHHHHHHHh-cCCcEEEEeCCCcCCCH--------HHH----HHHHHHHHHHHH-cCCE
Confidence            111111110             00111221 37899999998876532        222    266667777765 4899


Q ss_pred             EEEEcccc
Q 047388          269 VYMTNQVI  276 (352)
Q Consensus       269 viv~~h~~  276 (352)
                      ||+++|-.
T Consensus       161 iiivtH~~  168 (192)
T cd03232         161 ILCTIHQP  168 (192)
T ss_pred             EEEEEcCC
Confidence            99998864

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.

>PRK13637 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.61  E-value=1.5e-07  Score=87.01  Aligned_cols=45  Identities=18%  Similarity=0.439  Sum_probs=34.0

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +|+++++|+.++-+..        ..+    .++...|++++++.+.|||+++|-..
T Consensus       162 ~P~llllDEPt~gLD~--------~~~----~~l~~~l~~l~~~~g~tvi~vtHd~~  206 (287)
T PRK13637        162 EPKILILDEPTAGLDP--------KGR----DEILNKIKELHKEYNMTIILVSHSME  206 (287)
T ss_pred             CCCEEEEECCccCCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence            7899999998876532        222    36777788888877999999999654

>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional

Probab=98.61  E-value=4.8e-08  Score=88.85  Aligned_cols=45  Identities=13%  Similarity=0.235  Sum_probs=33.6

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +++++++|+.++-+..        ..+    ..+.+.|++++++.+.+||+++|-..
T Consensus       151 ~p~lllLDEPt~~LD~--------~~~----~~l~~~L~~~~~~~~~tviivsHd~~  195 (257)
T PRK11247        151 RPGLLLLDEPLGALDA--------LTR----IEMQDLIESLWQQHGFTVLLVTHDVS  195 (257)
T ss_pred             CCCEEEEeCCCCCCCH--------HHH----HHHHHHHHHHHHHcCCEEEEEeCCHH
Confidence            7899999998876431        222    36777788887777999999999654

>PRK10908 cell division protein FtsE; Provisional

Probab=98.61  E-value=1.5e-06  Score=77.29  Aligned_cols=27  Identities=22%  Similarity=0.405  Sum_probs=24.3

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+.+|+++.|.|++|+|||||+..++.
T Consensus        24 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G   50 (222)
T PRK10908         24 HMRPGEMAFLTGHSGAGKSTLLKLICG   50 (222)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999999999997653

>PRK11144 modC molybdate transporter ATP-binding protein; Provisional

Probab=98.61  E-value=6.3e-08  Score=92.10  Aligned_cols=44  Identities=18%  Similarity=0.435  Sum_probs=33.2

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                      +++++++|+.++-+..        ..|    ..+...|++++++.+.++|+++|-.
T Consensus       146 ~p~llLLDEPts~LD~--------~~~----~~l~~~L~~l~~~~g~tii~vTHd~  189 (352)
T PRK11144        146 APELLLMDEPLASLDL--------PRK----RELLPYLERLAREINIPILYVSHSL  189 (352)
T ss_pred             CCCEEEEcCCcccCCH--------HHH----HHHHHHHHHHHHhcCCeEEEEecCH
Confidence            7899999998766421        222    2677778888888899999999954

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=98.61  E-value=7.1e-08  Score=85.15  Aligned_cols=27  Identities=19%  Similarity=0.318  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|+|||||+..++.
T Consensus        21 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G   47 (213)
T cd03235          21 EVKPGEFLAIVGPNGAGKSTLLKAILG   47 (213)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHcC
Confidence            578999999999999999999996654

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.

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=98.61  E-value=4.9e-07  Score=72.96  Aligned_cols=124  Identities=24%  Similarity=0.156  Sum_probs=67.1

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCCHHH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEH  205 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~~  205 (352)
                      +..+.|+||||+|||+++..++.....      ....++|++.+...................          .......
T Consensus         2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~~   65 (148)
T smart00382        2 GEVILIVGPPGSGKTTLARALARELGP------PGGGVIYIDGEDILEEVLDQLLLIIVGGKK----------ASGSGEL   65 (148)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhccCC------CCCCEEEECCEEccccCHHHHHhhhhhccC----------CCCCHHH
Confidence            678999999999999999998876554      224699999887644332221100000000          0111111


Q ss_pred             HHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccc
Q 047388          206 QYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQV  275 (352)
Q Consensus       206 ~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~  275 (352)
                         ....+...+....+.+++||++..+......       ...........+.......+..+|++++.
T Consensus        66 ---~~~~~~~~~~~~~~~viiiDei~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~i~~~~~  125 (148)
T smart00382       66 ---RLRLALALARKLKPDVLILDEITSLLDAEQE-------ALLLLLEELRLLLLLKSEKNLTVILTTND  125 (148)
T ss_pred             ---HHHHHHHHHHhcCCCEEEEECCcccCCHHHH-------HHHHhhhhhHHHHHHHhcCCCEEEEEeCC
Confidence               1122233333445799999999988542110       00000000123344445567888887774

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.

>PRK11607 potG putrescine transporter ATP-binding subunit; Provisional

Probab=98.61  E-value=8.1e-08  Score=91.96  Aligned_cols=44  Identities=20%  Similarity=0.235  Sum_probs=32.2

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                      +|+++++|+..+-+.        ...|    ..+...|+++.++.++++|+++|-.
T Consensus       167 ~P~lLLLDEP~s~LD--------~~~r----~~l~~~l~~l~~~~g~tii~vTHd~  210 (377)
T PRK11607        167 RPKLLLLDEPMGALD--------KKLR----DRMQLEVVDILERVGVTCVMVTHDQ  210 (377)
T ss_pred             CCCEEEEeCCcccCC--------HHHH----HHHHHHHHHHHHhcCCEEEEEcCCH
Confidence            789999998776542        1222    2566677788888899999999943

>PRK11300 livG leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=98.60  E-value=8.3e-07  Score=80.58  Aligned_cols=59  Identities=12%  Similarity=0.185  Sum_probs=42.2

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +|+++++|+.++-+..        ..+    ..+.+.|++++++.+++||+++|-..                  .+...
T Consensus       171 ~p~llllDEPt~~LD~--------~~~----~~l~~~L~~~~~~~~~tii~~sH~~~------------------~~~~~  220 (255)
T PRK11300        171 QPEILMLDEPAAGLNP--------KET----KELDELIAELRNEHNVTVLLIEHDMK------------------LVMGI  220 (255)
T ss_pred             CCCEEEEcCCccCCCH--------HHH----HHHHHHHHHHHhhcCCEEEEEeCCHH------------------HHHHh
Confidence            7999999998876432        222    26777788887777899999999654                  13456


Q ss_pred             cceEEEEEe
Q 047388          301 VTIRLMFRK  309 (352)
Q Consensus       301 ~~~~i~L~~  309 (352)
                      +|.++.|..
T Consensus       221 ~d~i~~l~~  229 (255)
T PRK11300        221 SDRIYVVNQ  229 (255)
T ss_pred             CCEEEEEEC
Confidence            677777764

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=98.60  E-value=6.7e-07  Score=78.63  Aligned_cols=27  Identities=22%  Similarity=0.273  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|+|||||+..++.
T Consensus        22 ~i~~G~~~~i~G~nGsGKSTLl~~l~G   48 (208)
T cd03268          22 HVKKGEIYGFLGPNGAGKTTTMKIILG   48 (208)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhC
Confidence            477999999999999999999997754

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.

>PRK13648 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.60  E-value=2.5e-07  Score=84.76  Aligned_cols=45  Identities=16%  Similarity=0.334  Sum_probs=33.0

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +++++++|+.++-+..        ..+    ..+.+.|++++++.+.+||+++|-..
T Consensus       160 ~p~lllLDEPt~~LD~--------~~~----~~l~~~L~~~~~~~~~tiiivtH~~~  204 (269)
T PRK13648        160 NPSVIILDEATSMLDP--------DAR----QNLLDLVRKVKSEHNITIISITHDLS  204 (269)
T ss_pred             CCCEEEEeCCcccCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEecCch
Confidence            7899999998876532        222    26677778887767899999998643

>PRK11000 maltose/maltodextrin transporter ATP-binding protein; Provisional

Probab=98.60  E-value=8.5e-08  Score=91.74  Aligned_cols=44  Identities=11%  Similarity=0.174  Sum_probs=33.2

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                      +++++++|+.++-+..        ..|    ..+...|++++++.+.++|+++|-.
T Consensus       151 ~P~lLLLDEPts~LD~--------~~~----~~l~~~L~~l~~~~g~tvI~vTHd~  194 (369)
T PRK11000        151 EPSVFLLDEPLSNLDA--------ALR----VQMRIEISRLHKRLGRTMIYVTHDQ  194 (369)
T ss_pred             CCCEEEEeCCcccCCH--------HHH----HHHHHHHHHHHHHhCCEEEEEeCCH
Confidence            7999999998776432        222    2677778888888899999999954

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=98.60  E-value=5.3e-07  Score=79.59  Aligned_cols=27  Identities=30%  Similarity=0.250  Sum_probs=24.3

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|+|||||+..++.
T Consensus        24 ~i~~G~~~~l~G~nGsGKSTLl~~i~G   50 (214)
T TIGR02673        24 HIRKGEFLFLTGPSGAGKTTLLKLLYG   50 (214)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            578999999999999999999996654

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.

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=98.59  E-value=4.3e-07  Score=77.88  Aligned_cols=129  Identities=14%  Similarity=0.152  Sum_probs=69.7

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcc-------cccc
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPG-------AVLD  193 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~-------~~~~  193 (352)
                      --+++|+++.|.|++|+|||||+..++...  ++    ..+. ++++.... .. ......+..++-++       .+.+
T Consensus        23 ~~i~~Ge~~~i~G~nGsGKStLl~~l~G~~--~~----~~G~-i~~~g~~~-~~-~~~~~~~~i~~~~q~~~~~~~tv~~   93 (178)
T cd03247          23 LELKQGEKIALLGRSGSGKSTLLQLLTGDL--KP----QQGE-ITLDGVPV-SD-LEKALSSLISVLNQRPYLFDTTLRN   93 (178)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhccC--CC----CCCE-EEECCEEH-HH-HHHHHHhhEEEEccCCeeecccHHH
Confidence            357899999999999999999999776543  22    2344 45555421 11 01112222333221       1112


Q ss_pred             cEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEc
Q 047388          194 NIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTN  273 (352)
Q Consensus       194 ~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~  273 (352)
                      |+  ....+..+ .+.+. +.+.+. .+++++++|+.++-+..        ..+    ..+.+.|++++ + +.+||+++
T Consensus        94 ~i--~~~LS~G~-~qrv~-laral~-~~p~~lllDEP~~~LD~--------~~~----~~l~~~l~~~~-~-~~tii~~s  154 (178)
T cd03247          94 NL--GRRFSGGE-RQRLA-LARILL-QDAPIVLLDEPTVGLDP--------ITE----RQLLSLIFEVL-K-DKTLIWIT  154 (178)
T ss_pred             hh--cccCCHHH-HHHHH-HHHHHh-cCCCEEEEECCcccCCH--------HHH----HHHHHHHHHHc-C-CCEEEEEe
Confidence            21  11111111 11111 222222 47899999998876432        222    25666677664 3 78999998


Q ss_pred             cccc
Q 047388          274 QVIA  277 (352)
Q Consensus       274 h~~~  277 (352)
                      |-..
T Consensus       155 h~~~  158 (178)
T cd03247         155 HHLT  158 (178)
T ss_pred             cCHH
Confidence            8553

The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=98.59  E-value=1.3e-06  Score=78.99  Aligned_cols=141  Identities=15%  Similarity=0.179  Sum_probs=73.6

Q ss_pred             cCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCC---CCCeEEEEeCCCCC-ChhhHHHHHHH----cCCCc---
Q 047388          120 GGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRG---GNGKVAYIDTEGTF-RPDRIVPIAER----FGMDP---  188 (352)
Q Consensus       120 ~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg---~~~~vl~i~~e~~~-~~~rl~~~~~~----~~~~~---  188 (352)
                      .|=+.+|+++.|.|++|+|||||+..++.  ..++..|.   .+..+.|+...... ....+.+....    .+...   
T Consensus        19 ~~~i~~Ge~~~i~G~NGsGKSTLlk~L~G--~~~p~~G~i~~~g~~i~~~~q~~~~~~~~tv~e~l~~~~~~~~~~~~~~   96 (246)
T cd03237          19 GGSISESEVIGILGPNGIGKTTFIKMLAG--VLKPDEGDIEIELDTVSYKPQYIKADYEGTVRDLLSSITKDFYTHPYFK   96 (246)
T ss_pred             cCCcCCCCEEEEECCCCCCHHHHHHHHhC--CCcCCCCeEEECCceEEEecccccCCCCCCHHHHHHHHhhhccccHHHH
Confidence            35688999999999999999999996653  33333332   11245555433211 11112221111    00000   


Q ss_pred             ccccccEEEE-------ecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHH
Q 047388          189 GAVLDNIIYA-------RAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKI  261 (352)
Q Consensus       189 ~~~~~~i~~~-------~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~l  261 (352)
                      .++++.+.+.       ...+..+ .+.+. +...+ -.+++++++|+.++.+..        ..+    ..+...|+++
T Consensus        97 ~~~l~~l~l~~~~~~~~~~LSgGe-~qrv~-iaraL-~~~p~llllDEPt~~LD~--------~~~----~~l~~~l~~~  161 (246)
T cd03237          97 TEIAKPLQIEQILDREVPELSGGE-LQRVA-IAACL-SKDADIYLLDEPSAYLDV--------EQR----LMASKVIRRF  161 (246)
T ss_pred             HHHHHHcCCHHHhhCChhhCCHHH-HHHHH-HHHHH-hcCCCEEEEeCCcccCCH--------HHH----HHHHHHHHHH
Confidence            0111111000       0011111 11111 11122 137899999998877532        222    2677778888


Q ss_pred             HHHhCcEEEEEccccc
Q 047388          262 SEEFNVAVYMTNQVIA  277 (352)
Q Consensus       262 a~~~~~~viv~~h~~~  277 (352)
                      +++.+.+||+++|-..
T Consensus       162 ~~~~~~tiiivsHd~~  177 (246)
T cd03237         162 AENNEKTAFVVEHDII  177 (246)
T ss_pred             HHhcCCEEEEEeCCHH
Confidence            8878999999999654

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.

>COG4175 ProV ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]

Probab=98.59  E-value=2.7e-07  Score=83.75  Aligned_cols=135  Identities=18%  Similarity=0.298  Sum_probs=79.7

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC--CCh--------hhHHHHHHHcCCCcc-c
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT--FRP--------DRIVPIAERFGMDPG-A  190 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~--~~~--------~rl~~~~~~~~~~~~-~  190 (352)
                      -++.|+|.+|.|=||||||||..  +.|.+..++     .+-+++++++.  .+.        .++...+++|++-|. .
T Consensus        50 ~v~~GeIfViMGLSGSGKSTLvR--~~NrLiept-----~G~ilv~g~di~~~~~~~Lr~~Rr~~~sMVFQ~FaLlPhrt  122 (386)
T COG4175          50 DVEEGEIFVIMGLSGSGKSTLVR--LLNRLIEPT-----RGEILVDGKDIAKLSAAELRELRRKKISMVFQSFALLPHRT  122 (386)
T ss_pred             eecCCeEEEEEecCCCCHHHHHH--HHhccCCCC-----CceEEECCcchhcCCHHHHHHHHhhhhhhhhhhhccccchh
Confidence            47889999999999999999999  556665543     23455565542  122        234445677777663 6


Q ss_pred             ccccEEEEec---CCHHH-HHHHHHHH--------------------------HHHhhcCCceEEEEcccccchhcccCC
Q 047388          191 VLDNIIYARA---YTYEH-QYNLLLGL--------------------------AAKMSEEPFRLLIVDSVIALFRVDFTG  240 (352)
Q Consensus       191 ~~~~i~~~~~---~~~~~-~~~~l~~l--------------------------~~~l~~~~~~lvvIDsl~~l~~~~~~~  240 (352)
                      +++|+.|.-.   .+..+ .....+.+                          .+.+ ..++++++.|+..+.+.+    
T Consensus       123 Vl~Nv~fGLev~Gv~~~er~~~a~~~l~~VgL~~~~~~yp~eLSGGMqQRVGLARAl-a~~~~IlLMDEaFSALDP----  197 (386)
T COG4175         123 VLENVAFGLEVQGVPKAEREERALEALELVGLEGYADKYPNELSGGMQQRVGLARAL-ANDPDILLMDEAFSALDP----  197 (386)
T ss_pred             HhhhhhcceeecCCCHHHHHHHHHHHHHHcCchhhhhcCcccccchHHHHHHHHHHH-ccCCCEEEecCchhhcCh----
Confidence            7777655321   11111 11111111                          1111 126788888875444322    


Q ss_pred             CcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          241 RGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       241 ~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                         +- |    .++-..|.+|-++++.|||+++|--
T Consensus       198 ---LI-R----~~mQdeLl~Lq~~l~KTIvFitHDL  225 (386)
T COG4175         198 ---LI-R----TEMQDELLELQAKLKKTIVFITHDL  225 (386)
T ss_pred             ---HH-H----HHHHHHHHHHHHHhCCeEEEEecCH
Confidence               11 2    2555677888889999999999943

>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=98.58  E-value=6.9e-07  Score=80.11  Aligned_cols=58  Identities=12%  Similarity=0.205  Sum_probs=40.5

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +++++++|+.++-+..        ..+    ..+.+.|+++++ .+.+||+++|-..                  .+...
T Consensus       161 ~p~llllDEPt~~LD~--------~~~----~~l~~~l~~~~~-~~~tii~vsH~~~------------------~~~~~  209 (236)
T cd03219         161 DPKLLLLDEPAAGLNP--------EET----EELAELIRELRE-RGITVLLVEHDMD------------------VVMSL  209 (236)
T ss_pred             CCCEEEEcCCcccCCH--------HHH----HHHHHHHHHHHH-CCCEEEEEecCHH------------------HHHHh
Confidence            7899999998876431        222    266777777776 5899999999553                  13456


Q ss_pred             cceEEEEEe
Q 047388          301 VTIRLMFRK  309 (352)
Q Consensus       301 ~~~~i~L~~  309 (352)
                      +|.++.|..
T Consensus       210 ~d~i~~l~~  218 (236)
T cd03219         210 ADRVTVLDQ  218 (236)
T ss_pred             CCEEEEEeC
Confidence            777777764

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).

>PRK13651 cobalt transporter ATP-binding subunit; Provisional

Probab=98.58  E-value=7.1e-07  Score=83.22  Aligned_cols=27  Identities=30%  Similarity=0.427  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      =+.+|+++.|.|++|+|||||+..++.
T Consensus        29 ~i~~Ge~v~iiG~nGsGKSTLl~~L~G   55 (305)
T PRK13651         29 EINQGEFIAIIGQTGSGKTTFIEHLNA   55 (305)
T ss_pred             EEeCCCEEEEECCCCCcHHHHHHHHhC
Confidence            578999999999999999999996654

>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional

Probab=98.58  E-value=1.2e-07  Score=84.45  Aligned_cols=45  Identities=13%  Similarity=0.214  Sum_probs=33.5

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +++++++|+.++-+..        ..+    ..+.+.|++++++.+.+||+++|-..
T Consensus       155 ~p~llllDEPt~~LD~--------~~~----~~l~~~l~~~~~~~~~tvii~sh~~~  199 (225)
T PRK10247        155 MPKVLLLDEITSALDE--------SNK----HNVNEIIHRYVREQNIAVLWVTHDKD  199 (225)
T ss_pred             CCCEEEEeCCcccCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEECChH
Confidence            7899999998776432        222    36777788888878999999988653

>PRK09536 btuD corrinoid ABC transporter ATPase; Reviewed

Probab=98.58  E-value=1.9e-07  Score=89.97  Aligned_cols=27  Identities=22%  Similarity=0.366  Sum_probs=24.4

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.||+|+|||||+..++.
T Consensus        25 ~i~~Geiv~liGpNGaGKSTLLk~LaG   51 (402)
T PRK09536         25 SVREGSLVGLVGPNGAGKTTLLRAING   51 (402)
T ss_pred             EECCCCEEEEECCCCchHHHHHHHHhc
Confidence            578999999999999999999997654

>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=98.58  E-value=7.7e-07  Score=78.79  Aligned_cols=27  Identities=26%  Similarity=0.367  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|+|||||+..++.
T Consensus        27 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G   53 (218)
T cd03266          27 TVKPGEVTGLLGPNGAGKTTTLRMLAG   53 (218)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhC
Confidence            578999999999999999999996654

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.

>PRK10575 iron-hydroxamate transporter ATP-binding subunit; Provisional

Probab=98.58  E-value=7.1e-07  Score=81.58  Aligned_cols=45  Identities=20%  Similarity=0.276  Sum_probs=33.5

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +++++++|+.++-+..        ..+    ..+...|++++++.+.+||+++|-..
T Consensus       165 ~p~lllLDEPt~~LD~--------~~~----~~~~~~l~~l~~~~~~tiii~sH~~~  209 (265)
T PRK10575        165 DSRCLLLDEPTSALDI--------AHQ----VDVLALVHRLSQERGLTVIAVLHDIN  209 (265)
T ss_pred             CCCEEEEcCCcccCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence            7999999998776431        222    36777788888777899999999643

>TIGR03258 PhnT 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT

Probab=98.57  E-value=1e-07  Score=90.81  Aligned_cols=45  Identities=13%  Similarity=0.259  Sum_probs=33.1

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHh-CcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEF-NVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~-~~~viv~~h~~~  277 (352)
                      +|+++++|+..+-+..        ..|    .++...|+++.+++ ++++|+++|-..
T Consensus       155 ~P~llLLDEP~s~LD~--------~~r----~~l~~~l~~l~~~~~g~til~vTHd~~  200 (362)
T TIGR03258       155 EPDVLLLDEPLSALDA--------NIR----ANMREEIAALHEELPELTILCVTHDQD  200 (362)
T ss_pred             CCCEEEEcCccccCCH--------HHH----HHHHHHHHHHHHhCCCCEEEEEeCCHH
Confidence            7999999987765421        222    36777788888887 899999999543

This ATP-binding component of an ABC transport system is found in Salmonella and Burkholderia lineages in the vicinity of enzymes for the breakdown of 2-aminoethylphosphonate.

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=98.57  E-value=2.7e-07  Score=78.63  Aligned_cols=127  Identities=17%  Similarity=0.204  Sum_probs=68.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAY  201 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~  201 (352)
                      =+++|+++.|.|++|+|||||+..++..  .++    ..+. ++++.+.. .......+.+..++-++.    ..+.. .
T Consensus        24 ~i~~G~~~~l~G~nGsGKstLl~~i~G~--~~~----~~G~-i~~~g~~~-~~~~~~~~~~~i~~~~~~----~~~~~-~   90 (171)
T cd03228          24 TIKPGEKVAIVGPSGSGKSTLLKLLLRL--YDP----TSGE-ILIDGVDL-RDLDLESLRKNIAYVPQD----PFLFS-G   90 (171)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHcC--CCC----CCCE-EEECCEEh-hhcCHHHHHhhEEEEcCC----chhcc-c
Confidence            4789999999999999999999976543  222    2334 45555431 110111122233332211    01111 1


Q ss_pred             CHHH------HHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccc
Q 047388          202 TYEH------QYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQV  275 (352)
Q Consensus       202 ~~~~------~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~  275 (352)
                      +..+      +...+. +.+.+. .+++++++|+.++-+..        ..+    ..+.+.|+++.+  +.++|+++|-
T Consensus        91 t~~e~lLS~G~~~rl~-la~al~-~~p~llllDEP~~gLD~--------~~~----~~l~~~l~~~~~--~~tii~~sh~  154 (171)
T cd03228          91 TIRENILSGGQRQRIA-IARALL-RDPPILILDEATSALDP--------ETE----ALILEALRALAK--GKTVIVIAHR  154 (171)
T ss_pred             hHHHHhhCHHHHHHHH-HHHHHh-cCCCEEEEECCCcCCCH--------HHH----HHHHHHHHHhcC--CCEEEEEecC
Confidence            1111      111111 222222 37899999998876432        222    256666666643  5899999886


Q ss_pred             cc
Q 047388          276 IA  277 (352)
Q Consensus       276 ~~  277 (352)
                      ..
T Consensus       155 ~~  156 (171)
T cd03228         155 LS  156 (171)
T ss_pred             HH
Confidence            54

They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=98.57  E-value=8.1e-07  Score=75.54  Aligned_cols=91  Identities=24%  Similarity=0.231  Sum_probs=53.3

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCCHHHH
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQ  206 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~~~  206 (352)
                      .++.|.|+||||||++|.+++..         .+.+++|++|...++.+...++.....--+    +++..+..+  .++
T Consensus         2 ~~ili~G~~~sGKS~~a~~l~~~---------~~~~~~~iat~~~~~~e~~~ri~~h~~~R~----~~w~t~E~~--~~l   66 (170)
T PRK05800          2 MLILVTGGARSGKSRFAERLAAQ---------SGLQVLYIATAQPFDDEMAARIAHHRQRRP----AHWQTVEEP--LDL   66 (170)
T ss_pred             CEEEEECCCCccHHHHHHHHHHH---------cCCCcEeCcCCCCChHHHHHHHHHHHhcCC----CCCeEeccc--ccH
Confidence            47899999999999999998764         234689999987766542222222111112    222222221  111


Q ss_pred             HHHHHHHHHHhhcCCceEEEEcccccchhcc
Q 047388          207 YNLLLGLAAKMSEEPFRLLIVDSVIALFRVD  237 (352)
Q Consensus       207 ~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~  237 (352)
                      .+.+.   ...  .+.++|+||+++.+....
T Consensus        67 ~~~i~---~~~--~~~~~VlID~Lt~~~~n~   92 (170)
T PRK05800         67 AELLR---ADA--APGRCVLVDCLTTWVTNL   92 (170)
T ss_pred             HHHHH---hhc--CCCCEEEehhHHHHHHHH
Confidence            22111   111  246799999999997643

>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=98.57  E-value=3e-07  Score=81.66  Aligned_cols=27  Identities=30%  Similarity=0.416  Sum_probs=24.0

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|||||||+..++.
T Consensus        22 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G   48 (222)
T cd03224          22 TVPEGEIVALLGRNGAGKTTLLKTIMG   48 (222)
T ss_pred             EEcCCeEEEEECCCCCCHHHHHHHHhC
Confidence            578999999999999999999996643

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.

>TIGR01288 nodI ATP-binding ABC transporter family nodulation protein NodI

Probab=98.57  E-value=7.4e-07  Score=83.09  Aligned_cols=45  Identities=18%  Similarity=0.231  Sum_probs=32.9

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      .+|+++++|+.++-+..        ..+    ..+.+.|+++++ .+.+||+++|-..
T Consensus       152 ~~p~lllLDEPt~gLD~--------~~~----~~l~~~l~~~~~-~g~til~~sH~~~  196 (303)
T TIGR01288       152 NDPQLLILDEPTTGLDP--------HAR----HLIWERLRSLLA-RGKTILLTTHFME  196 (303)
T ss_pred             cCCCEEEEeCCCcCCCH--------HHH----HHHHHHHHHHHh-CCCEEEEECCCHH
Confidence            37999999998877532        222    267777787765 4899999999654

This model does not recognize the highly divergent NodI from Azorhizobium caulinodans.

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.57  E-value=1e-06  Score=76.96  Aligned_cols=27  Identities=22%  Similarity=0.300  Sum_probs=23.8

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      =+.+|+++.|.|++|+|||||+..++.
T Consensus        23 ~i~~Ge~~~l~G~nGsGKSTLl~~i~G   49 (200)
T PRK13540         23 HLPAGGLLHLKGSNGAGKTTLLKLIAG   49 (200)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhc
Confidence            367999999999999999999996654

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=98.56  E-value=6e-07  Score=80.19  Aligned_cols=59  Identities=10%  Similarity=0.097  Sum_probs=41.3

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +++++++|+.++-+..        ..+    ..+.+.|.+++++.+.+||+++|-...                  +...
T Consensus       149 ~p~illlDEPt~~LD~--------~~~----~~l~~~l~~~~~~~~~tii~~sH~~~~------------------~~~~  198 (230)
T TIGR03410       149 RPKLLLLDEPTEGIQP--------SII----KDIGRVIRRLRAEGGMAILLVEQYLDF------------------AREL  198 (230)
T ss_pred             CCCEEEecCCcccCCH--------HHH----HHHHHHHHHHHHcCCcEEEEEeCCHHH------------------HHHh
Confidence            7899999998776431        222    267777788777678999999986541                  3445


Q ss_pred             cceEEEEEe
Q 047388          301 VTIRLMFRK  309 (352)
Q Consensus       301 ~~~~i~L~~  309 (352)
                      +|.++.|..
T Consensus       199 ~d~v~~l~~  207 (230)
T TIGR03410       199 ADRYYVMER  207 (230)
T ss_pred             CCEEEEEEC
Confidence            677777754

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>PRK10771 thiQ thiamine transporter ATP-binding subunit; Provisional

Probab=98.56  E-value=1.8e-07  Score=83.71  Aligned_cols=45  Identities=18%  Similarity=0.341  Sum_probs=33.6

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +++++++|+.++-+..        ..+    ..+.+.|+.++++.+.+||+++|-..
T Consensus       147 ~p~lllLDEP~~gLD~--------~~~----~~~~~~l~~~~~~~~~tiii~sH~~~  191 (232)
T PRK10771        147 EQPILLLDEPFSALDP--------ALR----QEMLTLVSQVCQERQLTLLMVSHSLE  191 (232)
T ss_pred             CCCEEEEeCCcccCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEECCHH
Confidence            7899999998776431        222    26777788887777899999998654

>COG4148 ModC ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.56  E-value=2e-07  Score=83.22  Aligned_cols=141  Identities=23%  Similarity=0.297  Sum_probs=78.5

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCC--CCCeEEEEeCCCCCChh---hHHHHHHHcCCCc-ccccccE
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRG--GNGKVAYIDTEGTFRPD---RIVPIAERFGMDP-GAVLDNI  195 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg--~~~~vl~i~~e~~~~~~---rl~~~~~~~~~~~-~~~~~~i  195 (352)
                      .+|...+|.|+|+||+|||++...++.  +..++.|.  .++.+++-+..+-+-+.   |+...++...+.| ..+..|+
T Consensus        20 ~~p~~GvTAlFG~SGsGKTslin~IaG--L~rPdeG~I~lngr~L~Ds~k~i~lp~~~RriGYVFQDARLFpH~tVrgNL   97 (352)
T COG4148          20 TLPARGITALFGPSGSGKTSLINMIAG--LTRPDEGRIELNGRVLVDAEKGIFLPPEKRRIGYVFQDARLFPHYTVRGNL   97 (352)
T ss_pred             cCCCCceEEEecCCCCChhhHHHHHhc--cCCccccEEEECCEEeecccCCcccChhhheeeeEeeccccccceEEecch
Confidence            344447999999999999999995543  33333332  24555443333322221   2222222222222 2455666


Q ss_pred             EEEecCC-HHHHHH---HH------HHHH--------------HHhhcCCceEEEEcccccchhcccCCCcchHHHHHHH
Q 047388          196 IYARAYT-YEHQYN---LL------LGLA--------------AKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKL  251 (352)
Q Consensus       196 ~~~~~~~-~~~~~~---~l------~~l~--------------~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l  251 (352)
                      .|..-+. ..++..   ++      .+..              +.+ -..|+++..|+.-+-+        ++..+    
T Consensus        98 ~YG~~~~~~~~fd~iv~lLGI~hLL~R~P~~LSGGEkQRVAIGRAL-Lt~P~LLLmDEPLaSL--------D~~RK----  164 (352)
T COG4148          98 RYGMWKSMRAQFDQLVALLGIEHLLDRYPGTLSGGEKQRVAIGRAL-LTAPELLLMDEPLASL--------DLPRK----  164 (352)
T ss_pred             hhhhcccchHhHHHHHHHhCcHHHHhhCCCccCcchhhHHHHHHHH-hcCCCeeeecCchhhc--------ccchh----
Confidence            6654332 222222   11      1111              111 1268999999754432        12222    


Q ss_pred             HHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          252 GQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       252 ~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      .+++-.|.++.++.+++|+.++|...
T Consensus       165 ~EilpylERL~~e~~IPIlYVSHS~~  190 (352)
T COG4148         165 REILPYLERLRDEINIPILYVSHSLD  190 (352)
T ss_pred             hHHHHHHHHHHHhcCCCEEEEecCHH
Confidence            38888999999999999999999765

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

Probab=98.56  E-value=1.3e-07  Score=76.43  Aligned_cols=123  Identities=22%  Similarity=0.275  Sum_probs=75.7

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChh-hHHHHHHHcCCCcccccccEEEEecCC
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPD-RIVPIAERFGMDPGAVLDNIIYARAYT  202 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~-rl~~~~~~~~~~~~~~~~~i~~~~~~~  202 (352)
                      +.+.++.|.|++|+|||+++.+++.......... ...+++|++......+. -...+++.++.....         ..+
T Consensus         2 ~~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~---------~~~   71 (131)
T PF13401_consen    2 QSQRILVISGPPGSGKTTLIKRLARQLNAEAEIK-NHPDVIYVNCPSSRTPRDFAQEILEALGLPLKS---------RQT   71 (131)
T ss_dssp             -----EEEEE-TTSSHHHHHHHHHHHHHHHHHHC-CCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSS---------TS-
T ss_pred             CCCcccEEEcCCCCCHHHHHHHHHHHhHHhhhcc-CCCcEEEEEeCCCCCHHHHHHHHHHHhCccccc---------cCC
Confidence            3567899999999999999999988754200000 15678888765543333 344566667665421         122


Q ss_pred             HHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccc
Q 047388          203 YEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQV  275 (352)
Q Consensus       203 ~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~  275 (352)
                      ..   ++...+.+.+.+.+..+||||++..+.    +            ..++..|+.+..+.++.+|++.+.
T Consensus        72 ~~---~l~~~~~~~l~~~~~~~lviDe~~~l~----~------------~~~l~~l~~l~~~~~~~vvl~G~~  125 (131)
T PF13401_consen   72 SD---ELRSLLIDALDRRRVVLLVIDEADHLF----S------------DEFLEFLRSLLNESNIKVVLVGTP  125 (131)
T ss_dssp             HH---HHHHHHHHHHHHCTEEEEEEETTHHHH----T------------HHHHHHHHHHTCSCBEEEEEEESS
T ss_pred             HH---HHHHHHHHHHHhcCCeEEEEeChHhcC----C------------HHHHHHHHHHHhCCCCeEEEEECh
Confidence            23   333445556666666899999998763    0            256677788888899999988664

>PRK11831 putative ABC transporter ATP-binding protein YrbF; Provisional

Probab=98.55  E-value=7.2e-07  Score=81.73  Aligned_cols=44  Identities=9%  Similarity=0.181  Sum_probs=32.9

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                      +++++++|+.++-+..        ..+    ..+.+.|++++++.+.+||+++|-.
T Consensus       161 ~p~lllLDEPt~~LD~--------~~~----~~l~~~l~~~~~~~g~tiiivsH~~  204 (269)
T PRK11831        161 EPDLIMFDEPFVGQDP--------ITM----GVLVKLISELNSALGVTCVVVSHDV  204 (269)
T ss_pred             CCCEEEEcCCCccCCH--------HHH----HHHHHHHHHHHHhcCcEEEEEecCH
Confidence            7899999998776432        222    3677778888777789999999954

>TIGR02142 modC_ABC molybdenum ABC transporter, ATP-binding protein

Probab=98.55  E-value=1.3e-07  Score=89.94  Aligned_cols=45  Identities=20%  Similarity=0.411  Sum_probs=33.9

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +++++++|+.++-+..        ..+    ..+...|++++++.+.+||+++|-..
T Consensus       149 ~p~lllLDEPts~LD~--------~~~----~~l~~~L~~l~~~~g~tiiivtH~~~  193 (354)
T TIGR02142       149 SPRLLLMDEPLAALDD--------PRK----YEILPYLERLHAEFGIPILYVSHSLQ  193 (354)
T ss_pred             CCCEEEEcCCCcCCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEecCHH
Confidence            7899999998776432        222    26777888888888999999999543

This model represents the ATP-binding cassette (ABC) protein of the three subunit molybdate ABC transporter. The three proteins of this complex are homologous to proteins of the sulfate ABC transporter. Molybdenum may be used in nitrogenases of nitrogen-fixing bacteria and in molybdopterin cofactors. In some cases, molybdate may be transported by a sulfate transporter rather than by a specific molybdate transporter.

>PRK13638 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.55  E-value=3.2e-07  Score=84.13  Aligned_cols=27  Identities=22%  Similarity=0.249  Sum_probs=24.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+.+|+++.|.|++|+|||||+..++.
T Consensus        23 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G   49 (271)
T PRK13638         23 DFSLSPVTGLVGANGCGKSTLFMNLSG   49 (271)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHcC
Confidence            578999999999999999999996654

>PRK13642 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.55  E-value=2.9e-07  Score=84.73  Aligned_cols=45  Identities=13%  Similarity=0.349  Sum_probs=33.8

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +++++++|+.++-+..        ..+    ..+...|++++++++.+||+++|-..
T Consensus       158 ~p~llllDEPt~~LD~--------~~~----~~l~~~l~~l~~~~g~tiil~sH~~~  202 (277)
T PRK13642        158 RPEIIILDESTSMLDP--------TGR----QEIMRVIHEIKEKYQLTVLSITHDLD  202 (277)
T ss_pred             CCCEEEEeCCcccCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence            7899999998776432        222    36777888888878999999998654

>PRK09984 phosphonate/organophosphate ester transporter subunit; Provisional

Probab=98.55  E-value=1.1e-06  Score=80.27  Aligned_cols=45  Identities=16%  Similarity=0.254  Sum_probs=33.6

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +|+++++|+.++-+..        ..+    ..+.+.|++++++.+.+||+++|-..
T Consensus       170 ~p~llllDEPt~~LD~--------~~~----~~l~~~l~~~~~~~g~tvii~tH~~~  214 (262)
T PRK09984        170 QAKVILADEPIASLDP--------ESA----RIVMDTLRDINQNDGITVVVTLHQVD  214 (262)
T ss_pred             CCCEEEecCccccCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence            7899999998876432        222    36777788888777899999988654

>PRK15079 oligopeptide ABC transporter ATP-binding protein OppF; Provisional

Probab=98.55  E-value=3.8e-07  Score=85.95  Aligned_cols=45  Identities=18%  Similarity=0.351  Sum_probs=34.2

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +++++|+|+.++.+..        ..+    .++++.|+++.++++.++|+++|-..
T Consensus       179 ~P~llilDEPts~LD~--------~~~----~~i~~lL~~l~~~~~~til~iTHdl~  223 (331)
T PRK15079        179 EPKLIICDEPVSALDV--------SIQ----AQVVNLLQQLQREMGLSLIFIAHDLA  223 (331)
T ss_pred             CCCEEEEeCCCccCCH--------HHH----HHHHHHHHHHHHHcCCEEEEEeCCHH
Confidence            7899999998876532        222    37778888888888999999999543

>PRK13632 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.55  E-value=3.6e-07  Score=83.80  Aligned_cols=29  Identities=24%  Similarity=0.288  Sum_probs=25.2

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      --+.+|+++.|.|++|+|||||+..++..
T Consensus        30 l~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl   58 (271)
T PRK13632         30 FEINEGEYVAILGHNGSGKSTISKILTGL   58 (271)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            46789999999999999999999966543

>PRK13639 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.54  E-value=2.8e-07  Score=84.67  Aligned_cols=28  Identities=21%  Similarity=0.208  Sum_probs=24.7

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      --+.+|+++.|.|++|+|||||+..++.
T Consensus        23 l~i~~Ge~~~l~G~nGsGKSTLl~~i~G   50 (275)
T PRK13639         23 FKAEKGEMVALLGPNGAGKSTLFLHFNG   50 (275)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            3578999999999999999999996654

>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=98.54  E-value=7.5e-07  Score=74.68  Aligned_cols=121  Identities=20%  Similarity=0.217  Sum_probs=70.0

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAY  201 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~  201 (352)
                      -+++|+++.|.|++|+|||||+..++..  .+     ...+.++++.+.... .......           ..+.+....
T Consensus        21 ~i~~g~~~~i~G~nGsGKStll~~l~g~--~~-----~~~G~i~~~~~~~~~-~~~~~~~-----------~~i~~~~ql   81 (157)
T cd00267          21 TLKAGEIVALVGPNGSGKSTLLRAIAGL--LK-----PTSGEILIDGKDIAK-LPLEELR-----------RRIGYVPQL   81 (157)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCC--CC-----CCccEEEECCEEccc-CCHHHHH-----------hceEEEeeC
Confidence            4678999999999999999999976543  22     223445666653211 1111111           122222223


Q ss_pred             CHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          202 TYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       202 ~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +..+.. .+. +...+. .+++++++|+++.-+..        ..+    ..+.+.|+.+.+. +.++|+++|-..
T Consensus        82 S~G~~~-r~~-l~~~l~-~~~~i~ilDEp~~~lD~--------~~~----~~l~~~l~~~~~~-~~tii~~sh~~~  141 (157)
T cd00267          82 SGGQRQ-RVA-LARALL-LNPDLLLLDEPTSGLDP--------ASR----ERLLELLRELAEE-GRTVIIVTHDPE  141 (157)
T ss_pred             CHHHHH-HHH-HHHHHh-cCCCEEEEeCCCcCCCH--------HHH----HHHHHHHHHHHHC-CCEEEEEeCCHH
Confidence            333222 122 222222 36899999998876431        222    2566667776654 789999999765

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.

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=98.54  E-value=5.1e-07  Score=78.93  Aligned_cols=134  Identities=15%  Similarity=0.082  Sum_probs=69.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHH-HHcCCCccc--------cc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIA-ERFGMDPGA--------VL  192 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~-~~~~~~~~~--------~~  192 (352)
                      -+.+|+++.|.|++|+|||||+..++.....++    ..+. ++++.+...... ..... ...++-++.        +.
T Consensus        22 ~i~~Ge~~~i~G~nGsGKStLl~~l~G~~~~~p----~~G~-i~~~g~~~~~~~-~~~~~~~~i~~v~q~~~~~~~~~~~   95 (200)
T cd03217          22 TIKKGEVHALMGPNGSGKSTLAKTIMGHPKYEV----TEGE-ILFKGEDITDLP-PEERARLGIFLAFQYPPEIPGVKNA   95 (200)
T ss_pred             EECCCcEEEEECCCCCCHHHHHHHHhCCCcCCC----CccE-EEECCEECCcCC-HHHHhhCcEEEeecChhhccCccHH
Confidence            467999999999999999999997765421121    2334 455554321100 01111 112222211        00


Q ss_pred             ccEEEE-ecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEE
Q 047388          193 DNIIYA-RAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYM  271 (352)
Q Consensus       193 ~~i~~~-~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv  271 (352)
                      +++... ...+..+ ...+. +.+.+. .+++++++|+.+.-+..        ..+    ..+...|+++++ .+.+||+
T Consensus        96 ~~l~~~~~~LS~G~-~qrv~-laral~-~~p~illlDEPt~~LD~--------~~~----~~l~~~L~~~~~-~~~tiii  159 (200)
T cd03217          96 DFLRYVNEGFSGGE-KKRNE-ILQLLL-LEPDLAILDEPDSGLDI--------DAL----RLVAEVINKLRE-EGKSVLI  159 (200)
T ss_pred             HHHhhccccCCHHH-HHHHH-HHHHHh-cCCCEEEEeCCCccCCH--------HHH----HHHHHHHHHHHH-CCCEEEE
Confidence            111000 1111111 11111 112221 37899999998876432        222    266777777765 4889999


Q ss_pred             Eccccc
Q 047388          272 TNQVIA  277 (352)
Q Consensus       272 ~~h~~~  277 (352)
                      ++|-..
T Consensus       160 ~sh~~~  165 (200)
T cd03217         160 ITHYQR  165 (200)
T ss_pred             EecCHH
Confidence            988653

Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under stressful conditions. The SUF system is made of six proteins: SufC is an atypical cytoplasmic ABC-ATPase, which forms a complex with SufB and SufD; SufA plays the role of a scaffold protein for assembly of iron-sulfur clusters and delivery to target proteins; SufS is a cysteine desulfurase which mobilizes the sulfur atom from cysteine and provides it to the cluster; SufE has no associated function yet.

>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.54  E-value=3.5e-07  Score=82.38  Aligned_cols=59  Identities=10%  Similarity=0.141  Sum_probs=41.6

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +++++++|+.++-+..        ..+    ..+...|++++++.+.+||+++|-..                  .+...
T Consensus       149 ~p~llllDEPt~~LD~--------~~~----~~l~~~l~~~~~~~g~tii~~sH~~~------------------~~~~~  198 (241)
T PRK14250        149 NPEVLLLDEPTSALDP--------TST----EIIEELIVKLKNKMNLTVIWITHNME------------------QAKRI  198 (241)
T ss_pred             CCCEEEEeCCcccCCH--------HHH----HHHHHHHHHHHHhCCCEEEEEeccHH------------------HHHHh
Confidence            7899999998876432        122    26777788887767899999999654                  13456


Q ss_pred             cceEEEEEe
Q 047388          301 VTIRLMFRK  309 (352)
Q Consensus       301 ~~~~i~L~~  309 (352)
                      +|.++.|..
T Consensus       199 ~d~i~~l~~  207 (241)
T PRK14250        199 GDYTAFLNK  207 (241)
T ss_pred             CCEEEEEeC
Confidence            677777764

>PRK13644 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.54  E-value=4.2e-07  Score=83.50  Aligned_cols=27  Identities=33%  Similarity=0.335  Sum_probs=24.4

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      =+++|+++.|.|++|+|||||+..++.
T Consensus        24 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G   50 (274)
T PRK13644         24 VIKKGEYIGIIGKNGSGKSTLALHLNG   50 (274)
T ss_pred             EEeCCCEEEEECCCCCCHHHHHHHHhc
Confidence            478999999999999999999997764

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=98.54  E-value=6.6e-07  Score=77.86  Aligned_cols=130  Identities=15%  Similarity=0.200  Sum_probs=68.4

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcc--------cccc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPG--------AVLD  193 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~--------~~~~  193 (352)
                      -+.+|+++.|.|++|+|||||+..++.....++    ..+. ++++.+.. ...   ...+..++-++        .+.+
T Consensus        31 ~i~~Ge~~~l~G~nGsGKStLl~~i~Gl~~~~~----~~G~-i~~~g~~~-~~~---~~~~~i~~~~q~~~~~~~~t~~~  101 (194)
T cd03213          31 KAKPGELTAIMGPSGAGKSTLLNALAGRRTGLG----VSGE-VLINGRPL-DKR---SFRKIIGYVPQDDILHPTLTVRE  101 (194)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCC----CceE-EEECCEeC-chH---hhhheEEEccCcccCCCCCcHHH
Confidence            478999999999999999999997754320021    2333 45555432 111   11222332221        1111


Q ss_pred             cEEEEe---cCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEE
Q 047388          194 NIIYAR---AYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVY  270 (352)
Q Consensus       194 ~i~~~~---~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~vi  270 (352)
                      ++.+..   ..+..+ ...+. +.+.+. .+++++++|+.++-+..        ..+    ..+.+.|+++.++ +.++|
T Consensus       102 ~i~~~~~~~~LS~G~-~qrv~-laral~-~~p~illlDEP~~~LD~--------~~~----~~l~~~l~~~~~~-~~tii  165 (194)
T cd03213         102 TLMFAAKLRGLSGGE-RKRVS-IALELV-SNPSLLFLDEPTSGLDS--------SSA----LQVMSLLRRLADT-GRTII  165 (194)
T ss_pred             HHHHHHHhccCCHHH-HHHHH-HHHHHH-cCCCEEEEeCCCcCCCH--------HHH----HHHHHHHHHHHhC-CCEEE
Confidence            111000   011111 11111 112222 37899999998876431        222    2566667776554 89999


Q ss_pred             EEcccc
Q 047388          271 MTNQVI  276 (352)
Q Consensus       271 v~~h~~  276 (352)
                      +++|-.
T Consensus       166 i~sh~~  171 (194)
T cd03213         166 CSIHQP  171 (194)
T ss_pred             EEecCc
Confidence            998854

DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.

>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=98.54  E-value=8.8e-07  Score=79.20  Aligned_cols=27  Identities=22%  Similarity=0.295  Sum_probs=24.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+.+|+++.|.|++|+|||||+..++.
T Consensus        22 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G   48 (232)
T cd03218          22 SVKQGEIVGLLGPNGAGKTTTFYMIVG   48 (232)
T ss_pred             EecCCcEEEEECCCCCCHHHHHHHHhC
Confidence            477999999999999999999997654

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.

>PRK10253 iron-enterobactin transporter ATP-binding protein; Provisional

Probab=98.54  E-value=1.1e-06  Score=80.23  Aligned_cols=45  Identities=9%  Similarity=0.194  Sum_probs=33.1

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +++++++|+.+.-+..        ..+    ..+.+.|.+++++.+.+||+++|-..
T Consensus       161 ~p~llllDEPt~gLD~--------~~~----~~l~~~L~~l~~~~~~tiii~tH~~~  205 (265)
T PRK10253        161 ETAIMLLDEPTTWLDI--------SHQ----IDLLELLSELNREKGYTLAAVLHDLN  205 (265)
T ss_pred             CCCEEEEeCccccCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence            7899999998776431        222    26777788887767899999988654

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=98.53  E-value=6.7e-07  Score=80.27  Aligned_cols=45  Identities=13%  Similarity=0.272  Sum_probs=33.4

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +++++++|+.++-+..        ..+    ..+.+.|++++++.+.+||+++|-..
T Consensus       150 ~p~llllDEP~~~LD~--------~~~----~~l~~~l~~~~~~~~~tiii~sH~~~  194 (236)
T TIGR03864       150 RPALLLLDEPTVGLDP--------ASR----AAIVAHVRALCRDQGLSVLWATHLVD  194 (236)
T ss_pred             CCCEEEEcCCccCCCH--------HHH----HHHHHHHHHHHHhCCCEEEEEecChh
Confidence            7899999998776432        222    36777788887767899999999654

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.

>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein

Probab=98.53  E-value=1.3e-07  Score=83.46  Aligned_cols=45  Identities=18%  Similarity=0.316  Sum_probs=33.8

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +++++++|+.++-+..        ..+    ..+...|+++.++.+.+||+++|-..
T Consensus       146 ~p~llllDEPt~~LD~--------~~~----~~~~~~l~~~~~~~~~tii~vsh~~~  190 (213)
T TIGR01277       146 PNPILLLDEPFSALDP--------LLR----EEMLALVKQLCSERQRTLLMVTHHLS  190 (213)
T ss_pred             CCCEEEEcCCCccCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence            7899999998876532        122    36777788887777899999998654

This model describes the energy-transducing ATPase subunit ThiQ of the ThiBPQ thiamine (and thiamine pyrophosphate) ABC transporter in several Proteobacteria. This protein is found so far only in Proteobacteria, and is found in complete genomes only if the ThiB and ThiP subunits are also found.

>COG0411 LivG ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]

Probab=98.53  E-value=2.2e-07  Score=81.60  Aligned_cols=60  Identities=10%  Similarity=0.165  Sum_probs=44.5

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +|+++++|+..+-+.+        .+    ..++...++++.++.+++|+++-|-.+-                  +...
T Consensus       167 ~P~lLLLDEPaAGln~--------~e----~~~l~~~i~~i~~~~g~tillIEHdM~~------------------Vm~l  216 (250)
T COG0411         167 QPKLLLLDEPAAGLNP--------EE----TEELAELIRELRDRGGVTILLIEHDMKL------------------VMGL  216 (250)
T ss_pred             CCCEEEecCccCCCCH--------HH----HHHHHHHHHHHHhcCCcEEEEEEeccHH------------------Hhhh
Confidence            7999999998876542        22    3478888888888889999999997652                  3456


Q ss_pred             cceEEEEEee
Q 047388          301 VTIRLMFRKG  310 (352)
Q Consensus       301 ~~~~i~L~~~  310 (352)
                      ||.++.|..+
T Consensus       217 ~dri~Vl~~G  226 (250)
T COG0411         217 ADRIVVLNYG  226 (250)
T ss_pred             ccEEEeccCC
Confidence            6666666654

>COG4598 HisP ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]

Probab=98.53  E-value=1.1e-06  Score=73.63  Aligned_cols=149  Identities=17%  Similarity=0.291  Sum_probs=84.8

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC------------CCChhhHHHHHHHcCCCc--
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG------------TFRPDRIVPIAERFGMDP--  188 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~------------~~~~~rl~~~~~~~~~~~--  188 (352)
                      -..|+++.|.|.||||||||+.  |.|.+..+..|     .+.+..|.            ..+...+..+..++++-+  
T Consensus        29 A~~GdVisIIGsSGSGKSTfLR--CiN~LE~P~~G-----~I~v~geei~~k~~~~G~l~~ad~~q~~r~Rs~L~mVFQ~  101 (256)
T COG4598          29 ANAGDVISIIGSSGSGKSTFLR--CINFLEKPSAG-----SIRVNGEEIRLKRDKDGQLKPADKRQLQRLRTRLGMVFQH  101 (256)
T ss_pred             cCCCCEEEEecCCCCchhHHHH--HHHhhcCCCCc-----eEEECCeEEEeeeCCCCCeeeCCHHHHHHHHHHhhHhhhh
Confidence            3579999999999999999999  66777654433     33333331            233444444444444322  


Q ss_pred             ------ccccccEEEEec-----CCH---HHHHHHHHH-----------------------HHHHhhcCCceEEEEcccc
Q 047388          189 ------GAVLDNIIYARA-----YTY---EHQYNLLLG-----------------------LAAKMSEEPFRLLIVDSVI  231 (352)
Q Consensus       189 ------~~~~~~i~~~~~-----~~~---~~~~~~l~~-----------------------l~~~l~~~~~~lvvIDsl~  231 (352)
                            ..+++|+.-.+.     ...   +....++.+                       +.+.+ ...|+++.+|..+
T Consensus       102 FNLWsHmtvLeNViEaPvhVLg~~k~ea~e~Ae~~L~kVGi~ek~~~YP~~LSGGQQQR~aIARaL-ameP~vmLFDEPT  180 (256)
T COG4598         102 FNLWSHMTVLENVIEAPVHVLGVSKAEAIERAEKYLAKVGIAEKADAYPAHLSGGQQQRVAIARAL-AMEPEVMLFDEPT  180 (256)
T ss_pred             cchhHHHHHHHHHHhcchHhhcCCHHHHHHHHHHHHHHhCchhhhhcCccccCchHHHHHHHHHHH-hcCCceEeecCCc
Confidence                  233444321111     000   001111111                       11111 1268899999988


Q ss_pred             cchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEee
Q 047388          232 ALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKG  310 (352)
Q Consensus       232 ~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~  310 (352)
                      +.+.+++            +.+++..+..||++ |-|.++++|-..      |            -.+.++.+++|.++
T Consensus       181 SALDPEl------------VgEVLkv~~~LAeE-grTMv~VTHEM~------F------------AR~Vss~v~fLh~G  228 (256)
T COG4598         181 SALDPEL------------VGEVLKVMQDLAEE-GRTMVVVTHEMG------F------------ARDVSSHVIFLHQG  228 (256)
T ss_pred             ccCCHHH------------HHHHHHHHHHHHHh-CCeEEEEeeehh------H------------HHhhhhheEEeecc
Confidence            8765533            45888889999987 667777777543      1            24456667777764

>TIGR02323 CP_lyasePhnK phosphonate C-P lyase system protein PhnK

Probab=98.52  E-value=1.8e-06  Score=78.29  Aligned_cols=45  Identities=18%  Similarity=0.301  Sum_probs=33.5

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +++++++|+.++-+..        ..+    ..+...|++++++.+.+||+++|-..
T Consensus       166 ~p~vlllDEP~~~LD~--------~~~----~~l~~~l~~~~~~~~~tii~vsH~~~  210 (253)
T TIGR02323       166 RPRLVFMDEPTGGLDV--------SVQ----ARLLDLLRGLVRDLGLAVIIVTHDLG  210 (253)
T ss_pred             CCCEEEEcCCCccCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence            7899999998776432        222    26777778887777999999999653

Members of this family are the PhnK 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 complex. This protein (PhnK) and the adjacent-encoded PhnL resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this complex rather than part of a transporter per se.

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=98.52  E-value=1.1e-06  Score=77.24  Aligned_cols=27  Identities=26%  Similarity=0.334  Sum_probs=24.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+.+|+++.|.|++|||||||+..++.
T Consensus        22 ~i~~G~~~~i~G~nGsGKSTLl~~l~G   48 (210)
T cd03269          22 SVEKGEIFGLLGPNGAGKTTTIRMILG   48 (210)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhC
Confidence            367999999999999999999997664

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.

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

Probab=98.51  E-value=1.7e-06  Score=79.08  Aligned_cols=124  Identities=15%  Similarity=0.161  Sum_probs=82.2

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHH-HHHHHcCCCcccccccEEEEecCCHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIV-PIAERFGMDPGAVLDNIIYARAYTYEHQ  206 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~-~~~~~~~~~~~~~~~~i~~~~~~~~~~~  206 (352)
                      ..+|+|+++.|||+++..++..-....+.++..-+|+++..-...+..++. .++..++....         ...+..  
T Consensus        63 ~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lgaP~~---------~~~~~~--  131 (302)
T PF05621_consen   63 NLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEALGAPYR---------PRDRVA--  131 (302)
T ss_pred             ceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHHhCcccC---------CCCCHH--
Confidence            489999999999999999987543222222234579999876554444443 45566665431         111122  


Q ss_pred             HHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEc
Q 047388          207 YNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTN  273 (352)
Q Consensus       207 ~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~  273 (352)
                       ..-.++...+...+++++|||++..+...      ... +   ..++++.||.|+.++++++|.+.
T Consensus       132 -~~~~~~~~llr~~~vrmLIIDE~H~lLaG------s~~-~---qr~~Ln~LK~L~NeL~ipiV~vG  187 (302)
T PF05621_consen  132 -KLEQQVLRLLRRLGVRMLIIDEFHNLLAG------SYR-K---QREFLNALKFLGNELQIPIVGVG  187 (302)
T ss_pred             -HHHHHHHHHHHHcCCcEEEeechHHHhcc------cHH-H---HHHHHHHHHHHhhccCCCeEEec
Confidence             22233345666779999999999887542      111 1   24899999999999999999874

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

>PRK10070 glycine betaine transporter ATP-binding subunit; Provisional

Probab=98.51  E-value=1.1e-06  Score=84.59  Aligned_cols=45  Identities=13%  Similarity=0.233  Sum_probs=33.3

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +++++++|+.++-+..        ..|    ..+.+.|++++++.+.+||+++|-..
T Consensus       182 ~P~iLLLDEPts~LD~--------~~r----~~l~~~L~~l~~~~g~TIIivTHd~~  226 (400)
T PRK10070        182 NPDILLMDEAFSALDP--------LIR----TEMQDELVKLQAKHQRTIVFISHDLD  226 (400)
T ss_pred             CCCEEEEECCCccCCH--------HHH----HHHHHHHHHHHHHCCCeEEEEECCHH
Confidence            7899999998776432        222    26777788887778999999999543

>PRK09493 glnQ glutamine ABC transporter ATP-binding protein; Reviewed

Probab=98.51  E-value=1.1e-06  Score=79.14  Aligned_cols=28  Identities=25%  Similarity=0.377  Sum_probs=24.8

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+.+|+++.|.|++|+|||||+..++..
T Consensus        23 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G~   50 (240)
T PRK09493         23 NIDQGEVVVIIGPSGSGKSTLLRCINKL   50 (240)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999999999977653

>PRK10418 nikD nickel transporter ATP-binding protein NikD; Provisional

Probab=98.51  E-value=3e-06  Score=76.92  Aligned_cols=46  Identities=13%  Similarity=0.215  Sum_probs=34.1

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      .+++++++|+.++-+..        ..+    ..+...|++++++.+.+||+++|-..
T Consensus       157 ~~p~lLlLDEPt~~LD~--------~~~----~~l~~~L~~~~~~~g~til~~sH~~~  202 (254)
T PRK10418        157 CEAPFIIADEPTTDLDV--------VAQ----ARILDLLESIVQKRALGMLLVTHDMG  202 (254)
T ss_pred             cCCCEEEEeCCCcccCH--------HHH----HHHHHHHHHHHHhcCcEEEEEecCHH
Confidence            37899999998876431        222    26777788888777999999999654

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=98.51  E-value=1.1e-07  Score=83.50  Aligned_cols=27  Identities=33%  Similarity=0.398  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|+|||||+..++.
T Consensus        22 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G   48 (205)
T cd03226          22 DLYAGEIIALTGKNGAGKTTLAKILAG   48 (205)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhc
Confidence            478999999999999999999996654

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.

>PRK13547 hmuV hemin importer ATP-binding subunit; Provisional

Probab=98.51  E-value=8.1e-07  Score=81.46  Aligned_cols=60  Identities=18%  Similarity=0.318  Sum_probs=41.9

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhh
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAH  299 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~  299 (352)
                      .+++++++|+.++-+..        ..+    ..+...|.+++++++.+||+++|-..                  .+..
T Consensus       171 ~~p~lllLDEPt~~LD~--------~~~----~~l~~~l~~~~~~~~~tviiisH~~~------------------~~~~  220 (272)
T PRK13547        171 QPPRYLLLDEPTAALDL--------AHQ----HRLLDTVRRLARDWNLGVLAIVHDPN------------------LAAR  220 (272)
T ss_pred             CCCCEEEEcCccccCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEECCHH------------------HHHH
Confidence            37999999998776432        222    26777788887777899999998543                  1345


Q ss_pred             ccceEEEEEe
Q 047388          300 AVTIRLMFRK  309 (352)
Q Consensus       300 ~~~~~i~L~~  309 (352)
                      .+|..+.|..
T Consensus       221 ~~d~i~~l~~  230 (272)
T PRK13547        221 HADRIAMLAD  230 (272)
T ss_pred             hCCEEEEEEC
Confidence            6677777764

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=98.51  E-value=3.7e-07  Score=80.19  Aligned_cols=28  Identities=21%  Similarity=0.296  Sum_probs=24.7

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++|+++.|.|++|+|||||+..++..
T Consensus        30 ~i~~G~~~~i~G~nGsGKSTLl~~l~Gl   57 (207)
T cd03369          30 KVKAGEKIGIVGRTGAGKSTLILALFRF   57 (207)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            4789999999999999999999977543

NFT1 belongs to the MRP (mulrtidrug resisitance-associated protein) family of ABC transporters. Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions such as glutathione, glucuronate, and sulfate.

>TIGR03771 anch_rpt_ABC anchored repeat-type ABC transporter, ATP-binding subunit

Probab=98.50  E-value=2.3e-06  Score=76.11  Aligned_cols=26  Identities=23%  Similarity=0.354  Sum_probs=23.5

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      +.+|+++.|.|++|+|||||+..++.
T Consensus         3 i~~Ge~~~l~G~nGsGKSTLl~~l~G   28 (223)
T TIGR03771         3 ADKGELLGLLGPNGAGKTTLLRAILG   28 (223)
T ss_pred             cCCCcEEEEECCCCCCHHHHHHHHhC
Confidence            67899999999999999999997654

This protein family is the ATP-binding cassette subunit of binding protein-dependent ABC transporter complex that strictly co-occurs with TIGR03769. TIGRFAMs model TIGR03769 describes a protein domain that occurs singly or as one of up to three repeats in proteins of a number of Actinobacteria, including Propionibacterium acnes KPA171202. The TIGR03769 domain occurs both in an adjacent gene for the substrate-binding protein and in additional (often nearby) proteins, often with LPXTG-like sortase recognition signals. Homologous ATP-binding subunits outside the scope of this family include manganese transporter MntA in Synechocystis sp. PCC 6803 and chelated iron transporter subunits. The function of this transporter complex is unknown.

>TIGR03005 ectoine_ehuA ectoine/hydroxyectoine ABC transporter, ATP-binding protein

Probab=98.50  E-value=1.1e-06  Score=79.72  Aligned_cols=59  Identities=12%  Similarity=0.239  Sum_probs=41.7

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +++++++|+.++-+..        ..+    ..+...|++++++.+.++|+++|-...                  +...
T Consensus       164 ~p~llllDEP~~~LD~--------~~~----~~l~~~l~~~~~~~~~tiiivsH~~~~------------------~~~~  213 (252)
T TIGR03005       164 RPKVMLFDEVTSALDP--------ELV----GEVLNVIRRLASEHDLTMLLVTHEMGF------------------AREF  213 (252)
T ss_pred             CCCEEEEeCCcccCCH--------HHH----HHHHHHHHHHHHhcCcEEEEEeCCHHH------------------HHHh
Confidence            7899999998776431        222    367777888887779999999996531                  3455


Q ss_pred             cceEEEEEe
Q 047388          301 VTIRLMFRK  309 (352)
Q Consensus       301 ~~~~i~L~~  309 (352)
                      +|.++.|..
T Consensus       214 ~d~i~~l~~  222 (252)
T TIGR03005       214 ADRVCFFDK  222 (252)
T ss_pred             cCEEEEEEC
Confidence            677777764

Members of this family are the ATP-binding protein of a conserved four gene ABC transporter operon found next to ectoine unilization operons and ectoine biosynthesis operons. Ectoine is a compatible solute that protects enzymes from high osmolarity. It is released by some species in response to hypoosmotic shock, and it is taken up by a number of bacteria as a compatible solute or for consumption. This family shows strong sequence similiarity to a number of amino acid ABC transporter ATP-binding proteins.

>PRK13645 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.50  E-value=5e-07  Score=83.62  Aligned_cols=45  Identities=9%  Similarity=0.216  Sum_probs=33.7

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +++++++|+.++.+..        ..+    ..+.+.|++++++.+.+||+++|-..
T Consensus       168 ~p~lLlLDEPt~~LD~--------~~~----~~l~~~l~~~~~~~~~tiiiisH~~~  212 (289)
T PRK13645        168 DGNTLVLDEPTGGLDP--------KGE----EDFINLFERLNKEYKKRIIMVTHNMD  212 (289)
T ss_pred             CCCEEEEeCCcccCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEecCHH
Confidence            7899999998877532        222    26777788887777999999999654

>PRK11614 livF leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=98.50  E-value=7.8e-07  Score=79.86  Aligned_cols=28  Identities=39%  Similarity=0.494  Sum_probs=24.5

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      --+.+|+++.|+|++|+|||||+..++.
T Consensus        26 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~G   53 (237)
T PRK11614         26 LHINQGEIVTLIGANGAGKTTLLGTLCG   53 (237)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHHHHHcC
Confidence            3578999999999999999999996653

>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=98.50  E-value=1.3e-06  Score=78.64  Aligned_cols=59  Identities=12%  Similarity=0.200  Sum_probs=41.3

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +++++++|+.++-+..        ..+    ..+.+.|++++++.+.+||+++|-..                  .+...
T Consensus       153 ~p~llllDEPt~~LD~--------~~~----~~l~~~L~~~~~~~g~tvii~sH~~~------------------~~~~~  202 (242)
T cd03295         153 DPPLLLMDEPFGALDP--------ITR----DQLQEEFKRLQQELGKTIVFVTHDID------------------EAFRL  202 (242)
T ss_pred             CCCEEEecCCcccCCH--------HHH----HHHHHHHHHHHHHcCCEEEEEecCHH------------------HHHHh
Confidence            7899999998776431        222    36777788887767899999988653                  13456


Q ss_pred             cceEEEEEe
Q 047388          301 VTIRLMFRK  309 (352)
Q Consensus       301 ~~~~i~L~~  309 (352)
                      +|.++.|..
T Consensus       203 ~d~i~~l~~  211 (242)
T cd03295         203 ADRIAIMKN  211 (242)
T ss_pred             CCEEEEEEC
Confidence            677777764

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.

>TIGR02982 heterocyst_DevA ABC exporter ATP-binding subunit, DevA family

Probab=98.50  E-value=1.7e-06  Score=76.81  Aligned_cols=44  Identities=11%  Similarity=0.194  Sum_probs=33.4

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                      +++++++|+.+..+..        ..+    ..+...|++++++.+.+||+++|-.
T Consensus       159 ~p~illlDEP~~~LD~--------~~~----~~l~~~l~~~~~~~~~tii~~sh~~  202 (220)
T TIGR02982       159 RPKLVLADEPTAALDS--------KSG----RDVVELMQKLAREQGCTILIVTHDN  202 (220)
T ss_pred             CCCEEEEeCCCCcCCH--------HHH----HHHHHHHHHHHHHcCCEEEEEeCCH
Confidence            7899999998876432        222    3677778888777799999999864

Members of this protein family are found mostly in the Cyanobacteria, but also in the Planctomycetes. Cyanobacterial examples are involved in heterocyst formation, by which some fraction of members of the colony undergo a developmental change and become capable of nitrogen fixation. The DevBCA proteins are thought export of either heterocyst-specific glycolipids or an enzyme essential for formation of the laminated layer found in heterocysts.

>PRK13643 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.50  E-value=5.1e-07  Score=83.57  Aligned_cols=28  Identities=29%  Similarity=0.339  Sum_probs=24.9

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -=+++|+++.|.|++|+|||||+..++.
T Consensus        27 l~i~~Ge~v~i~G~nGsGKSTLl~~l~G   54 (288)
T PRK13643         27 LEVKKGSYTALIGHTGSGKSTLLQHLNG   54 (288)
T ss_pred             EEEcCCCEEEEECCCCChHHHHHHHHhc
Confidence            3578999999999999999999997654

>PRK13631 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.49  E-value=7.6e-07  Score=83.54  Aligned_cols=28  Identities=25%  Similarity=0.188  Sum_probs=24.8

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      --+++|+++.|.|++|||||||+..++.
T Consensus        47 l~i~~Ge~~~I~G~nGsGKSTLl~~L~G   74 (320)
T PRK13631         47 YTFEKNKIYFIIGNSGSGKSTLVTHFNG   74 (320)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            3678999999999999999999996653

>PRK09473 oppD oligopeptide transporter ATP-binding component; Provisional

Probab=98.49  E-value=6.8e-07  Score=84.22  Aligned_cols=44  Identities=27%  Similarity=0.437  Sum_probs=33.8

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                      +++++|.|+.++.+..        ..+    ..++..|+++.++++.++|+++|-.
T Consensus       179 ~P~llilDEPts~LD~--------~~~----~~i~~lL~~l~~~~g~til~iTHdl  222 (330)
T PRK09473        179 RPKLLIADEPTTALDV--------TVQ----AQIMTLLNELKREFNTAIIMITHDL  222 (330)
T ss_pred             CCCEEEEeCCCccCCH--------HHH----HHHHHHHHHHHHHcCCEEEEEECCH
Confidence            7899999998876531        222    3778888888888899999999953

>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional

Probab=98.49  E-value=1.1e-06  Score=79.20  Aligned_cols=28  Identities=21%  Similarity=0.256  Sum_probs=24.6

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++|+++.|.|++|+|||||+..++..
T Consensus        25 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G~   52 (241)
T PRK10895         25 TVNSGEIVGLLGPNGAGKTTTFYMVVGI   52 (241)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            4689999999999999999999976643

>TIGR00968 3a0106s01 sulfate ABC transporter, ATP-binding protein

Probab=98.49  E-value=1.6e-07  Score=84.38  Aligned_cols=59  Identities=14%  Similarity=0.210  Sum_probs=41.3

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +++++++|+.+.-+..        ..+    ..+.+.|++++++.+.+||+++|-...                  +..+
T Consensus       148 ~p~llllDEP~~~LD~--------~~~----~~~~~~l~~~~~~~~~tvli~sH~~~~------------------~~~~  197 (237)
T TIGR00968       148 EPQVLLLDEPFGALDA--------KVR----KELRSWLRKLHDEVHVTTVFVTHDQEE------------------AMEV  197 (237)
T ss_pred             CCCEEEEcCCcccCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEeCCHHH------------------HHhh
Confidence            7899999998776432        222    367777888877668999999996541                  3456


Q ss_pred             cceEEEEEe
Q 047388          301 VTIRLMFRK  309 (352)
Q Consensus       301 ~~~~i~L~~  309 (352)
                      +|.++.|..
T Consensus       198 ~d~i~~l~~  206 (237)
T TIGR00968       198 ADRIVVMSN  206 (237)
T ss_pred             cCEEEEEEC
Confidence            676777753

>cd03250 ABCC_MRP_domain1 Domain 1 of the ABC subfamily C

Probab=98.48  E-value=2.3e-07  Score=81.37  Aligned_cols=28  Identities=25%  Similarity=0.345  Sum_probs=24.8

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++|+++.|.|++|+|||||+..++..
T Consensus        27 ~i~~G~~~~i~G~nG~GKSTLl~~i~G~   54 (204)
T cd03250          27 EVPKGELVAIVGPVGSGKSSLLSALLGE   54 (204)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhCc
Confidence            5789999999999999999999976543

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>TIGR03415 ABC_choXWV_ATP choline ABC transporter, ATP-binding protein

Probab=98.48  E-value=1.2e-06  Score=83.84  Aligned_cols=46  Identities=13%  Similarity=0.231  Sum_probs=34.0

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      .+|+++++|+.++-+.+        ..|    .++.+.|.++.++.+.|||+++|-..
T Consensus       181 ~~P~ILLlDEPts~LD~--------~~r----~~l~~~L~~l~~~~~~TII~iTHdl~  226 (382)
T TIGR03415       181 MDADILLMDEPFSALDP--------LIR----TQLQDELLELQAKLNKTIIFVSHDLD  226 (382)
T ss_pred             cCCCEEEEECCCccCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence            37899999988776432        222    26777788888888999999999543

Members of this protein family are the ATP-binding subunit of a three-protein transporter. This family belongs, more broadly, to the family of proline and glycine-betaine transporters, but members have been identified by direct characterization and by bioinformatic means as choline transporters. Many species have several closely-related members of this family, probably with variable abilities to act additionally on related quaternary amines.

>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA

Probab=98.48  E-value=1.8e-06  Score=80.35  Aligned_cols=27  Identities=19%  Similarity=0.255  Sum_probs=24.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.||+|+|||||+..++.
T Consensus        24 ~i~~Gei~~l~G~NGaGKTTLl~~l~G   50 (301)
T TIGR03522        24 EAQKGRIVGFLGPNGAGKSTTMKIITG   50 (301)
T ss_pred             EEeCCeEEEEECCCCCCHHHHHHHHhC
Confidence            578999999999999999999996653

Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldA is an ABC transporter ATP-binding protein (pfam00005) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockouts of GldA abolish the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.

>COG1134 TagH ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]

Probab=98.48  E-value=8.3e-07  Score=78.11  Aligned_cols=154  Identities=18%  Similarity=0.246  Sum_probs=80.7

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCC--CCCeEEE-EeCCCCCChh-----hHHHHHHHcCCCcccccc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRG--GNGKVAY-IDTEGTFRPD-----RIVPIAERFGMDPGAVLD  193 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg--~~~~vl~-i~~e~~~~~~-----rl~~~~~~~~~~~~~~~~  193 (352)
                      -+++|+.+.|.|++|+|||||+.-++  ...+|+.|.  ..+++.+ ++....|.++     -+.....-+|+..+++-+
T Consensus        49 ~i~~Ge~vGiiG~NGaGKSTLlklia--Gi~~Pt~G~v~v~G~v~~li~lg~Gf~pelTGreNi~l~~~~~G~~~~ei~~  126 (249)
T COG1134          49 EIYKGERVGIIGHNGAGKSTLLKLIA--GIYKPTSGKVKVTGKVAPLIELGAGFDPELTGRENIYLRGLILGLTRKEIDE  126 (249)
T ss_pred             EEeCCCEEEEECCCCCcHHHHHHHHh--CccCCCCceEEEcceEehhhhcccCCCcccchHHHHHHHHHHhCccHHHHHH
Confidence            47899999999999999999998443  344444332  1333332 2322333332     111122222332211100


Q ss_pred             cEEEEecCCHHHHHHHHH------------HHH-HHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHH
Q 047388          194 NIIYARAYTYEHQYNLLL------------GLA-AKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTK  260 (352)
Q Consensus       194 ~i~~~~~~~~~~~~~~l~------------~l~-~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~  260 (352)
                      .+.  ......++-+.++            ++. ......+|+++++|+.-+.-..      .      ...+....|.+
T Consensus       127 ~~~--eIieFaELG~fi~~PvktYSSGM~aRLaFsia~~~~pdILllDEvlavGD~------~------F~~K~~~rl~e  192 (249)
T COG1134         127 KVD--EIIEFAELGDFIDQPVKTYSSGMYARLAFSVATHVEPDILLLDEVLAVGDA------A------FQEKCLERLNE  192 (249)
T ss_pred             HHH--HHHHHHHHHHHhhCchhhccHHHHHHHHHhhhhhcCCCEEEEehhhhcCCH------H------HHHHHHHHHHH
Confidence            000  0000000000000            110 0111238999999998776221      1      12366677777


Q ss_pred             HHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEee
Q 047388          261 ISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKG  310 (352)
Q Consensus       261 la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~  310 (352)
                      +.++ +.++|+++|-..                  .+..+||..++|+++
T Consensus       193 ~~~~-~~tiv~VSHd~~------------------~I~~~Cd~~i~l~~G  223 (249)
T COG1134         193 LVEK-NKTIVLVSHDLG------------------AIKQYCDRAIWLEHG  223 (249)
T ss_pred             HHHc-CCEEEEEECCHH------------------HHHHhcCeeEEEeCC
Confidence            7655 588999988553                  368899999999874

>PRK15112 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional

Probab=98.48  E-value=7.9e-07  Score=81.36  Aligned_cols=45  Identities=16%  Similarity=0.322  Sum_probs=33.8

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +++++++|+.++-+..        ..+    ..+.+.|.+++++++.+||+++|-..
T Consensus       167 ~p~lllLDEPt~~LD~--------~~~----~~l~~~l~~~~~~~g~tviivsH~~~  211 (267)
T PRK15112        167 RPKVIIADEALASLDM--------SMR----SQLINLMLELQEKQGISYIYVTQHLG  211 (267)
T ss_pred             CCCEEEEcCCcccCCH--------HHH----HHHHHHHHHHHHHcCcEEEEEeCCHH
Confidence            7899999998876532        222    26777788888777999999998653

>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter

Probab=98.48  E-value=1.9e-06  Score=75.44  Aligned_cols=27  Identities=30%  Similarity=0.334  Sum_probs=23.9

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      =+++|+++.|.|++|+|||||+..++.
T Consensus        22 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G   48 (201)
T cd03231          22 TLAAGEALQVTGPNGSGKTTLLRILAG   48 (201)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            378999999999999999999996654

The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE is a periplasmic heme chaperone that binds heme covalently and transfers it onto apocytochrome c in the presence of CcmF, CcmG, and CcmH. The CcmAB proteins represent an ABC transporter and the CcmCD proteins participate in heme transfer to CcmE.

>cd03299 ABC_ModC_like Archeal protein closely related to ModC

Probab=98.47  E-value=1.4e-07  Score=84.73  Aligned_cols=59  Identities=17%  Similarity=0.231  Sum_probs=41.8

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +++++++|+.++-+..        ..+    ..+...|+.++.+++.++|+++|-..                  .+...
T Consensus       147 ~p~llllDEPt~gLD~--------~~~----~~l~~~l~~~~~~~~~tili~tH~~~------------------~~~~~  196 (235)
T cd03299         147 NPKILLLDEPFSALDV--------RTK----EKLREELKKIRKEFGVTVLHVTHDFE------------------EAWAL  196 (235)
T ss_pred             CCCEEEECCCcccCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEecCHH------------------HHHHh
Confidence            7899999998876432        222    26777788887777999999998543                  13556


Q ss_pred             cceEEEEEe
Q 047388          301 VTIRLMFRK  309 (352)
Q Consensus       301 ~~~~i~L~~  309 (352)
                      +|.++.+..
T Consensus       197 ~d~i~~l~~  205 (235)
T cd03299         197 ADKVAIMLN  205 (235)
T ss_pred             CCEEEEEEC
Confidence            677777764

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. 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.

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=98.47  E-value=5.8e-07  Score=92.13  Aligned_cols=133  Identities=17%  Similarity=0.200  Sum_probs=77.3

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcc-------ccccc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPG-------AVLDN  194 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~-------~~~~~  194 (352)
                      -+++|+.+.|+|+||||||||+.-+.. ...|      ..+-+++|.-+ ...-......+..|+-++       ++.+|
T Consensus       495 ~I~~Ge~vaIvG~SGsGKSTL~KLL~g-ly~p------~~G~I~~dg~d-l~~i~~~~lR~~ig~V~Q~~~Lf~gSI~eN  566 (709)
T COG2274         495 EIPPGEKVAIVGRSGSGKSTLLKLLLG-LYKP------QQGRILLDGVD-LNDIDLASLRRQVGYVLQDPFLFSGSIREN  566 (709)
T ss_pred             EeCCCCEEEEECCCCCCHHHHHHHHhc-CCCC------CCceEEECCEe-HHhcCHHHHHhheeEEcccchhhcCcHHHH
Confidence            689999999999999999999995543 2222      23345555432 112223334444554332       34456


Q ss_pred             EEEEecCCH-HHHHHHHH---------HH-------------------------HHHhhcCCceEEEEcccccchhcccC
Q 047388          195 IIYARAYTY-EHQYNLLL---------GL-------------------------AAKMSEEPFRLLIVDSVIALFRVDFT  239 (352)
Q Consensus       195 i~~~~~~~~-~~~~~~l~---------~l-------------------------~~~l~~~~~~lvvIDsl~~l~~~~~~  239 (352)
                      +....+... ++..+...         ++                         .+.+ -.+|+++++|+.++.+..   
T Consensus       567 i~l~~p~~~~e~i~~A~~~ag~~~fI~~lP~gy~t~v~E~G~~LSGGQrQrlalARaL-l~~P~ILlLDEaTSaLD~---  642 (709)
T COG2274         567 IALGNPEATDEEIIEAAQLAGAHEFIENLPMGYDTPVGEGGANLSGGQRQRLALARAL-LSKPKILLLDEATSALDP---  642 (709)
T ss_pred             HhcCCCCCCHHHHHHHHHHhCcHHHHHhcccccccccccCCCCCCHHHHHHHHHHHHh-ccCCCEEEEeCcccccCH---
Confidence            555544332 33222111         00                         0111 248999999998887532   


Q ss_pred             CCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          240 GRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       240 ~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                          ..++     .+.+.|.++..  |+|+|+++|-..
T Consensus       643 ----~sE~-----~I~~~L~~~~~--~~T~I~IaHRl~  669 (709)
T COG2274         643 ----ETEA-----IILQNLLQILQ--GRTVIIIAHRLS  669 (709)
T ss_pred             ----hHHH-----HHHHHHHHHhc--CCeEEEEEccch
Confidence                2333     67777877754  688888888543

>PRK13641 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.47  E-value=8.6e-07  Score=82.00  Aligned_cols=27  Identities=26%  Similarity=0.432  Sum_probs=24.4

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|+|||||+..++.
T Consensus        29 ~i~~Ge~~~iiG~NGaGKSTLl~~l~G   55 (287)
T PRK13641         29 ELEEGSFVALVGHTGSGKSTLMQHFNA   55 (287)
T ss_pred             EEeCCCEEEEECCCCCCHHHHHHHHhc
Confidence            578999999999999999999997754

>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C

Probab=98.47  E-value=6.9e-07  Score=79.25  Aligned_cols=28  Identities=29%  Similarity=0.328  Sum_probs=24.9

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++|+++.|.|++|+|||||+..++..
T Consensus        26 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~   53 (221)
T cd03244          26 SIKPGEKVGIVGRTGSGKSSLLLALFRL   53 (221)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHHcC
Confidence            5789999999999999999999977643

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminus, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resistance lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.46  E-value=1.8e-06  Score=75.66  Aligned_cols=27  Identities=26%  Similarity=0.362  Sum_probs=24.3

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|+|||||+..++.
T Consensus        23 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G   49 (204)
T PRK13538         23 TLNAGELVQIEGPNGAGKTSLLRILAG   49 (204)
T ss_pred             EECCCcEEEEECCCCCCHHHHHHHHhC
Confidence            578999999999999999999996654

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=98.46  E-value=1.6e-06  Score=75.92  Aligned_cols=28  Identities=21%  Similarity=0.279  Sum_probs=24.6

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++|+++.|.|++|+|||||+..++..
T Consensus        29 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~   56 (202)
T cd03233          29 VVKPGEMVLVLGRPGSGCSTLLKALANR   56 (202)
T ss_pred             EECCCcEEEEECCCCCCHHHHHHHhccc
Confidence            4789999999999999999999966543

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.

>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL

Probab=98.46  E-value=5e-06  Score=73.93  Aligned_cols=27  Identities=22%  Similarity=0.350  Sum_probs=24.0

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      =+.+|+++.|.|++|+|||||+..++.
T Consensus        30 ~i~~Ge~~~l~G~nGsGKSTLl~~i~G   56 (224)
T TIGR02324        30 TVNAGECVALSGPSGAGKSTLLKSLYA   56 (224)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhC
Confidence            467999999999999999999996654

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.

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.46  E-value=2e-06  Score=75.63  Aligned_cols=27  Identities=26%  Similarity=0.250  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|+|||||+..++.
T Consensus        24 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G   50 (207)
T PRK13539         24 TLAAGEALVLTGPNGSGKTTLLRLIAG   50 (207)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            577999999999999999999996654

>PRK10762 D-ribose transporter ATP binding protein; Provisional

Probab=98.46  E-value=1.6e-06  Score=86.60  Aligned_cols=27  Identities=22%  Similarity=0.368  Sum_probs=24.0

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+.+|+++.|.||+|||||||+..++.
T Consensus        26 ~i~~Ge~~~l~G~NGsGKSTLl~~l~G   52 (501)
T PRK10762         26 NVYPGRVMALVGENGAGKSTMMKVLTG   52 (501)
T ss_pred             EEcCCeEEEEECCCCCCHHHHHHHHhC
Confidence            577999999999999999999996654

>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=98.45  E-value=1.6e-06  Score=76.60  Aligned_cols=45  Identities=24%  Similarity=0.369  Sum_probs=33.8

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +|+++++|+.++-+..        ..+    ..+.+.|++++++.+.+||+++|-..
T Consensus       149 ~p~llllDEPt~~LD~--------~~~----~~l~~~l~~~~~~~~~tiii~sH~~~  193 (214)
T cd03297         149 QPELLLLDEPFSALDR--------ALR----LQLLPELKQIKKNLNIPVIFVTHDLS  193 (214)
T ss_pred             CCCEEEEcCCcccCCH--------HHH----HHHHHHHHHHHHHcCcEEEEEecCHH
Confidence            7899999998876431        222    36777888888877899999998654

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.

>TIGR02770 nickel_nikD nickel import ATP-binding protein NikD

Probab=98.45  E-value=6.1e-06  Score=73.75  Aligned_cols=59  Identities=14%  Similarity=0.222  Sum_probs=41.9

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +++++++|+.++-+..        ..+    ..+.+.|++++++.+.+||+++|-...                  +...
T Consensus       143 ~p~vllLDEPt~~LD~--------~~~----~~l~~~l~~~~~~~~~tiii~sH~~~~------------------~~~~  192 (230)
T TIGR02770       143 EPPFLIADEPTTDLDV--------VNQ----ARVLKLLRELRQLFGTGILLITHDLGV------------------VARI  192 (230)
T ss_pred             CCCEEEEcCCccccCH--------HHH----HHHHHHHHHHHHhcCCEEEEEeCCHHH------------------HHHh
Confidence            7899999998876431        222    267777888877778999999996541                  3456


Q ss_pred             cceEEEEEe
Q 047388          301 VTIRLMFRK  309 (352)
Q Consensus       301 ~~~~i~L~~  309 (352)
                      +|.++.|..
T Consensus       193 ~d~i~~l~~  201 (230)
T TIGR02770       193 ADEVAVMDD  201 (230)
T ss_pred             CCEEEEEEC
Confidence            677777764

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.

>PRK10619 histidine/lysine/arginine/ornithine transporter subunit; Provisional

Probab=98.45  E-value=2.5e-06  Score=77.52  Aligned_cols=27  Identities=19%  Similarity=0.340  Sum_probs=24.3

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|+|||||+..++.
T Consensus        27 ~i~~Ge~~~l~G~nGsGKSTLl~~i~G   53 (257)
T PRK10619         27 QANAGDVISIIGSSGSGKSTFLRCINF   53 (257)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            578999999999999999999996654

>TIGR03873 F420-0_ABC_ATP proposed F420-0 ABC transporter, ATP-binding protein

Probab=98.45  E-value=2.6e-06  Score=77.39  Aligned_cols=27  Identities=30%  Similarity=0.366  Sum_probs=24.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+.+|+++.|.|++|+|||||+..++.
T Consensus        23 ~i~~Ge~~~i~G~nGsGKSTLl~~i~G   49 (256)
T TIGR03873        23 TAPPGSLTGLLGPNGSGKSTLLRLLAG   49 (256)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHcC
Confidence            467999999999999999999997654

This small clade of ABC-type transporter ATP-binding protein components is found as a three gene cassette along with a periplasmic substrate-binding protein (TIGR03868) and a permease (TIGR03869). The organisms containing this cassette are all Actinobacteria and all contain numerous genes requiring the coenzyme F420. This model was defined based on five such organisms, four of which are lacking all F420 biosynthetic capability save the final side-chain polyglutamate attachment step (via the gene cofE: TIGR01916). In Jonesia denitrificans DSM 20603 and marine actinobacterium PHSC20C1 this cassette is in an apparent operon with the cofE gene and, in PHSC20C1, also with a F420-dependent glucose-6-phosphate dehydrogenase (TIGR03554). Based on these observations we propose that this ATP-binding protein is a component of an F420-0 (that is, F420 lacking only the polyglutamate tail) transporter.

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=98.45  E-value=2.6e-06  Score=75.50  Aligned_cols=27  Identities=26%  Similarity=0.289  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|+|||||+..++.
T Consensus        24 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G   50 (220)
T cd03263          24 NVYKGEIFGLLGHNGAGKTTTLKMLTG   50 (220)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999999999996654

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.

>cd03267 ABC_NatA_like Similar in sequence to NatA, this is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled to proton or K+ uptake

Probab=98.45  E-value=1.3e-06  Score=78.52  Aligned_cols=59  Identities=15%  Similarity=0.167  Sum_probs=42.0

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +++++++|+.++-+..        ..+    ..+.+.|++++++.+.+||+++|-..                  .+...
T Consensus       171 ~p~llllDEPt~~LD~--------~~~----~~l~~~l~~~~~~~~~tiiivsH~~~------------------~~~~~  220 (236)
T cd03267         171 EPEILFLDEPTIGLDV--------VAQ----ENIRNFLKEYNRERGTTVLLTSHYMK------------------DIEAL  220 (236)
T ss_pred             CCCEEEEcCCCCCCCH--------HHH----HHHHHHHHHHHhcCCCEEEEEecCHH------------------HHHHh
Confidence            7899999998876532        222    36777788887777899999999654                  13556


Q ss_pred             cceEEEEEe
Q 047388          301 VTIRLMFRK  309 (352)
Q Consensus       301 ~~~~i~L~~  309 (352)
                      +|..+.|..
T Consensus       221 ~d~i~~l~~  229 (236)
T cd03267         221 ARRVLVIDK  229 (236)
T ss_pred             CCEEEEEeC
Confidence            677777753

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilis, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of the single ATP-binding protein and the single intergral membrane protein.

>cd03300 ABC_PotA_N PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D

Probab=98.44  E-value=3.9e-07  Score=81.55  Aligned_cols=59  Identities=12%  Similarity=0.204  Sum_probs=41.4

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +++++++|+.+.-+..        ..+    ..+.+.|+.++++.+.+||+++|-...                  +..+
T Consensus       148 ~p~llllDEP~~gLD~--------~~~----~~l~~~l~~~~~~~~~tiii~sh~~~~------------------~~~~  197 (232)
T cd03300         148 EPKVLLLDEPLGALDL--------KLR----KDMQLELKRLQKELGITFVFVTHDQEE------------------ALTM  197 (232)
T ss_pred             CCCEEEEcCCcccCCH--------HHH----HHHHHHHHHHHHHcCCEEEEEeCCHHH------------------HHHh
Confidence            7899999998776431        222    267777788877779999999986541                  3456


Q ss_pred             cceEEEEEe
Q 047388          301 VTIRLMFRK  309 (352)
Q Consensus       301 ~~~~i~L~~  309 (352)
                      +|.++.|..
T Consensus       198 ~d~i~~l~~  206 (232)
T cd03300         198 SDRIAVMNK  206 (232)
T ss_pred             cCEEEEEEC
Confidence            677777764

PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required for homodimerization with PotA and heterdimerization with PotB. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>COG4152 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=98.44  E-value=9.9e-07  Score=77.47  Aligned_cols=41  Identities=20%  Similarity=0.285  Sum_probs=30.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDT  168 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~  168 (352)
                      -+++|++..+.|++|+||||....++ ....|     ..+.+-|...
T Consensus        24 ~v~~G~i~GllG~NGAGKTTtfRmIL-glle~-----~~G~I~~~g~   64 (300)
T COG4152          24 EVPPGEIFGLLGPNGAGKTTTFRMIL-GLLEP-----TEGEITWNGG   64 (300)
T ss_pred             eecCCeEEEeecCCCCCccchHHHHh-ccCCc-----cCceEEEcCc
Confidence            57999999999999999999998554 44443     3445555443

>PRK09700 D-allose transporter ATP-binding protein; Provisional

Probab=98.44  E-value=2.4e-06  Score=85.50  Aligned_cols=58  Identities=9%  Similarity=0.150  Sum_probs=40.9

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +++++++|+.++.+..        ..+    ..+.+.|+.+++ .+.+||+++|-..                  .+...
T Consensus       427 ~p~lLlLDEPt~~LD~--------~~~----~~l~~~l~~l~~-~g~tvi~vsHd~~------------------~~~~~  475 (510)
T PRK09700        427 CPEVIIFDEPTRGIDV--------GAK----AEIYKVMRQLAD-DGKVILMVSSELP------------------EIITV  475 (510)
T ss_pred             CCCEEEECCCCCCcCH--------HHH----HHHHHHHHHHHH-CCCEEEEEcCCHH------------------HHHhh
Confidence            7899999998876532        222    367777777775 4899999999643                  13556


Q ss_pred             cceEEEEEe
Q 047388          301 VTIRLMFRK  309 (352)
Q Consensus       301 ~~~~i~L~~  309 (352)
                      +|.++.|..
T Consensus       476 ~d~i~~l~~  484 (510)
T PRK09700        476 CDRIAVFCE  484 (510)
T ss_pred             CCEEEEEEC
Confidence            787777764

>PRK03695 vitamin B12-transporter ATPase; Provisional

Probab=98.44  E-value=2.8e-06  Score=76.82  Aligned_cols=27  Identities=22%  Similarity=0.348  Sum_probs=24.0

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|+|||||+..++.
T Consensus        18 ~i~~Gei~~l~G~nGsGKSTLl~~l~G   44 (248)
T PRK03695         18 EVRAGEILHLVGPNGAGKSTLLARMAG   44 (248)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHcC
Confidence            377999999999999999999996654

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=98.44  E-value=7.3e-07  Score=89.59  Aligned_cols=128  Identities=18%  Similarity=0.161  Sum_probs=71.6

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCc-------cccccc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDP-------GAVLDN  194 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~-------~~~~~~  194 (352)
                      =+++|+.+.|+|++|||||||+.-++..  .++     ..+.++++..+- ... .....+.+++-+       .++.+|
T Consensus       357 ~i~~G~~vaIvG~SGsGKSTLl~lL~g~--~~p-----~~G~I~i~g~~i-~~~-~~~lr~~i~~V~Q~~~lF~~TI~eN  427 (529)
T TIGR02868       357 DLPPGERVAILGPSGSGKSTLLMLLTGL--LDP-----LQGEVTLDGVSV-SSL-QDELRRRISVFAQDAHLFDTTVRDN  427 (529)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcC--CCC-----CCcEEEECCEEh-hhH-HHHHHhheEEEccCcccccccHHHH
Confidence            4789999999999999999999866533  221     233455655331 122 223333333322       245566


Q ss_pred             EEEEec-CCHHHHHHHHHH-----------------------------------HHHHhhcCCceEEEEcccccchhccc
Q 047388          195 IIYARA-YTYEHQYNLLLG-----------------------------------LAAKMSEEPFRLLIVDSVIALFRVDF  238 (352)
Q Consensus       195 i~~~~~-~~~~~~~~~l~~-----------------------------------l~~~l~~~~~~lvvIDsl~~l~~~~~  238 (352)
                      +.+... .+.++..+.++.                                   .+..+  .+++++++|+.++....+ 
T Consensus       428 I~~g~~~~~~e~i~~al~~a~l~~~i~~lp~GldT~ige~G~~LSGGQrQRiaiARall--~~~~iliLDE~TSaLD~~-  504 (529)
T TIGR02868       428 LRLGRPDATDEELWAALERVGLADWLRSLPDGLDTVLGEGGARLSGGERQRLALARALL--ADAPILLLDEPTEHLDAG-  504 (529)
T ss_pred             HhccCCCCCHHHHHHHHHHcCCHHHHHhCcccccchhccccCcCCHHHHHHHHHHHHHh--cCCCEEEEeCCcccCCHH-
Confidence            655432 222222222111                                   11111  378999999988875321 


Q ss_pred             CCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcc
Q 047388          239 TGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQ  274 (352)
Q Consensus       239 ~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h  274 (352)
                            .+     ..+.+.|.++.  .+.|+|+++|
T Consensus       505 ------te-----~~I~~~l~~~~--~~~TvIiItH  527 (529)
T TIGR02868       505 ------TE-----SELLEDLLAAL--SGKTVVVITH  527 (529)
T ss_pred             ------HH-----HHHHHHHHHhc--CCCEEEEEec
Confidence                  22     25555565542  4789999888

The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.

>PRK15439 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional

Probab=98.43  E-value=2.3e-06  Score=85.60  Aligned_cols=27  Identities=19%  Similarity=0.375  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|+|||||+..++.
T Consensus        33 ~i~~Ge~~~liG~NGsGKSTLl~~l~G   59 (510)
T PRK15439         33 TLHAGEVHALLGGNGAGKSTLMKIIAG   59 (510)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            578999999999999999999996653

>PRK11022 dppD dipeptide transporter ATP-binding subunit; Provisional

Probab=98.43  E-value=9.2e-07  Score=83.21  Aligned_cols=44  Identities=20%  Similarity=0.305  Sum_probs=34.2

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                      +++++|+|+.++.+..        ..+    .++++.|+++.++.+.++|+++|-.
T Consensus       171 ~P~llilDEPts~LD~--------~~~----~~il~lL~~l~~~~g~til~iTHdl  214 (326)
T PRK11022        171 RPKLLIADEPTTALDV--------TIQ----AQIIELLLELQQKENMALVLITHDL  214 (326)
T ss_pred             CCCEEEEeCCCCCCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEeCCH
Confidence            7899999998877532        222    3788888999888899999999954

>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA

Probab=98.43  E-value=2.3e-06  Score=74.66  Aligned_cols=27  Identities=26%  Similarity=0.295  Sum_probs=24.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+.+|+++.|.|++|+|||||+..++.
T Consensus        22 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G   48 (198)
T TIGR01189        22 TLNAGEALQVTGPNGIGKTTLLRILAG   48 (198)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999999999996654

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.

>TIGR02769 nickel_nikE nickel import ATP-binding protein NikE

Probab=98.43  E-value=2.6e-06  Score=77.85  Aligned_cols=59  Identities=14%  Similarity=0.220  Sum_probs=41.8

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +++++++|+.++-+..        ..+    ..+.+.|++++++.+.+||+++|-...                  +...
T Consensus       168 ~p~illLDEPt~~LD~--------~~~----~~l~~~l~~~~~~~g~tiiivsH~~~~------------------~~~~  217 (265)
T TIGR02769       168 KPKLIVLDEAVSNLDM--------VLQ----AVILELLRKLQQAFGTAYLFITHDLRL------------------VQSF  217 (265)
T ss_pred             CCCEEEEeCCcccCCH--------HHH----HHHHHHHHHHHHhcCcEEEEEeCCHHH------------------HHHH
Confidence            7899999998766431        112    367778888887779999999996541                  3446


Q ss_pred             cceEEEEEe
Q 047388          301 VTIRLMFRK  309 (352)
Q Consensus       301 ~~~~i~L~~  309 (352)
                      +|.++.|..
T Consensus       218 ~d~i~~l~~  226 (265)
T TIGR02769       218 CQRVAVMDK  226 (265)
T ss_pred             hcEEEEEeC
Confidence            677777764

This family represents the NikE 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.

>cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export

Probab=98.43  E-value=9.6e-07  Score=78.64  Aligned_cols=27  Identities=22%  Similarity=0.283  Sum_probs=24.4

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|+|||||+..++.
T Consensus        44 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G   70 (224)
T cd03220          44 EVPRGERIGLIGRNGAGKSTLLRLLAG   70 (224)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            578999999999999999999997664

Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and teichoic acids have been shown to be exported by ABC transporters. A typical system is made of a conserved integral membrane and an ABC. In addition to these proteins, capsular polysaccharide exporter systems require two 'accessory' proteins to perform their function: a periplasmic (E.coli) or a lipid-anchored outer membrane protein called OMA (Neisseria meningitidis and Haemophilus influenzae) and a cytoplasmic membrane protein MPA2.

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.42  E-value=2.9e-07  Score=81.36  Aligned_cols=27  Identities=26%  Similarity=0.340  Sum_probs=24.4

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+.+|+++.|.|++|+|||||+..++.
T Consensus        33 ~i~~Ge~~~i~G~nGsGKSTLl~~i~G   59 (214)
T PRK13543         33 HVDAGEALLVQGDNGAGKTTLLRVLAG   59 (214)
T ss_pred             EECCCCEEEEEcCCCCCHHHHHHHHhC
Confidence            578999999999999999999997654

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=98.42  E-value=2e-06  Score=76.62  Aligned_cols=59  Identities=22%  Similarity=0.314  Sum_probs=41.8

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +++++++|+.++-+..        ..+    ..+.+.|++++++.+.+||+++|-..                  .+...
T Consensus       163 ~p~lllLDEPt~~LD~--------~~~----~~l~~~l~~~~~~~~~tii~~sH~~~------------------~~~~~  212 (228)
T cd03257         163 NPKLLIADEPTSALDV--------SVQ----AQILDLLKKLQEELGLTLLFITHDLG------------------VVAKI  212 (228)
T ss_pred             CCCEEEecCCCCCCCH--------HHH----HHHHHHHHHHHHHcCCEEEEEeCCHH------------------HHHHh
Confidence            7899999998876431        222    36777788888777899999999654                  13446


Q ss_pred             cceEEEEEe
Q 047388          301 VTIRLMFRK  309 (352)
Q Consensus       301 ~~~~i~L~~  309 (352)
                      +|.++.|..
T Consensus       213 ~d~i~~l~~  221 (228)
T cd03257         213 ADRVAVMYA  221 (228)
T ss_pred             cCeEEEEeC
Confidence            677777764

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.

>PRK10419 nikE nickel transporter ATP-binding protein NikE; Provisional

Probab=98.42  E-value=4.6e-06  Score=76.36  Aligned_cols=60  Identities=13%  Similarity=0.239  Sum_probs=42.1

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhh
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAH  299 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~  299 (352)
                      .+++++++|+.++-+..        ..+    ..+.+.|+.++++++.+||+++|-...                  +..
T Consensus       168 ~~p~lllLDEPt~~LD~--------~~~----~~~~~~l~~~~~~~~~tiiivsH~~~~------------------i~~  217 (268)
T PRK10419        168 VEPKLLILDEAVSNLDL--------VLQ----AGVIRLLKKLQQQFGTACLFITHDLRL------------------VER  217 (268)
T ss_pred             cCCCEEEEeCCCcccCH--------HHH----HHHHHHHHHHHHHcCcEEEEEECCHHH------------------HHH
Confidence            37899999998876431        222    267777888887779999999986541                  345


Q ss_pred             ccceEEEEEe
Q 047388          300 AVTIRLMFRK  309 (352)
Q Consensus       300 ~~~~~i~L~~  309 (352)
                      ++|.++.|..
T Consensus       218 ~~d~i~~l~~  227 (268)
T PRK10419        218 FCQRVMVMDN  227 (268)
T ss_pred             hCCEEEEEEC
Confidence            6677777754

>PRK10938 putative molybdenum transport ATP-binding protein ModF; Provisional

Probab=98.42  E-value=2.4e-06  Score=85.01  Aligned_cols=27  Identities=30%  Similarity=0.330  Sum_probs=24.3

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|||||||+..++.
T Consensus        25 ~i~~Ge~~~liG~nGsGKSTLl~~l~G   51 (490)
T PRK10938         25 TLNAGDSWAFVGANGSGKSALARALAG   51 (490)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhc
Confidence            578999999999999999999996654

>TIGR03740 galliderm_ABC gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit

Probab=98.42  E-value=5e-06  Score=73.91  Aligned_cols=27  Identities=15%  Similarity=0.255  Sum_probs=24.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+.+|+++.|.|++|+|||||+..++.
T Consensus        22 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G   48 (223)
T TIGR03740        22 TVPKNSVYGLLGPNGAGKSTLLKMITG   48 (223)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhC
Confidence            477999999999999999999996654

Model TIGR03731 represents the family of all lantibiotics related to gallidermin, including epidermin, mutatin, and nisin. This protein family describes the ATP-binding subunit of a gallidermin/epidermin class lantibiotic protection transporter. It is largely restricted to gallidermin-family lantibiotic biosynthesis and export cassettes, but also occurs in orphan transporter cassettes in species that lack candidate lantibiotic precursor and synthetase genes.

>PRK13649 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.42  E-value=5.2e-07  Score=83.15  Aligned_cols=28  Identities=32%  Similarity=0.341  Sum_probs=24.7

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      =-+++|+++.|.|++|+|||||+..++.
T Consensus        28 ~~i~~Ge~~~l~G~nGsGKSTLl~~i~G   55 (280)
T PRK13649         28 LTIEDGSYTAFIGHTGSGKSTIMQLLNG   55 (280)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHHHHHhC
Confidence            3578999999999999999999997654

>PRK14249 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.42  E-value=1.1e-06  Score=79.67  Aligned_cols=27  Identities=26%  Similarity=0.297  Sum_probs=24.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+.+|+++.|.|++|+|||||+..++.
T Consensus        26 ~i~~G~~~~i~G~nGsGKSTLl~~l~G   52 (251)
T PRK14249         26 DFPERQITAIIGPSGCGKSTLLRALNR   52 (251)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhc
Confidence            467999999999999999999997654

>PRK10261 glutathione transporter ATP-binding protein; Provisional

Probab=98.41  E-value=2.6e-06  Score=87.22  Aligned_cols=45  Identities=20%  Similarity=0.443  Sum_probs=34.8

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +++++|+|+.++.+.        ...+    .++++.|++++++++.+||+++|-..
T Consensus       481 ~p~llllDEPts~LD--------~~~~----~~i~~ll~~l~~~~g~tvi~isHdl~  525 (623)
T PRK10261        481 NPKVIIADEAVSALD--------VSIR----GQIINLLLDLQRDFGIAYLFISHDMA  525 (623)
T ss_pred             CCCEEEEeCCcccCC--------HHHH----HHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence            799999999887653        2222    37788888888888999999999543

>TIGR03411 urea_trans_UrtD urea ABC transporter, ATP-binding protein UrtD

Probab=98.41  E-value=3e-06  Score=76.31  Aligned_cols=28  Identities=18%  Similarity=0.281  Sum_probs=24.8

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+.+|+++.|.|++|+|||||+..++..
T Consensus        24 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G~   51 (242)
T TIGR03411        24 YVDPGELRVIIGPNGAGKTTMMDVITGK   51 (242)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999999999977643

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>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=98.41  E-value=1.4e-06  Score=78.27  Aligned_cols=28  Identities=25%  Similarity=0.367  Sum_probs=24.6

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++|+++.|.|++|+|||||+..++..
T Consensus        24 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (237)
T cd03252          24 RIKPGEVVGIVGRSGSGKSTLTKLIQRF   51 (237)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999999999976643

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.

>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=98.41  E-value=6.2e-06  Score=68.16  Aligned_cols=107  Identities=18%  Similarity=0.164  Sum_probs=61.7

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAY  201 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~  201 (352)
                      -+++|+++.|.|++|+|||||+..++..  .++    ..+ .++++..                       ..+.+....
T Consensus        22 ~~~~Ge~~~i~G~nGsGKStLl~~l~G~--~~~----~~G-~i~~~~~-----------------------~~i~~~~~l   71 (144)
T cd03221          22 TINPGDRIGLVGRNGAGKSTLLKLIAGE--LEP----DEG-IVTWGST-----------------------VKIGYFEQL   71 (144)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHcCC--CCC----Cce-EEEECCe-----------------------EEEEEEccC
Confidence            5789999999999999999999966543  222    233 3455431                       012222223


Q ss_pred             CHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          202 TYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       202 ~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +..+.. .+. +.+.+. .+++++++|+..+-+..        ..+    ..+.+.|+++    +.++++++|-..
T Consensus        72 S~G~~~-rv~-laral~-~~p~illlDEP~~~LD~--------~~~----~~l~~~l~~~----~~til~~th~~~  128 (144)
T cd03221          72 SGGEKM-RLA-LAKLLL-ENPNLLLLDEPTNHLDL--------ESI----EALEEALKEY----PGTVILVSHDRY  128 (144)
T ss_pred             CHHHHH-HHH-HHHHHh-cCCCEEEEeCCccCCCH--------HHH----HHHHHHHHHc----CCEEEEEECCHH
Confidence            333322 222 222222 37899999998766431        222    1444444443    578999988653

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.

>PRK11701 phnK phosphonate C-P lyase system protein PhnK; Provisional

Probab=98.41  E-value=3.2e-06  Score=76.94  Aligned_cols=45  Identities=22%  Similarity=0.294  Sum_probs=33.5

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +|+++++|+.++-+..        ..    ...+...|+.++++++.+||+++|-..
T Consensus       169 ~p~llllDEPt~~LD~--------~~----~~~l~~~l~~~~~~~~~tii~isH~~~  213 (258)
T PRK11701        169 HPRLVFMDEPTGGLDV--------SV----QARLLDLLRGLVRELGLAVVIVTHDLA  213 (258)
T ss_pred             CCCEEEEcCCcccCCH--------HH----HHHHHHHHHHHHHhcCcEEEEEeCCHH
Confidence            7899999998876432        11    136777788887777999999999654

>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional

Probab=98.41  E-value=3.1e-06  Score=76.56  Aligned_cols=27  Identities=26%  Similarity=0.446  Sum_probs=24.3

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|+|||||+..++.
T Consensus        25 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G   51 (250)
T PRK11264         25 EVKPGEVVAIIGPSGSGKTTLLRCINL   51 (250)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhc
Confidence            578999999999999999999997654

>TIGR01978 sufC FeS assembly ATPase SufC

Probab=98.41  E-value=5.6e-06  Score=74.49  Aligned_cols=28  Identities=29%  Similarity=0.439  Sum_probs=24.8

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++|+++.|.|++|+|||||+..++..
T Consensus        22 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   49 (243)
T TIGR01978        22 TVKKGEIHAIMGPNGSGKSTLSKTIAGH   49 (243)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999999999977643

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.

>PRK11176 lipid transporter ATP-binding/permease protein; Provisional

Probab=98.41  E-value=1.7e-06  Score=87.98  Aligned_cols=132  Identities=17%  Similarity=0.269  Sum_probs=74.3

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCc-------cccccc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDP-------GAVLDN  194 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~-------~~~~~~  194 (352)
                      =+++|+.+.|+|++|||||||+.-++.....      . .+.++++..+- .........+.+++-+       .++.+|
T Consensus       365 ~i~~G~~~aIvG~sGsGKSTLl~ll~gl~~p------~-~G~I~i~g~~i-~~~~~~~~~~~i~~v~Q~~~lf~~Ti~~N  436 (582)
T PRK11176        365 KIPAGKTVALVGRSGSGKSTIANLLTRFYDI------D-EGEILLDGHDL-RDYTLASLRNQVALVSQNVHLFNDTIANN  436 (582)
T ss_pred             EeCCCCEEEEECCCCCCHHHHHHHHHhccCC------C-CceEEECCEEh-hhcCHHHHHhhceEEccCceeecchHHHH
Confidence            4789999999999999999999966553322      2 33455655321 1111222333344332       245566


Q ss_pred             EEEEec--CCHHHHHHHHHH---------H-------------------------HHHhhcCCceEEEEcccccchhccc
Q 047388          195 IIYARA--YTYEHQYNLLLG---------L-------------------------AAKMSEEPFRLLIVDSVIALFRVDF  238 (352)
Q Consensus       195 i~~~~~--~~~~~~~~~l~~---------l-------------------------~~~l~~~~~~lvvIDsl~~l~~~~~  238 (352)
                      +.+...  .+.++..+.++.         +                         .+.+. .+++++++|+.++.+..+ 
T Consensus       437 i~~~~~~~~~~~~i~~al~~~~l~~~i~~lp~Gldt~ig~~g~~LSGGqrQRi~LARall-~~~~ililDEptsaLD~~-  514 (582)
T PRK11176        437 IAYARTEQYSREQIEEAARMAYAMDFINKMDNGLDTVIGENGVLLSGGQRQRIAIARALL-RDSPILILDEATSALDTE-  514 (582)
T ss_pred             HhcCCCCCCCHHHHHHHHHHhCcHHHHHhcccccCceeCCCCCcCCHHHHHHHHHHHHHH-hCCCEEEEECccccCCHH-
Confidence            665432  233333222221         0                         01111 268999999988875421 


Q ss_pred             CCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          239 TGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       239 ~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                            .+     ..+.+.|+++.  .++|+|+++|-.
T Consensus       515 ------t~-----~~i~~~l~~~~--~~~tvI~VtHr~  539 (582)
T PRK11176        515 ------SE-----RAIQAALDELQ--KNRTSLVIAHRL  539 (582)
T ss_pred             ------HH-----HHHHHHHHHHh--CCCEEEEEecch
Confidence                  12     25666676653  368999988854

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=98.41  E-value=3.3e-06  Score=76.00  Aligned_cols=27  Identities=22%  Similarity=0.303  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+.+|+++.|.|++|+|||||+..++.
T Consensus        24 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G   50 (242)
T PRK11124         24 DCPQGETLVLLGPSGAGKSSLLRVLNL   50 (242)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            467999999999999999999997654

>PRK10261 glutathione transporter ATP-binding protein; Provisional

Probab=98.40  E-value=5.5e-06  Score=84.79  Aligned_cols=45  Identities=18%  Similarity=0.273  Sum_probs=34.9

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +++++++|+.++.+..        ..+    .++++.|+++++++|.+||+++|-..
T Consensus       186 ~P~lLllDEPt~~LD~--------~~~----~~l~~ll~~l~~~~g~tvi~itHdl~  230 (623)
T PRK10261        186 RPAVLIADEPTTALDV--------TIQ----AQILQLIKVLQKEMSMGVIFITHDMG  230 (623)
T ss_pred             CCCEEEEeCCCCccCH--------HHH----HHHHHHHHHHHHhcCCEEEEEcCCHH
Confidence            7999999999887532        222    37788888888888999999999543

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=98.40  E-value=5.3e-06  Score=73.04  Aligned_cols=26  Identities=27%  Similarity=0.404  Sum_probs=22.8

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++| ++.|.|++|+|||||+..++.
T Consensus        22 ~i~~g-~~~i~G~nGsGKSTLl~~l~G   47 (211)
T cd03264          22 TLGPG-MYGLLGPNGAGKTTLMRILAT   47 (211)
T ss_pred             EEcCC-cEEEECCCCCCHHHHHHHHhC
Confidence            46788 999999999999999996654

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.

>cd03253 ABCC_ATM1_transporter ATM1 is an ABC transporter that is expressed in the mitochondria

Probab=98.40  E-value=1.3e-06  Score=78.27  Aligned_cols=28  Identities=25%  Similarity=0.281  Sum_probs=24.9

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++|+++.|.|++|+|||||+..++..
T Consensus        23 ~i~~Ge~~~l~G~nGsGKSTLl~~i~Gl   50 (236)
T cd03253          23 TIPAGKKVAIVGPSGSGKSTILRLLFRF   50 (236)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            5789999999999999999999977643

Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to mitochondrial DNA, and decreased levels of cytosolic heme proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK15056 manganese/iron transporter ATP-binding protein; Provisional

Probab=98.39  E-value=5.3e-06  Score=76.12  Aligned_cols=27  Identities=30%  Similarity=0.352  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|+|||||+..++.
T Consensus        29 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G   55 (272)
T PRK15056         29 TVPGGSIAALVGVNGSGKSTLFKALMG   55 (272)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999999999996654

>cd03236 ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 of RNase L inhibitor

Probab=98.39  E-value=5.4e-06  Score=75.27  Aligned_cols=34  Identities=21%  Similarity=0.142  Sum_probs=27.0

Q ss_pred             hhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          114 ALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       114 ~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .|+.+-  =+.+|+++.|.|++|+|||||+..++..
T Consensus        16 ~l~~i~--~i~~Ge~~~IvG~nGsGKSTLlk~l~Gl   49 (255)
T cd03236          16 KLHRLP--VPREGQVLGLVGPNGIGKSTALKILAGK   49 (255)
T ss_pred             hhhcCC--CCCCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            455543  2789999999999999999999966543

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, RLIs 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.

>PRK10982 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional

Probab=98.38  E-value=3.3e-06  Score=84.06  Aligned_cols=27  Identities=26%  Similarity=0.342  Sum_probs=24.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|||||||+..++.
T Consensus        20 ~i~~Ge~~~liG~nGsGKSTLl~~l~G   46 (491)
T PRK10982         20 KVRPHSIHALMGENGAGKSTLLKCLFG   46 (491)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHcC
Confidence            578999999999999999999996653

>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins

Probab=98.38  E-value=1.5e-06  Score=77.79  Aligned_cols=28  Identities=25%  Similarity=0.309  Sum_probs=24.6

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++|+++.|.|++|+|||||+..++..
T Consensus        24 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (234)
T cd03251          24 DIPAGETVALVGPSGSGKSTLVNLIPRF   51 (234)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            4789999999999999999999966543

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.

>COG1129 MglA ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]

Probab=98.38  E-value=1.7e-06  Score=84.18  Aligned_cols=142  Identities=25%  Similarity=0.328  Sum_probs=82.1

Q ss_pred             CChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC-CChhhHHHHHHHcCC---
Q 047388          111 GSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT-FRPDRIVPIAERFGM---  186 (352)
Q Consensus       111 G~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~-~~~~rl~~~~~~~~~---  186 (352)
                      |+..||.+- =-+.+|++..+.|++|+|||||+.-++..  .++     ..+.++++.+.. |..   ..-+++.|+   
T Consensus        20 gV~AL~~v~-l~v~~GEV~aL~GeNGAGKSTLmKiLsGv--~~p-----~~G~I~~~G~~~~~~s---p~~A~~~GI~~V   88 (500)
T COG1129          20 GVKALDGVS-LTVRPGEVHALLGENGAGKSTLMKILSGV--YPP-----DSGEILIDGKPVAFSS---PRDALAAGIATV   88 (500)
T ss_pred             Cceeeccce-eEEeCceEEEEecCCCCCHHHHHHHHhCc--ccC-----CCceEEECCEEccCCC---HHHHHhCCcEEE
Confidence            445555532 35889999999999999999999965443  332     344667776532 111   112333333   


Q ss_pred             ------Cc-ccccccEEEEecCCH-------HHHH----HHHH-----------------------HHHHHhhcCCceEE
Q 047388          187 ------DP-GAVLDNIIYARAYTY-------EHQY----NLLL-----------------------GLAAKMSEEPFRLL  225 (352)
Q Consensus       187 ------~~-~~~~~~i~~~~~~~~-------~~~~----~~l~-----------------------~l~~~l~~~~~~lv  225 (352)
                            -| .++.+|+++.+....       ....    .++.                       .+.+.+. .+.+++
T Consensus        89 ~QEl~L~p~LsVaeNifLgre~~~~~g~id~~~m~~~A~~~l~~lg~~~~~~~~v~~LsiaqrQ~VeIArAl~-~~arll  167 (500)
T COG1129          89 HQELSLVPNLSVAENIFLGREPTRRFGLIDRKAMRRRARELLARLGLDIDPDTLVGDLSIAQRQMVEIARALS-FDARVL  167 (500)
T ss_pred             eechhccCCccHHHHhhcccccccCCCccCHHHHHHHHHHHHHHcCCCCChhhhhhhCCHHHHHHHHHHHHHh-cCCCEE
Confidence                  22 245566665443211       1111    1111                       1112222 378999


Q ss_pred             EEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          226 IVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       226 vIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      |+|+.++.+..            .+...+++.++++. +.|++||+++|-..
T Consensus       168 IlDEPTaaLt~------------~E~~~Lf~~ir~Lk-~~Gv~ii~ISHrl~  206 (500)
T COG1129         168 ILDEPTAALTV------------KETERLFDLIRRLK-AQGVAIIYISHRLD  206 (500)
T ss_pred             EEcCCcccCCH------------HHHHHHHHHHHHHH-hCCCEEEEEcCcHH
Confidence            99999987542            12346666677764 57999999999443

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

Probab=98.38  E-value=3.7e-06  Score=67.72  Aligned_cols=111  Identities=22%  Similarity=0.143  Sum_probs=64.2

Q ss_pred             EEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCCHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYN  208 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~  208 (352)
                      +.|.||||+|||+++..++...         +..+++++.......                           .......
T Consensus         1 ill~G~~G~GKT~l~~~la~~l---------~~~~~~i~~~~~~~~---------------------------~~~~~~~   44 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYL---------GFPFIEIDGSELISS---------------------------YAGDSEQ   44 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHT---------TSEEEEEETTHHHTS---------------------------STTHHHH
T ss_pred             CEEECcCCCCeeHHHHHHHhhc---------ccccccccccccccc---------------------------ccccccc
Confidence            5799999999999999888763         346777776532100                           0011112


Q ss_pred             HHHHHHHHhhcCC-ceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHH-hCcEEEEEccccc
Q 047388          209 LLLGLAAKMSEEP-FRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEE-FNVAVYMTNQVIA  277 (352)
Q Consensus       209 ~l~~l~~~l~~~~-~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~-~~~~viv~~h~~~  277 (352)
                      .+..+........ +.+++||.+..+.... ... ........+..++..+...... .++.+|.+++...
T Consensus        45 ~i~~~~~~~~~~~~~~vl~iDe~d~l~~~~-~~~-~~~~~~~~~~~L~~~l~~~~~~~~~~~vI~ttn~~~  113 (132)
T PF00004_consen   45 KIRDFFKKAKKSAKPCVLFIDEIDKLFPKS-QPS-SSSFEQRLLNQLLSLLDNPSSKNSRVIVIATTNSPD  113 (132)
T ss_dssp             HHHHHHHHHHHTSTSEEEEEETGGGTSHHC-STS-SSHHHHHHHHHHHHHHHTTTTTSSSEEEEEEESSGG
T ss_pred             ccccccccccccccceeeeeccchhccccc-ccc-cccccccccceeeecccccccccccceeEEeeCChh
Confidence            2222222233334 8999999999998764 111 1122223445666666555443 3477777766544

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 ....

>PRK14271 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.38  E-value=3.7e-06  Score=77.31  Aligned_cols=27  Identities=37%  Similarity=0.455  Sum_probs=24.5

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -|++|+++.|.|++|+|||||+..++.
T Consensus        43 ~i~~Ge~~~I~G~nGsGKSTLl~~l~G   69 (276)
T PRK14271         43 GFPARAVTSLMGPTGSGKTTFLRTLNR   69 (276)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhc
Confidence            578999999999999999999997764

>PRK11231 fecE iron-dicitrate transporter ATP-binding subunit; Provisional

Probab=98.37  E-value=2.5e-06  Score=77.44  Aligned_cols=27  Identities=30%  Similarity=0.427  Sum_probs=24.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+.+|+++.|.|++|+|||||+..++.
T Consensus        24 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G   50 (255)
T PRK11231         24 SLPTGKITALIGPNGCGKSTLLKCFAR   50 (255)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhC
Confidence            467999999999999999999997654

>PRK13549 xylose transporter ATP-binding subunit; Provisional

Probab=98.37  E-value=2.8e-06  Score=84.92  Aligned_cols=27  Identities=30%  Similarity=0.433  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+.+|+++.|.||+|||||||+..++.
T Consensus        27 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G   53 (506)
T PRK13549         27 KVRAGEIVSLCGENGAGKSTLMKVLSG   53 (506)
T ss_pred             EEeCCeEEEEECCCCCCHHHHHHHHhC
Confidence            578999999999999999999996654

>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=98.37  E-value=1.4e-06  Score=88.71  Aligned_cols=131  Identities=19%  Similarity=0.225  Sum_probs=75.0

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCc-------cccccc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDP-------GAVLDN  194 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~-------~~~~~~  194 (352)
                      -+++|+.+.|+|++|||||||+.-++...  |     ..| .++++..+- .......+.+..++-+       .++.+|
T Consensus       372 ~i~~G~~vaIvG~SGsGKSTL~~lL~g~~--p-----~~G-~I~i~g~~i-~~~~~~~lr~~i~~v~Q~~~LF~~TI~eN  442 (588)
T PRK11174        372 TLPAGQRIALVGPSGAGKTSLLNALLGFL--P-----YQG-SLKINGIEL-RELDPESWRKHLSWVGQNPQLPHGTLRDN  442 (588)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCC--C-----CCc-EEEECCEec-ccCCHHHHHhheEEecCCCcCCCcCHHHH
Confidence            47899999999999999999999765543  3     333 345554321 1111222333444332       346677


Q ss_pred             EEEEec-CCHHHHHHHHHH---------HH-------------------------HHhhcCCceEEEEcccccchhcccC
Q 047388          195 IIYARA-YTYEHQYNLLLG---------LA-------------------------AKMSEEPFRLLIVDSVIALFRVDFT  239 (352)
Q Consensus       195 i~~~~~-~~~~~~~~~l~~---------l~-------------------------~~l~~~~~~lvvIDsl~~l~~~~~~  239 (352)
                      +.+.+. .+.++..+.++.         ++                         +.+- .+++++++|+.++....+  
T Consensus       443 I~~g~~~~~~eei~~al~~a~l~~~i~~lp~G~dT~vge~G~~LSGGQrQRialARAll-~~~~IliLDE~TSaLD~~--  519 (588)
T PRK11174        443 VLLGNPDASDEQLQQALENAWVSEFLPLLPQGLDTPIGDQAAGLSVGQAQRLALARALL-QPCQLLLLDEPTASLDAH--  519 (588)
T ss_pred             hhcCCCCCCHHHHHHHHHHhCHHHHHHhcccccccccccCCCCCCHHHHHHHHHHHHHh-cCCCEEEEeCCccCCCHH--
Confidence            777633 333433332221         10                         1111 268999999988875321  


Q ss_pred             CCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          240 GRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       240 ~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                           .+     ..+.+.|.++.  .+.|+|+++|-.
T Consensus       520 -----te-----~~i~~~l~~~~--~~~TvIiItHrl  544 (588)
T PRK11174        520 -----SE-----QLVMQALNAAS--RRQTTLMVTHQL  544 (588)
T ss_pred             -----HH-----HHHHHHHHHHh--CCCEEEEEecCh
Confidence                 22     25556666664  367888888854

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=98.37  E-value=7.6e-06  Score=71.47  Aligned_cols=28  Identities=25%  Similarity=0.189  Sum_probs=24.1

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      +..|+++.|+||+|+|||||+.+++...
T Consensus        22 l~~g~~~~ltGpNg~GKSTllr~i~~~~   49 (199)
T cd03283          22 MEKKNGILITGSNMSGKSTFLRTIGVNV   49 (199)
T ss_pred             EcCCcEEEEECCCCCChHHHHHHHHHHH
Confidence            3447999999999999999999988655

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form slid

>cd03245 ABCC_bacteriocin_exporters ABC-type bacteriocin exporters

Probab=98.36  E-value=6.8e-07  Score=79.25  Aligned_cols=27  Identities=30%  Similarity=0.390  Sum_probs=24.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.||+|+|||||+..++.
T Consensus        26 ~i~~G~~~~i~G~nGsGKSTLl~~i~G   52 (220)
T cd03245          26 TIRAGEKVAIIGRVGSGKSTLLKLLAG   52 (220)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhc
Confidence            478999999999999999999997654

Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two glycine residues in positions -1 and -2. A dedicated ATP-binding cassette (ABC) transporter is responsible for the proteolytic cleavage of the leader peptides and subsequent translocation of the bacteriocins across the cytoplasmic membrane.

>TIGR03269 met_CoM_red_A2 methyl coenzyme M reductase system, component A2

Probab=98.36  E-value=8e-06  Score=81.93  Aligned_cols=45  Identities=9%  Similarity=0.065  Sum_probs=34.7

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +|+++++|+.++.+..        ..+    ..+++.|++++++++.+||+++|-..
T Consensus       186 ~p~lllLDEPt~~LD~--------~~~----~~l~~~l~~l~~~~g~tviivtHd~~  230 (520)
T TIGR03269       186 EPFLFLADEPTGTLDP--------QTA----KLVHNALEEAVKASGISMVLTSHWPE  230 (520)
T ss_pred             CCCEEEeeCCcccCCH--------HHH----HHHHHHHHHHHHhcCcEEEEEeCCHH
Confidence            7999999998887532        222    37778888888888999999999654

The enzyme that catalyzes the final step in methanogenesis, methyl coenzyme M reductase, contains alpha, beta, and gamma chains. In older literature, the complex of alpha, beta, and gamma chains was termed component C, while this single chain protein was termed methyl coenzyme M reductase system component A2.

>PRK11288 araG L-arabinose transporter ATP-binding protein; Provisional

Probab=98.36  E-value=3.1e-06  Score=84.44  Aligned_cols=28  Identities=25%  Similarity=0.317  Sum_probs=24.8

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      --+++|+++.|.|++|+|||||+..++.
T Consensus        25 l~i~~Ge~~~l~G~nGsGKSTLl~~l~G   52 (501)
T PRK11288         25 FDCRAGQVHALMGENGAGKSTLLKILSG   52 (501)
T ss_pred             EEEeCCcEEEEECCCCCCHHHHHHHHhC
Confidence            3688999999999999999999996654

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=98.36  E-value=1.2e-06  Score=78.07  Aligned_cols=28  Identities=29%  Similarity=0.367  Sum_probs=24.8

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      =+++|+++.|.|++|+|||||+..++..
T Consensus        25 ~i~~G~~~~i~G~nGsGKSTLl~~l~G~   52 (229)
T cd03254          25 SIKPGETVAIVGPTGAGKTTLINLLMRF   52 (229)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            5789999999999999999999977643

In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export. The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains each composed of six transmembrane (TM) helices and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.36  E-value=2.6e-05  Score=74.81  Aligned_cols=89  Identities=18%  Similarity=0.209  Sum_probs=55.0

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCC---hhhHHHHHHHcCCCcccccccEEEE
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFR---PDRIVPIAERFGMDPGAVLDNIIYA  198 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~---~~rl~~~~~~~~~~~~~~~~~i~~~  198 (352)
                      |..++.++.++||+|+||||++.++|......     .+.+|.+++++. +.   ...++..++..+++.         .
T Consensus       219 g~~~~~vi~lvGptGvGKTTtaaKLA~~~~~~-----~G~~V~Lit~Dt-~R~aA~eQLk~yAe~lgvp~---------~  283 (432)
T PRK12724        219 GKNQRKVVFFVGPTGSGKTTSIAKLAAKYFLH-----MGKSVSLYTTDN-YRIAAIEQLKRYADTMGMPF---------Y  283 (432)
T ss_pred             ccCCCeEEEEECCCCCCHHHHHHHHHHHHHHh-----cCCeEEEecccc-hhhhHHHHHHHHHHhcCCCe---------e
Confidence            34567899999999999999999999765321     467888888764 22   223344444444432         1


Q ss_pred             ecCCHHHHHHHHHHHHHHhhcCCceEEEEccccc
Q 047388          199 RAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIA  232 (352)
Q Consensus       199 ~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~  232 (352)
                      .   ......    +...+...+.++|+||+...
T Consensus       284 ~---~~~~~~----l~~~l~~~~~D~VLIDTaGr  310 (432)
T PRK12724        284 P---VKDIKK----FKETLARDGSELILIDTAGY  310 (432)
T ss_pred             e---hHHHHH----HHHHHHhCCCCEEEEeCCCC
Confidence            1   111122    22233345789999998443

>PRK09700 D-allose transporter ATP-binding protein; Provisional

Probab=98.36  E-value=2.4e-06  Score=85.40  Aligned_cols=27  Identities=30%  Similarity=0.417  Sum_probs=24.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|||||||+..++.
T Consensus        27 ~i~~Ge~~~liG~nGsGKSTLl~~i~G   53 (510)
T PRK09700         27 TVYPGEIHALLGENGAGKSTLMKVLSG   53 (510)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHcC
Confidence            578999999999999999999996653

>COG4559 ABC-type hemin transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.35  E-value=1.2e-05  Score=69.40  Aligned_cols=42  Identities=19%  Similarity=0.283  Sum_probs=33.8

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      -+++|++..|.||+|+|||||+..++.....      ..++|.|..-.
T Consensus        23 ~~~pGev~ailGPNGAGKSTlLk~LsGel~p------~~G~v~~~g~~   64 (259)
T COG4559          23 DLRPGEVLAILGPNGAGKSTLLKALSGELSP------DSGEVTLNGVP   64 (259)
T ss_pred             eccCCcEEEEECCCCccHHHHHHHhhCccCC------CCCeEeeCCcC
Confidence            4789999999999999999999988766554      45677776543

>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=98.34  E-value=4.3e-06  Score=74.52  Aligned_cols=29  Identities=31%  Similarity=0.365  Sum_probs=25.3

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      -+.+|+++.|.|++|+|||||+..++...
T Consensus        22 ~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   50 (227)
T cd03260          22 DIPKGEITALIGPSGCGKSTLLRLLNRLN   50 (227)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            57899999999999999999999776543

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).

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.34  E-value=7.2e-07  Score=77.64  Aligned_cols=27  Identities=26%  Similarity=0.207  Sum_probs=24.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      =+++|+++.|.|++|+|||||+..++.
T Consensus        22 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G   48 (195)
T PRK13541         22 TFLPSAITYIKGANGCGKSSLLRMIAG   48 (195)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhc
Confidence            467999999999999999999997654

>TIGR02633 xylG D-xylose ABC transporter, ATP-binding protein

Probab=98.34  E-value=4.2e-06  Score=83.49  Aligned_cols=58  Identities=17%  Similarity=0.228  Sum_probs=40.7

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +++++++|+.++-+..        ..+    ..+.+.|+.++++ +.+||+++|-..                  .+...
T Consensus       421 ~p~lllLDEPt~~LD~--------~~~----~~l~~~l~~l~~~-g~tviivsHd~~------------------~~~~~  469 (500)
T TIGR02633       421 NPRVLILDEPTRGVDV--------GAK----YEIYKLINQLAQE-GVAIIVVSSELA------------------EVLGL  469 (500)
T ss_pred             CCCEEEEcCCCCCcCH--------hHH----HHHHHHHHHHHhC-CCEEEEECCCHH------------------HHHHh
Confidence            7899999998877532        222    2566677777654 899999999653                  24557


Q ss_pred             cceEEEEEe
Q 047388          301 VTIRLMFRK  309 (352)
Q Consensus       301 ~~~~i~L~~  309 (352)
                      +|.++.|..
T Consensus       470 ~d~v~~l~~  478 (500)
T TIGR02633       470 SDRVLVIGE  478 (500)
T ss_pred             CCEEEEEEC
Confidence            787887764

Several bacterial species have enzymes xylose isomerase and xylulokinase enzymes for xylose utilization. Members of this protein family are the ATP-binding cassette (ABC) subunit of the known or predicted high-affinity xylose ABC transporter for xylose import. These genes, which closely resemble other sugar transport ABC transporter genes, typically are encoded near xylose utilization enzymes and regulatory proteins. Note that this form of the transporter contains two copies of the ABC transporter domain (pfam00005).

>cd03249 ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1

Probab=98.34  E-value=2e-06  Score=77.21  Aligned_cols=28  Identities=21%  Similarity=0.240  Sum_probs=24.7

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      =+++|+++.|.|++|+|||||+..++..
T Consensus        25 ~i~~Ge~~~l~G~nGsGKSTLl~~i~G~   52 (238)
T cd03249          25 TIPPGKTVALVGSSGCGKSTVVSLLERF   52 (238)
T ss_pred             EecCCCEEEEEeCCCCCHHHHHHHHhcc
Confidence            4789999999999999999999976643

In fact, the yeast MDL1 (multidrug resistance-like protein 1) and MDL2 (multidrug resistance-like protein 2) transporters are also included in this CD. MDL1 is an ATP-dependent permease that acts as a high-copy suppressor of ATM1 and is thought to have a role in resistance to oxidative stress. Interestingly, subfamily B is more closely related to the carboxyl-terminal component of subfamily C than the two halves of ABCC molecules are with one another.

>COG4988 CydD ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]

Probab=98.34  E-value=5e-06  Score=81.47  Aligned_cols=130  Identities=21%  Similarity=0.302  Sum_probs=72.8

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC--CCChhhHHHHHHHcCCCc-------cccc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG--TFRPDRIVPIAERFGMDP-------GAVL  192 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~--~~~~~rl~~~~~~~~~~~-------~~~~  192 (352)
                      -+++|+.+.|+|+||||||||+.-++.- +.|      ..+.+.++.-.  ++++   ..+.++..+-+       .++.
T Consensus       343 t~~~g~~talvG~SGaGKSTLl~lL~G~-~~~------~~G~I~vng~~l~~l~~---~~~~k~i~~v~Q~p~lf~gTir  412 (559)
T COG4988         343 TIKAGQLTALVGASGAGKSTLLNLLLGF-LAP------TQGEIRVNGIDLRDLSP---EAWRKQISWVSQNPYLFAGTIR  412 (559)
T ss_pred             EecCCcEEEEECCCCCCHHHHHHHHhCc-CCC------CCceEEECCccccccCH---HHHHhHeeeeCCCCccccccHH
Confidence            4789999999999999999999855432 222      22333443221  1122   22333333222       2444


Q ss_pred             ccEEEEecCCH-HHHHHHHHH---------------------------------HHHHhhcCCceEEEEcccccchhccc
Q 047388          193 DNIIYARAYTY-EHQYNLLLG---------------------------------LAAKMSEEPFRLLIVDSVIALFRVDF  238 (352)
Q Consensus       193 ~~i~~~~~~~~-~~~~~~l~~---------------------------------l~~~l~~~~~~lvvIDsl~~l~~~~~  238 (352)
                      +|+.+.+.... ++..+.+++                                 +.+.+- .+.+++++|+.++....+ 
T Consensus       413 eNi~l~~~~~s~e~i~~al~~a~l~~~v~~p~GLdt~ige~G~~LSgGQ~QRlaLARAll-~~~~l~llDEpTA~LD~e-  490 (559)
T COG4988         413 ENILLARPDASDEEIIAALDQAGLLEFVPKPDGLDTVIGEGGAGLSGGQAQRLALARALL-SPASLLLLDEPTAHLDAE-  490 (559)
T ss_pred             HHhhccCCcCCHHHHHHHHHHhcHHHhhcCCCcccchhccCCCCCCHHHHHHHHHHHHhc-CCCCEEEecCCccCCCHh-
Confidence            56655554322 222221111                                 111111 257899999999886432 


Q ss_pred             CCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          239 TGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       239 ~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                            ++     ..+.+.|.+++++  .||++++|--
T Consensus       491 ------tE-----~~i~~~l~~l~~~--ktvl~itHrl  515 (559)
T COG4988         491 ------TE-----QIILQALQELAKQ--KTVLVITHRL  515 (559)
T ss_pred             ------HH-----HHHHHHHHHHHhC--CeEEEEEcCh
Confidence                  22     2677788888875  7888888844

>PRK15093 antimicrobial peptide ABC transporter ATP-binding protein; Provisional

Probab=98.34  E-value=6.7e-06  Score=77.58  Aligned_cols=44  Identities=20%  Similarity=0.346  Sum_probs=33.9

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                      +++++|+|+.++.+..        ..+    .++++.|+++.++.+++||+++|-.
T Consensus       176 ~P~llilDEPts~LD~--------~~~----~~i~~lL~~l~~~~g~tii~itHdl  219 (330)
T PRK15093        176 QPRLLIADEPTNAMEP--------TTQ----AQIFRLLTRLNQNNNTTILLISHDL  219 (330)
T ss_pred             CCCEEEEeCCCCcCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEECCH
Confidence            7899999998876532        222    3778888888888899999999953

>TIGR00972 3a0107s01c2 phosphate ABC transporter, ATP-binding protein

Probab=98.32  E-value=7.1e-06  Score=74.11  Aligned_cols=27  Identities=26%  Similarity=0.348  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|+|||||+..++.
T Consensus        23 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G   49 (247)
T TIGR00972        23 DIPKNQVTALIGPSGCGKSTLLRSLNR   49 (247)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhc
Confidence            578999999999999999999996654

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.

>PRK09580 sufC cysteine desulfurase ATPase component; Reviewed

Probab=98.32  E-value=4.8e-06  Score=75.23  Aligned_cols=29  Identities=28%  Similarity=0.345  Sum_probs=25.1

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      --+.+|+++.|.|++|+|||||+..++..
T Consensus        22 l~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   50 (248)
T PRK09580         22 LEVRPGEVHAIMGPNGSGKSTLSATLAGR   50 (248)
T ss_pred             eEEcCCCEEEEECCCCCCHHHHHHHHcCC
Confidence            35789999999999999999999966543

>TIGR03797 NHPM_micro_ABC2 NHPM bacteriocin system ABC transporter, ATP-binding protein

Probab=98.32  E-value=1.5e-06  Score=89.98  Aligned_cols=28  Identities=32%  Similarity=0.357  Sum_probs=24.6

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      =+++|+.+.|+|++|||||||+.-++..
T Consensus       475 ~i~~Ge~vaIvG~sGsGKSTLlklL~gl  502 (686)
T TIGR03797       475 QIEPGEFVAIVGPSGSGKSTLLRLLLGF  502 (686)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4889999999999999999999966543

Members of this protein family are ABC transporter ATP-binding subunits, part of a three-gene putative bacteriocin transport operon. The other subunits include another ATP-binding subunit (TIGR03796), which has an N-terminal propeptide cleavage domain, and an HlyD homolog (TIGR03794). In a number of genomes, a conserved propeptide sequence with a classic Gly-Gly motif

>cd03290 ABCC_SUR1_N The SUR domain 1

Probab=98.31  E-value=1.5e-06  Score=76.89  Aligned_cols=28  Identities=29%  Similarity=0.353  Sum_probs=24.5

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      =+++|+++.|.|++|+|||||+..++..
T Consensus        23 ~i~~Ge~~~i~G~nGsGKSTLl~~i~G~   50 (218)
T cd03290          23 RIPTGQLTMIVGQVGCGKSSLLLAILGE   50 (218)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            4679999999999999999999976544

The sulfonylurea receptor SUR is an ATP transporter of the ABCC/MRP family with tandem ATPase binding domains. Unlike other ABC proteins, it has no intrinsic transport function, neither active nor passive, but associates with the potassium channel proteins Kir6.1 or Kir6.2 to form the ATP-sensitive potassium (K(ATP)) channel. Within the channel complex, SUR serves as a regulatory subunit that fine-tunes the gating of Kir6.x in response to alterations in cellular metabolism. It constitutes a major pharmaceutical target as it binds numerous drugs, K(ATP) channel openers and blockers, capable of up- or down-regulating channel activity.

>PRK14269 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.31  E-value=1.8e-06  Score=78.04  Aligned_cols=28  Identities=25%  Similarity=0.303  Sum_probs=24.6

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+.+|+++.|+|++|+|||||+..++..
T Consensus        24 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (246)
T PRK14269         24 QIEQNKITALIGASGCGKSTFLRCFNRM   51 (246)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            4678999999999999999999977653

>COG4615 PvdE ABC-type siderophore export system, fused ATPase and permease components [Secondary metabolites biosynthesis, transport, and catabolism / Inorganic ion transport and metabolism]

Probab=98.31  E-value=4.3e-06  Score=78.22  Aligned_cols=26  Identities=35%  Similarity=0.408  Sum_probs=23.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la  147 (352)
                      -+.+|+++-|+|.+||||||||+-+.
T Consensus       345 ~ikrGelvFliG~NGsGKST~~~LLt  370 (546)
T COG4615         345 TIKRGELVFLIGGNGSGKSTLAMLLT  370 (546)
T ss_pred             EEecCcEEEEECCCCCcHHHHHHHHh
Confidence            47899999999999999999999543

>TIGR02203 MsbA_lipidA lipid A export permease/ATP-binding protein MsbA

Probab=98.31  E-value=3.6e-06  Score=85.38  Aligned_cols=28  Identities=29%  Similarity=0.322  Sum_probs=24.6

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      =+++|+.+.|+|++|+|||||+..++..
T Consensus       354 ~i~~G~~v~IvG~sGsGKSTLl~lL~gl  381 (571)
T TIGR02203       354 VIEPGETVALVGRSGSGKSTLVNLIPRF  381 (571)
T ss_pred             EecCCCEEEEECCCCCCHHHHHHHHHhc
Confidence            4789999999999999999999966543

This family consists of a single polypeptide chain transporter in the ATP-binding cassette (ABC) transporter family, MsbA, which exports lipid A. It may also act in multidrug resistance. Lipid A, a part of lipopolysaccharide, is found in the outer leaflet of the outer membrane of most Gram-negative bacteria. Members of this family are restricted to the Proteobacteria (although lipid A is more broadly distributed) and often are clustered with lipid A biosynthesis genes.

>PRK10790 putative multidrug transporter membrane\ATP-binding components; Provisional

Probab=98.31  E-value=1.8e-06  Score=88.00  Aligned_cols=27  Identities=26%  Similarity=0.321  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      =+++|+.+.|+|++|||||||+.-++.
T Consensus       363 ~i~~Ge~iaIvG~SGsGKSTLl~lL~g  389 (592)
T PRK10790        363 SVPSRGFVALVGHTGSGKSTLASLLMG  389 (592)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhc
Confidence            478999999999999999999996654

>PRK14235 phosphate transporter ATP-binding protein; Provisional

Probab=98.31  E-value=1.5e-06  Score=79.50  Aligned_cols=29  Identities=21%  Similarity=0.251  Sum_probs=25.6

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      -+++|+++.|.|++|+|||||+..++...
T Consensus        41 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   69 (267)
T PRK14235         41 DIPEKTVTAFIGPSGCGKSTFLRCLNRMN   69 (267)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            57899999999999999999999776543

>PRK10762 D-ribose transporter ATP binding protein; Provisional

Probab=98.30  E-value=4.9e-06  Score=83.03  Aligned_cols=58  Identities=10%  Similarity=0.198  Sum_probs=41.0

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +++++++|+.++.+..        ..+    ..+.+.|+.++++ |.+||+++|-..                  .+...
T Consensus       413 ~p~lllLDEPt~~LD~--------~~~----~~l~~~l~~~~~~-g~tviivtHd~~------------------~~~~~  461 (501)
T PRK10762        413 RPKVLILDEPTRGVDV--------GAK----KEIYQLINQFKAE-GLSIILVSSEMP------------------EVLGM  461 (501)
T ss_pred             CCCEEEEcCCCCCCCH--------hHH----HHHHHHHHHHHHC-CCEEEEEcCCHH------------------HHHhh
Confidence            7899999998877532        222    3677777887665 899999999654                  13456


Q ss_pred             cceEEEEEe
Q 047388          301 VTIRLMFRK  309 (352)
Q Consensus       301 ~~~~i~L~~  309 (352)
                      +|.++.|..
T Consensus       462 ~d~v~~l~~  470 (501)
T PRK10762        462 SDRILVMHE  470 (501)
T ss_pred             CCEEEEEEC
Confidence            777777764

>PRK13409 putative ATPase RIL; Provisional

Probab=98.30  E-value=8.7e-06  Score=82.54  Aligned_cols=46  Identities=17%  Similarity=0.233  Sum_probs=35.5

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      .+++++++|+.++.+.        ...|    ..+.+.|++++++.+.+||+++|-..
T Consensus       470 ~~p~llLLDEPt~~LD--------~~~~----~~l~~~l~~l~~~~g~tviivsHD~~  515 (590)
T PRK13409        470 RDADLYLLDEPSAHLD--------VEQR----LAVAKAIRRIAEEREATALVVDHDIY  515 (590)
T ss_pred             cCCCEEEEeCCccCCC--------HHHH----HHHHHHHHHHHHhCCCEEEEEeCCHH
Confidence            3799999999988753        2333    37778888998888999999999543

>PRK15064 ABC transporter ATP-binding protein; Provisional

Probab=98.30  E-value=1.5e-05  Score=80.12  Aligned_cols=27  Identities=19%  Similarity=0.161  Sum_probs=24.4

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -|.+|+++.|.|++|||||||+..++.
T Consensus        23 ~i~~Ge~~~liG~NGsGKSTLl~~l~G   49 (530)
T PRK15064         23 KFGGGNRYGLIGANGCGKSTFMKILGG   49 (530)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhC
Confidence            578999999999999999999996654

>PRK14240 phosphate transporter ATP-binding protein; Provisional

Probab=98.30  E-value=1.6e-06  Score=78.48  Aligned_cols=28  Identities=29%  Similarity=0.360  Sum_probs=24.8

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++|+++.|.|++|||||||+..++..
T Consensus        25 ~i~~Ge~~~i~G~nGsGKSTLl~~i~G~   52 (250)
T PRK14240         25 DIEENQVTALIGPSGCGKSTFLRTLNRM   52 (250)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            4779999999999999999999977653

>TIGR03269 met_CoM_red_A2 methyl coenzyme M reductase system, component A2

Probab=98.30  E-value=7.9e-06  Score=81.98  Aligned_cols=59  Identities=12%  Similarity=0.167  Sum_probs=43.1

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +++++++|+.++.+..        ..+    ..+.+.|++++++++.+||+++|-...                  +...
T Consensus       445 ~p~lLllDEPt~~LD~--------~~~----~~l~~~l~~l~~~~g~tvi~vsHd~~~------------------~~~~  494 (520)
T TIGR03269       445 EPRIVILDEPTGTMDP--------ITK----VDVTHSILKAREEMEQTFIIVSHDMDF------------------VLDV  494 (520)
T ss_pred             CCCEEEEeCCcccCCH--------HHH----HHHHHHHHHHHHHcCcEEEEEeCCHHH------------------HHHh
Confidence            7999999998877532        222    367788888888889999999996541                  3456


Q ss_pred             cceEEEEEe
Q 047388          301 VTIRLMFRK  309 (352)
Q Consensus       301 ~~~~i~L~~  309 (352)
                      +|.++.|..
T Consensus       495 ~d~i~~l~~  503 (520)
T TIGR03269       495 CDRAALMRD  503 (520)
T ss_pred             CCEEEEEEC
Confidence            777777764

The enzyme that catalyzes the final step in methanogenesis, methyl coenzyme M reductase, contains alpha, beta, and gamma chains. In older literature, the complex of alpha, beta, and gamma chains was termed component C, while this single chain protein was termed methyl coenzyme M reductase system component A2.

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=98.29  E-value=7.8e-06  Score=74.57  Aligned_cols=146  Identities=14%  Similarity=0.034  Sum_probs=71.9

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCccc-ccccEEEEecCCHHH
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGA-VLDNIIYARAYTYEH  205 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~-~~~~i~~~~~~~~~~  205 (352)
                      ..+.|.|+||+|||||+..++.....       +.+-++++...-.....-.+++..++.-++. +-.+..+...  ...
T Consensus       112 ~~~~i~g~~g~GKttl~~~l~~~~~~-------~~G~i~~~g~~v~~~d~~~ei~~~~~~~~q~~~~~r~~v~~~--~~k  182 (270)
T TIGR02858       112 LNTLIISPPQCGKTTLLRDLARILST-------GISQLGLRGKKVGIVDERSEIAGCVNGVPQHDVGIRTDVLDG--CPK  182 (270)
T ss_pred             eEEEEEcCCCCCHHHHHHHHhCccCC-------CCceEEECCEEeecchhHHHHHHHhccccccccccccccccc--chH
Confidence            57899999999999999977654332       2333455443321111123444444433321 1111111111  111


Q ss_pred             HHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCccc
Q 047388          206 QYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFI  285 (352)
Q Consensus       206 ~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~  285 (352)
                       ..   .+...+...+|+++++|++...               .   .+...++.+ + .|.++|+++|-..- +..   
T Consensus       183 -~~---~~~~~i~~~~P~villDE~~~~---------------e---~~~~l~~~~-~-~G~~vI~ttH~~~~-~~~---  234 (270)
T TIGR02858       183 -AE---GMMMLIRSMSPDVIVVDEIGRE---------------E---DVEALLEAL-H-AGVSIIATAHGRDV-EDL---  234 (270)
T ss_pred             -HH---HHHHHHHhCCCCEEEEeCCCcH---------------H---HHHHHHHHH-h-CCCEEEEEechhHH-HHH---
Confidence             11   1233344468999999996321               1   122222332 2 58999999995321 100   


Q ss_pred             CCCCCCCcchhhh-hccceEEEEEeec
Q 047388          286 SDPKKPAGGHVLA-HAVTIRLMFRKGK  311 (352)
Q Consensus       286 ~~~~~~~gg~~~~-~~~~~~i~L~~~~  311 (352)
                        ...|.+...+. .+++..+.|++.+
T Consensus       235 --~~r~~~~~l~~~~~~~r~i~L~~~~  259 (270)
T TIGR02858       235 --YKRPVFKELIENEAFERYVVLSRRK  259 (270)
T ss_pred             --HhChHHHHHHhcCceEEEEEEecCC
Confidence              01233333333 3456666666543

Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.

>PRK14273 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.29  E-value=2.2e-06  Score=77.74  Aligned_cols=27  Identities=30%  Similarity=0.320  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      =+++|+++.|.|++|+|||||+..++.
T Consensus        29 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G   55 (254)
T PRK14273         29 KILKNSITALIGPSGCGKSTFLRTLNR   55 (254)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhc
Confidence            478999999999999999999997654

>cd03289 ABCC_CFTR2 The CFTR subfamily domain 2

Probab=98.29  E-value=3.9e-06  Score=77.00  Aligned_cols=29  Identities=24%  Similarity=0.288  Sum_probs=25.3

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      -+++|+++.|+|++|+|||||+..++...
T Consensus        26 ~I~~Ge~~~IvG~nGsGKSTLl~~L~gl~   54 (275)
T cd03289          26 SISPGQRVGLLGRTGSGKSTLLSAFLRLL   54 (275)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhhhc
Confidence            57899999999999999999999776543

The cystic fibrosis transmembrane regulator (CFTR), the product of the gene mutated in patients with cystic fibrosis, has adapted the ABC transporter structural motif to form a tightly regulated anion channel at the apical surface of many epithelia. Use of the term assembly of a functional ion channel implies the coming together of subunits or at least smaller not-yet functional components of the active whole. In fact, on the basis of current knowledge only the CFTR polypeptide itself is required to form an ATP- and protein kinase A-dependent low-conductance chloride channel of the type present in the apical membrane of many epithelial cells. CFTR displays the typical organization (IM-ABC)2 and carries a characteristic hydrophilic R-domain that separates IM1-ABC1 from IM2-ABC2.

>COG4181 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]

Probab=98.28  E-value=1.1e-06  Score=73.06  Aligned_cols=43  Identities=9%  Similarity=0.074  Sum_probs=32.4

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQV  275 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~  275 (352)
                      .|++++-|+.+.-+          ..  ..-.++...|-.+.+++|.|.|+++|-
T Consensus       164 ~P~vLfADEPTGNL----------D~--~Tg~~iaDLlF~lnre~G~TlVlVTHD  206 (228)
T COG4181         164 RPDVLFADEPTGNL----------DR--ATGDKIADLLFALNRERGTTLVLVTHD  206 (228)
T ss_pred             CCCEEeccCCCCCc----------ch--hHHHHHHHHHHHHhhhcCceEEEEeCC
Confidence            68888888776442          21  122478888999999999999999984

>CHL00131 ycf16 sulfate ABC transporter protein; Validated

Probab=98.28  E-value=1.5e-05  Score=72.13  Aligned_cols=27  Identities=30%  Similarity=0.466  Sum_probs=24.4

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|+|++|+|||||+..++.
T Consensus        29 ~i~~Ge~~~i~G~nGsGKSTLl~~i~G   55 (252)
T CHL00131         29 SINKGEIHAIMGPNGSGKSTLSKVIAG   55 (252)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHcC
Confidence            578999999999999999999997654

>TIGR02633 xylG D-xylose ABC transporter, ATP-binding protein

Probab=98.28  E-value=5.2e-06  Score=82.86  Aligned_cols=27  Identities=26%  Similarity=0.348  Sum_probs=24.4

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|||||||+..++.
T Consensus        23 ~i~~Ge~~~liG~nGsGKSTLl~~i~G   49 (500)
T TIGR02633        23 EVRPGECVGLCGENGAGKSTLMKILSG   49 (500)
T ss_pred             EEeCCcEEEEECCCCCCHHHHHHHHhC
Confidence            678999999999999999999997654

Several bacterial species have enzymes xylose isomerase and xylulokinase enzymes for xylose utilization. Members of this protein family are the ATP-binding cassette (ABC) subunit of the known or predicted high-affinity xylose ABC transporter for xylose import. These genes, which closely resemble other sugar transport ABC transporter genes, typically are encoded near xylose utilization enzymes and regulatory proteins. Note that this form of the transporter contains two copies of the ABC transporter domain (pfam00005).

>PRK14253 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.28  E-value=7.3e-06  Score=74.11  Aligned_cols=28  Identities=25%  Similarity=0.271  Sum_probs=24.9

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+.+|+++.|.|++|+|||||+..++..
T Consensus        25 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   52 (249)
T PRK14253         25 PIPARQVTALIGPSGCGKSTLLRCLNRM   52 (249)
T ss_pred             EecCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            4789999999999999999999977653

>PRK15134 microcin C ABC transporter ATP-binding protein YejF; Provisional

Probab=98.28  E-value=7.6e-06  Score=82.26  Aligned_cols=59  Identities=14%  Similarity=0.216  Sum_probs=43.1

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +++++++|+.++.+..        ..+    ..+...|++++++++.+||+++|-...                  +...
T Consensus       443 ~p~llllDEPt~~LD~--------~~~----~~l~~~l~~~~~~~~~tvi~vsHd~~~------------------~~~~  492 (529)
T PRK15134        443 KPSLIILDEPTSSLDK--------TVQ----AQILALLKSLQQKHQLAYLFISHDLHV------------------VRAL  492 (529)
T ss_pred             CCCEEEeeCCccccCH--------HHH----HHHHHHHHHHHHhhCCEEEEEeCCHHH------------------HHHh
Confidence            7899999998877532        222    377788888888889999999996541                  3456


Q ss_pred             cceEEEEEe
Q 047388          301 VTIRLMFRK  309 (352)
Q Consensus       301 ~~~~i~L~~  309 (352)
                      +|.++.|..
T Consensus       493 ~d~i~~l~~  501 (529)
T PRK15134        493 CHQVIVLRQ  501 (529)
T ss_pred             cCeEEEEEC
Confidence            777777764

>PRK11288 araG L-arabinose transporter ATP-binding protein; Provisional

Probab=98.28  E-value=5.9e-06  Score=82.47  Aligned_cols=27  Identities=26%  Similarity=0.487  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|||||||+..++.
T Consensus       275 ~i~~Ge~~~iiG~NGsGKSTLlk~l~G  301 (501)
T PRK11288        275 SVRAGEIVGLFGLVGAGRSELMKLLYG  301 (501)
T ss_pred             EEeCCcEEEEEcCCCCCHHHHHHHHcC
Confidence            468999999999999999999997664

>TIGR02857 CydD thiol reductant ABC exporter, CydD subunit

Probab=98.27  E-value=3.7e-06  Score=84.48  Aligned_cols=27  Identities=22%  Similarity=0.265  Sum_probs=24.3

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+.+.|+|++|||||||+.-++.
T Consensus       344 ~i~~G~~~~ivG~sGsGKSTL~~ll~g  370 (529)
T TIGR02857       344 TVPPGERVALVGPSGAGKSTLLNLLLG  370 (529)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhc
Confidence            578999999999999999999996654

Unfortunately, the gene symbol nomenclature adopted based on this operon in B. subtilis assigns cydC to the third gene in the operon where this gene is actually homologous to the E. coli cydD gene. We have chosen to name all homologs in this family in accordance with the precedence of publication of the E. coli name, CydD

>TIGR03796 NHPM_micro_ABC1 NHPM bacteriocin system ABC transporter, peptidase/ATP-binding protein

Probab=98.27  E-value=2.6e-06  Score=88.62  Aligned_cols=28  Identities=21%  Similarity=0.286  Sum_probs=24.5

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      =+++|+.+.|+|++|||||||+.-++..
T Consensus       501 ~i~~Ge~vaIvG~sGsGKSTLlklL~gl  528 (710)
T TIGR03796       501 TLQPGQRVALVGGSGSGKSTIAKLVAGL  528 (710)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999999999866543

This protein describes an multidomain ABC transporter subunit that is one of three protein families associated with some regularity with a distinctive family of putative bacteriocins. It includes a bacteriocin-processing peptidase domain at the N-terminus. Model TIGR03793 describes a conserved propeptide region for this bacteriocin family, unusual because it shows obvious homology a region of the enzyme nitrile hydratase up to the classic Gly-Gly cleavage motif. This family is therefore predicted to be a subunit of a bacteriocin processing and export system characteristic to this system that we designate NHPM, Nitrile Hydratase Propeptide Microcin.

>PRK14270 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.27  E-value=2.5e-06  Score=77.25  Aligned_cols=28  Identities=25%  Similarity=0.237  Sum_probs=25.0

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++|+++.|.|++|+|||||+..++..
T Consensus        26 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~   53 (251)
T PRK14270         26 PIYENKITALIGPSGCGKSTFLRCLNRM   53 (251)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHhc
Confidence            4789999999999999999999977653

>TIGR03375 type_I_sec_LssB type I secretion system ATPase, LssB family

Probab=98.26  E-value=2.5e-06  Score=88.58  Aligned_cols=27  Identities=30%  Similarity=0.370  Sum_probs=24.0

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      =+++|+.+.|+|++|||||||+.-++.
T Consensus       487 ~i~~G~~iaIvG~sGsGKSTLlklL~g  513 (694)
T TIGR03375       487 TIRPGEKVAIIGRIGSGKSTLLKLLLG  513 (694)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhc
Confidence            478999999999999999999986654

Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion. This model is related to models TIGR01842 and TIGR01846, and to bacteriocin ABC transporters that cleave their substrates during export.

>PRK13549 xylose transporter ATP-binding subunit; Provisional

Probab=98.26  E-value=5.9e-06  Score=82.57  Aligned_cols=27  Identities=26%  Similarity=0.384  Sum_probs=24.5

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|||||||+..++.
T Consensus       284 ~i~~Ge~~~l~G~NGsGKSTLlk~i~G  310 (506)
T PRK13549        284 SLRRGEILGIAGLVGAGRTELVQCLFG  310 (506)
T ss_pred             EEcCCcEEEEeCCCCCCHHHHHHHHhC
Confidence            578999999999999999999997764

>COG4167 SapF ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=98.26  E-value=2.4e-05  Score=66.00  Aligned_cols=60  Identities=18%  Similarity=0.387  Sum_probs=43.6

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      .|+++|.|..-.-+        +++-|.    ++++.+..+-.+.|+..|.++|--.                  .+.|.
T Consensus       167 ~P~iIIaDeAl~~L--------D~smrs----Ql~NL~LeLQek~GiSyiYV~QhlG------------------~iKHi  216 (267)
T COG4167         167 RPKIIIADEALASL--------DMSMRS----QLINLMLELQEKQGISYIYVTQHIG------------------MIKHI  216 (267)
T ss_pred             CCcEEEehhhhhhc--------cHHHHH----HHHHHHHHHHHHhCceEEEEechhh------------------Hhhhh
Confidence            78999999743221        234443    7788888999999999998876431                  36888


Q ss_pred             cceEEEEEee
Q 047388          301 VTIRLMFRKG  310 (352)
Q Consensus       301 ~~~~i~L~~~  310 (352)
                      +|.+|.+..+
T Consensus       217 ~D~viVM~EG  226 (267)
T COG4167         217 SDQVLVMHEG  226 (267)
T ss_pred             cccEEEEecC
Confidence            8998888754

>PRK14274 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.26  E-value=2.8e-06  Score=77.29  Aligned_cols=28  Identities=25%  Similarity=0.372  Sum_probs=25.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++|+++.|.|++|+|||||+..++..
T Consensus        34 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G~   61 (259)
T PRK14274         34 SIPENEVTAIIGPSGCGKSTFIKTLNLM   61 (259)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            4789999999999999999999977754

>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=98.26  E-value=2.7e-05  Score=66.29  Aligned_cols=90  Identities=21%  Similarity=0.241  Sum_probs=52.9

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChh---hHHHHHHHcCCCcccccccEEEEecCCHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPD---RIVPIAERFGMDPGAVLDNIIYARAYTYE  204 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~---rl~~~~~~~~~~~~~~~~~i~~~~~~~~~  204 (352)
                      ++.+.|+||+|||+++..++.....      .+.++++++++.. .+.   ++..++++.+         +.+.......
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~~~------~g~~v~~i~~D~~-~~~~~~~l~~~~~~~~---------~~~~~~~~~~   65 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYLKK------KGKKVLLVAADTY-RPAAIEQLRVLGEQVG---------VPVFEEGEGK   65 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH------CCCcEEEEEcCCC-ChHHHHHHHHhcccCC---------eEEEecCCCC
Confidence            6789999999999999999887665      4678999998742 322   1222222222         2222222112


Q ss_pred             HHHHHHHHHHHHhhcCCceEEEEcccccc
Q 047388          205 HQYNLLLGLAAKMSEEPFRLLIVDSVIAL  233 (352)
Q Consensus       205 ~~~~~l~~l~~~l~~~~~~lvvIDsl~~l  233 (352)
                      ...+++.+........+.++||||.....
T Consensus        66 ~~~~~~~~~~~~~~~~~~d~viiDt~g~~   94 (173)
T cd03115          66 DPVSIAKRAIEHAREENFDVVIVDTAGRL   94 (173)
T ss_pred             CHHHHHHHHHHHHHhCCCCEEEEECcccc
Confidence            22222322222233457889999986544

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.

>PRK15134 microcin C ABC transporter ATP-binding protein YejF; Provisional

Probab=98.25  E-value=2.2e-05  Score=78.98  Aligned_cols=46  Identities=22%  Similarity=0.360  Sum_probs=34.7

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      .+|+++++|+.++.+..        ..+    ..+.+.|++++++.+.+||+++|-..
T Consensus       173 ~~p~llllDEPt~~LD~--------~~~----~~l~~~l~~l~~~~g~tvi~vtHd~~  218 (529)
T PRK15134        173 TRPELLIADEPTTALDV--------SVQ----AQILQLLRELQQELNMGLLFITHNLS  218 (529)
T ss_pred             cCCCEEEEcCCCCccCH--------HHH----HHHHHHHHHHHHhcCCeEEEEcCcHH
Confidence            37999999999887532        222    36777888888777999999999643

>TIGR02204 MsbA_rel ABC transporter, permease/ATP-binding protein

Probab=98.25  E-value=4.7e-06  Score=84.62  Aligned_cols=29  Identities=21%  Similarity=0.249  Sum_probs=25.5

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      =+++|+.+.|.|++|+|||||+..++...
T Consensus       362 ~i~~Ge~i~IvG~sGsGKSTLlklL~gl~  390 (576)
T TIGR02204       362 TVRPGETVALVGPSGAGKSTLFQLLLRFY  390 (576)
T ss_pred             EecCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            47899999999999999999999776543

This protein is related to a Proteobacterial ATP transporter that exports lipid A and to eukaryotic P-glycoproteins.

>PRK14267 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.25  E-value=1.3e-05  Score=72.69  Aligned_cols=28  Identities=21%  Similarity=0.250  Sum_probs=24.6

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+.+|+++.|.|++|+|||||+..++..
T Consensus        26 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G~   53 (253)
T PRK14267         26 KIPQNGVFALMGPSGCGKSTLLRTFNRL   53 (253)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            5789999999999999999999966543

>TIGR01193 bacteriocin_ABC ABC-type bacteriocin transporter

Probab=98.25  E-value=2.7e-06  Score=88.49  Aligned_cols=27  Identities=33%  Similarity=0.314  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      =+++|+.+.|+|++|||||||+.-++.
T Consensus       496 ~i~~G~~vaIvG~SGsGKSTLlklL~g  522 (708)
T TIGR01193       496 TIKMNSKTTIVGMSGSGKSTLAKLLVG  522 (708)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhc
Confidence            478999999999999999999986654

This model describes ABC-type bacteriocin transporter. The amino terminal domain (pfam03412) processes the N-terminal leader peptide from the bacteriocin while C-terminal domains resemble ABC transporter membrane protein and ATP-binding cassette domain. In general, bacteriocins are agents which are responsible for killing or inhibiting the closely related species or even different strains of the same species. Bacteriocins are usually encoded by bacterial plasmids. Bacteriocins are named after the species and hence in literature one encounters various names e.g., leucocin from Leuconostic geldium; pedicocin from Pedicoccus acidilactici; sakacin from Lactobacillus sake etc.

>PRK10982 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional

Probab=98.24  E-value=1.2e-05  Score=80.16  Aligned_cols=58  Identities=9%  Similarity=0.169  Sum_probs=41.2

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +++++++|+.++.+..        ..+    ..+.+.|..+++ .+.|||+++|-...                  +...
T Consensus       409 ~p~illLDEPt~gLD~--------~~~----~~~~~~l~~l~~-~~~tvi~vsHd~~~------------------~~~~  457 (491)
T PRK10982        409 QPEILMLDEPTRGIDV--------GAK----FEIYQLIAELAK-KDKGIIIISSEMPE------------------LLGI  457 (491)
T ss_pred             CCCEEEEcCCCcccCh--------hHH----HHHHHHHHHHHH-CCCEEEEECCChHH------------------HHhh
Confidence            7999999999877532        222    266667777765 58999999996541                  3557


Q ss_pred             cceEEEEEe
Q 047388          301 VTIRLMFRK  309 (352)
Q Consensus       301 ~~~~i~L~~  309 (352)
                      +|.++.+..
T Consensus       458 ~d~v~~l~~  466 (491)
T PRK10982        458 TDRILVMSN  466 (491)
T ss_pred             CCEEEEEEC
Confidence            788888864

>cd03248 ABCC_TAP TAP, the Transporter Associated with Antigen Processing; TAP is essential for peptide delivery from the cytosol into the lumen of the endoplasmic reticulum (ER), where these peptides are loaded on major histocompatibility complex (MHC) I molecules

Probab=98.24  E-value=6.7e-06  Score=73.22  Aligned_cols=28  Identities=25%  Similarity=0.322  Sum_probs=24.6

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      =+++|+++.|.|++|+|||||+..++..
T Consensus        36 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   63 (226)
T cd03248          36 TLHPGEVTALVGPSGSGKSTVVALLENF   63 (226)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            5789999999999999999999966543

Loaded MHC I leave the ER and display their antigenic cargo on the cell surface to cytotoxic T cells. Subsequently, virus-infected or malignantly transformed cells can be eliminated. TAP belongs to the large family of ATP-binding cassette (ABC) transporters, which translocate a vast variety of solutes across membranes.

>PRK14259 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.24  E-value=3.8e-06  Score=76.97  Aligned_cols=28  Identities=25%  Similarity=0.367  Sum_probs=24.9

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++|+++.|.|++|||||||+..++..
T Consensus        35 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl   62 (269)
T PRK14259         35 DIPRGKVTALIGPSGCGKSTVLRSLNRM   62 (269)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            5789999999999999999999977653

>cd03234 ABCG_White The White subfamily represents ABC transporters homologous to the Drosophila white gene, which acts as a dimeric importer for eye pigment precursors

Probab=98.24  E-value=2.6e-05  Score=69.49  Aligned_cols=28  Identities=29%  Similarity=0.425  Sum_probs=24.9

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++|+++.|+|++|+|||||+..++..
T Consensus        29 ~i~~Ge~~~l~G~nGsGKSTLlk~l~G~   56 (226)
T cd03234          29 HVESGQVMAILGSSGSGKTTLLDAISGR   56 (226)
T ss_pred             EEcCCeEEEEECCCCCCHHHHHHHHhCc
Confidence            5789999999999999999999976644

The eye pigmentation of Drosophila is developed from the synthesis and deposition in the cells of red pigments, which are synthesized from guanine, and brown pigments, which are synthesized from tryptophan. The pigment precursors are encoded by the white, brown, and scarlet genes, respectively. Evidence from genetic and biochemical studies suggest that the White and Brown proteins function as heterodimers to import guanine, while the White and Scarlet proteins function to import tryptophan. However, a recent study also suggests that White may be involved in the transport of a metabolite, such as 3-hydroxykynurenine, across intracellular membranes. Mammalian ABC transporters belonging to the White subfamily (ABCG1, ABCG5, and ABCG8) have been shown to be involved in the regulation of lipid-trafficking mechanisms in

>PRK10636 putative ABC transporter ATP-binding protein; Provisional

Probab=98.23  E-value=3.1e-05  Score=79.52  Aligned_cols=27  Identities=26%  Similarity=0.262  Sum_probs=24.4

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -|.+|+++.|+|++|||||||+..++.
T Consensus        23 ~i~~Ge~v~LvG~NGsGKSTLLkiL~G   49 (638)
T PRK10636         23 TINPGQKVGLVGKNGCGKSTLLALLKN   49 (638)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhC
Confidence            588999999999999999999996654

>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional

Probab=98.23  E-value=3.9e-06  Score=85.47  Aligned_cols=27  Identities=22%  Similarity=0.283  Sum_probs=23.8

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      =+++|+.+.|+|++|+|||||+.-++.
T Consensus       357 ~i~~G~~v~IvG~sGsGKSTLl~lL~g  383 (588)
T PRK13657        357 EAKPGQTVAIVGPTGAGKSTLINLLQR  383 (588)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhc
Confidence            477999999999999999999986643

>cd03270 ABC_UvrA_I The excision repair protein UvrA domain I; 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=98.23  E-value=2.7e-05  Score=69.41  Aligned_cols=43  Identities=12%  Similarity=0.190  Sum_probs=30.3

Q ss_pred             ceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          222 FRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       222 ~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      ++++++|+.+..+..        ..+    ..+.+.|+++++ .+.+||+++|-..
T Consensus       158 ~~llllDEPt~gLD~--------~~~----~~l~~~l~~~~~-~g~tii~itH~~~  200 (226)
T cd03270         158 GVLYVLDEPSIGLHP--------RDN----DRLIETLKRLRD-LGNTVLVVEHDED  200 (226)
T ss_pred             CCEEEEeCCccCCCH--------HHH----HHHHHHHHHHHh-CCCEEEEEEeCHH
Confidence            479999998876432        222    366777777765 5899999998653

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.

>PRK10744 pstB phosphate transporter ATP-binding protein; Provisional

Probab=98.23  E-value=6.3e-06  Score=75.06  Aligned_cols=28  Identities=25%  Similarity=0.306  Sum_probs=25.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++|+++.|.|++|+|||||+..++..
T Consensus        35 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   62 (260)
T PRK10744         35 DIAKNQVTAFIGPSGCGKSTLLRTFNRM   62 (260)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            5789999999999999999999977654

>COG4618 ArpD ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]

Probab=98.23  E-value=7.9e-06  Score=78.71  Aligned_cols=133  Identities=16%  Similarity=0.154  Sum_probs=73.3

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcc-------ccccc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPG-------AVLDN  194 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~-------~~~~~  194 (352)
                      -+.+|+...|.||||||||||+..+....  ++     ..+.+.+|.-+ +.+-.-.+.-+..|+-|+       ++-+|
T Consensus       358 ~l~~G~~lgIIGPSgSGKSTLaR~lvG~w--~p-----~~G~VRLDga~-l~qWd~e~lG~hiGYLPQdVeLF~GTIaeN  429 (580)
T COG4618         358 ALQAGEALGIIGPSGSGKSTLARLLVGIW--PP-----TSGSVRLDGAD-LRQWDREQLGRHIGYLPQDVELFDGTIAEN  429 (580)
T ss_pred             EecCCceEEEECCCCccHHHHHHHHHccc--cc-----CCCcEEecchh-hhcCCHHHhccccCcCcccceecCCcHHHH
Confidence            36799999999999999999999665433  22     23345555432 111111223334455443       23345


Q ss_pred             EEEEe-cCCHHHHHHH---------HHHHH-------------------------HHhhcCCceEEEEcccccchhcccC
Q 047388          195 IIYAR-AYTYEHQYNL---------LLGLA-------------------------AKMSEEPFRLLIVDSVIALFRVDFT  239 (352)
Q Consensus       195 i~~~~-~~~~~~~~~~---------l~~l~-------------------------~~l~~~~~~lvvIDsl~~l~~~~~~  239 (352)
                      |.-+. ..+.+...+.         +.+++                         +.+ -.+|.+||+|+..+-+..   
T Consensus       430 IaRf~~~~d~~kIieAA~lAgvHelIl~lP~GYdT~iG~~G~~LSgGQRQRIaLARAl-YG~P~lvVLDEPNsNLD~---  505 (580)
T COG4618         430 IARFGEEADPEKVIEAARLAGVHELILRLPQGYDTRIGEGGATLSGGQRQRIALARAL-YGDPFLVVLDEPNSNLDS---  505 (580)
T ss_pred             HHhccccCCHHHHHHHHHHcChHHHHHhCcCCccCccCCCCCCCCchHHHHHHHHHHH-cCCCcEEEecCCCCCcch---
Confidence            44333 2233322221         11110                         111 127999999998776431   


Q ss_pred             CCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          240 GRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       240 ~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                          .+|.     .+.+.+..+ |..|+++|+++|--
T Consensus       506 ----~GE~-----AL~~Ai~~~-k~rG~~vvviaHRP  532 (580)
T COG4618         506 ----EGEA-----ALAAAILAA-KARGGTVVVIAHRP  532 (580)
T ss_pred             ----hHHH-----HHHHHHHHH-HHcCCEEEEEecCH
Confidence                2332     455555554 45799999999854

>PRK15439 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional

Probab=98.23  E-value=1.1e-05  Score=80.82  Aligned_cols=58  Identities=22%  Similarity=0.278  Sum_probs=41.0

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +++++++|+.++-+..        ..+    ..+.+.|+++++ .+.+||+++|-..                  .+...
T Consensus       421 ~p~lLlLDEPt~gLD~--------~~~----~~l~~~l~~l~~-~g~tiIivsHd~~------------------~i~~~  469 (510)
T PRK15439        421 SPQLLIVDEPTRGVDV--------SAR----NDIYQLIRSIAA-QNVAVLFISSDLE------------------EIEQM  469 (510)
T ss_pred             CCCEEEECCCCcCcCh--------hHH----HHHHHHHHHHHh-CCCEEEEECCCHH------------------HHHHh
Confidence            7899999998877532        222    266677777776 4899999999654                  13556


Q ss_pred             cceEEEEEe
Q 047388          301 VTIRLMFRK  309 (352)
Q Consensus       301 ~~~~i~L~~  309 (352)
                      +|.++.|..
T Consensus       470 ~d~i~~l~~  478 (510)
T PRK15439        470 ADRVLVMHQ  478 (510)
T ss_pred             CCEEEEEEC
Confidence            777777764

>PRK13546 teichoic acids export protein ATP-binding subunit; Provisional

Probab=98.22  E-value=3e-05  Score=70.81  Aligned_cols=27  Identities=22%  Similarity=0.233  Sum_probs=24.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|+|||||+..++.
T Consensus        46 ~i~~Ge~~~liG~NGsGKSTLlk~L~G   72 (264)
T PRK13546         46 KAYEGDVIGLVGINGSGKSTLSNIIGG   72 (264)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999999999996654

>PRK14258 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.22  E-value=1e-05  Score=73.69  Aligned_cols=59  Identities=7%  Similarity=0.100  Sum_probs=41.5

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +++++++|+.++-+..        ..+    ..+...|+.++++.+.+||+++|-..                  .+...
T Consensus       168 ~p~vllLDEP~~~LD~--------~~~----~~l~~~l~~l~~~~~~tiiivsH~~~------------------~i~~~  217 (261)
T PRK14258        168 KPKVLLMDEPCFGLDP--------IAS----MKVESLIQSLRLRSELTMVIVSHNLH------------------QVSRL  217 (261)
T ss_pred             CCCEEEEeCCCccCCH--------HHH----HHHHHHHHHHHHhCCCEEEEEECCHH------------------HHHHh
Confidence            7899999998876432        222    26677778877666899999988654                  13556


Q ss_pred             cceEEEEEe
Q 047388          301 VTIRLMFRK  309 (352)
Q Consensus       301 ~~~~i~L~~  309 (352)
                      +|.++.+..
T Consensus       218 ~d~i~~l~~  226 (261)
T PRK14258        218 SDFTAFFKG  226 (261)
T ss_pred             cCEEEEEcc
Confidence            677777764

>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.21  E-value=1.3e-05  Score=72.56  Aligned_cols=28  Identities=29%  Similarity=0.317  Sum_probs=24.9

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++|+++.|.|++|+|||||+..++..
T Consensus        25 ~i~~Ge~~~i~G~nGsGKSTLl~~i~G~   52 (250)
T PRK14247         25 EIPDNTITALMGPSGSGKSTLLRVFNRL   52 (250)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            4789999999999999999999977654

>PRK13545 tagH teichoic acids export protein ATP-binding subunit; Provisional

Probab=98.21  E-value=2.8e-05  Score=76.78  Aligned_cols=28  Identities=25%  Similarity=0.296  Sum_probs=24.8

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      --+++|+++.|.|++|+|||||+..++.
T Consensus        45 fsI~~GEivgIiGpNGSGKSTLLkiLaG   72 (549)
T PRK13545         45 FEVPEGEIVGIIGLNGSGKSTLSNLIAG   72 (549)
T ss_pred             EEEeCCCEEEEEcCCCCCHHHHHHHHhC
Confidence            3688999999999999999999997654

>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=98.20  E-value=1.7e-05  Score=64.37  Aligned_cols=41  Identities=17%  Similarity=0.163  Sum_probs=32.7

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT  171 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~  171 (352)
                      .+..+.|.|+||+|||+++..++.....      .+..++|++....
T Consensus        18 ~~~~v~i~G~~G~GKT~l~~~i~~~~~~------~~~~v~~~~~~~~   58 (151)
T cd00009          18 PPKNLLLYGPPGTGKTTLARAIANELFR------PGAPFLYLNASDL   58 (151)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHhhc------CCCCeEEEehhhh
Confidence            4668999999999999999988876543      4667888877543

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.

>PRK10522 multidrug transporter membrane component/ATP-binding component; Provisional

Probab=98.19  E-value=1.6e-05  Score=80.30  Aligned_cols=27  Identities=33%  Similarity=0.336  Sum_probs=24.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+.+.|+|++|||||||+.-++.
T Consensus       345 ~i~~G~~~aivG~sGsGKSTL~~ll~g  371 (547)
T PRK10522        345 TIKRGELLFLIGGNGSGKSTLAMLLTG  371 (547)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999999999986654

>PRK14261 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.19  E-value=4.2e-06  Score=75.88  Aligned_cols=27  Identities=22%  Similarity=0.298  Sum_probs=24.4

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|+|||||+..++.
T Consensus        28 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G   54 (253)
T PRK14261         28 SIPKNRVTALIGPSGCGKSTLLRCFNR   54 (253)
T ss_pred             EECCCcEEEEECCCCCCHHHHHHHHhc
Confidence            478999999999999999999997764

>PRK10789 putative multidrug transporter membrane\ATP-binding components; Provisional

Probab=98.18  E-value=7.1e-06  Score=83.21  Aligned_cols=28  Identities=21%  Similarity=0.275  Sum_probs=24.7

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      =+++|+.+.|+|++|||||||+.-++..
T Consensus       337 ~i~~G~~~~ivG~sGsGKSTLl~ll~g~  364 (569)
T PRK10789        337 TLKPGQMLGICGPTGSGKSTLLSLIQRH  364 (569)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            4789999999999999999999966543

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.18  E-value=0.0001  Score=69.79  Aligned_cols=144  Identities=15%  Similarity=0.049  Sum_probs=79.4

Q ss_pred             HhhhCCCHHHHHHHHHHHHHHhhcCC-CchhhhHHhhhcccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHH
Q 047388           67 TGIKGLSEAKVEKICEAAEKIVNFGY-ITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHT  145 (352)
Q Consensus        67 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~  145 (352)
                      ....|+++.-+.++++.+.+.++..- .+..+++....  ..++.-++.-+.   ..+.+|.++.|+||+|+||||++..
T Consensus       151 L~~~gV~~~~~~~l~~~~~~~~~~~~~~~~~~v~~~~~--~~L~~~l~~~~~---~~~~~~~ii~lvGptGvGKTTt~ak  225 (407)
T PRK12726        151 LKGRGISDTYVADFMQAGRKQFKQVETAHLDDITDWFV--PYLSGKLAVEDS---FDLSNHRIISLIGQTGVGKTTTLVK  225 (407)
T ss_pred             HHHcCCCHHHHHHHHHHHHHhccccccccHHHHHHHHH--HHhcCcEeeCCC---ceecCCeEEEEECCCCCCHHHHHHH
Confidence            33457777667777766655532211 12222222111  112221111111   1245689999999999999999999


Q ss_pred             HHHHhcCCCccCCCCCeEEEEeCCCCCC--hhhHHHHHHHcCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCce
Q 047388          146 LCVCTQLPTNMRGGNGKVAYIDTEGTFR--PDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFR  223 (352)
Q Consensus       146 la~~~~~~~~~gg~~~~vl~i~~e~~~~--~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~  223 (352)
                      +|.....      .+.+|.++++..-..  .+.++..++..++.         +....+..++...+..+.   ...+.+
T Consensus       226 LA~~l~~------~g~~V~lItaDtyR~gAveQLk~yae~lgvp---------v~~~~dp~dL~~al~~l~---~~~~~D  287 (407)
T PRK12726        226 LGWQLLK------QNRTVGFITTDTFRSGAVEQFQGYADKLDVE---------LIVATSPAELEEAVQYMT---YVNCVD  287 (407)
T ss_pred             HHHHHHH------cCCeEEEEeCCccCccHHHHHHHHhhcCCCC---------EEecCCHHHHHHHHHHHH---hcCCCC
Confidence            9877644      567899998874322  23444444444432         222344555444333221   123579


Q ss_pred             EEEEcccccc
Q 047388          224 LLIVDSVIAL  233 (352)
Q Consensus       224 lvvIDsl~~l  233 (352)
                      +|+||.....
T Consensus       288 ~VLIDTAGr~  297 (407)
T PRK12726        288 HILIDTVGRN  297 (407)
T ss_pred             EEEEECCCCC
Confidence            9999987765

>TIGR01842 type_I_sec_PrtD type I secretion system ABC transporter, PrtD family

Probab=98.18  E-value=7.9e-06  Score=82.41  Aligned_cols=28  Identities=25%  Similarity=0.343  Sum_probs=24.7

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      =+++|+.+.|+|++|||||||+.-++..
T Consensus       340 ~i~~G~~~~ivG~sGsGKSTL~~ll~g~  367 (544)
T TIGR01842       340 RLQAGEALAIIGPSGSGKSTLARLIVGI  367 (544)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999999999966543

Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion.

>PRK11819 putative ABC transporter ATP-binding protein; Reviewed

Probab=98.17  E-value=4.9e-05  Score=76.88  Aligned_cols=46  Identities=22%  Similarity=0.161  Sum_probs=32.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCC----CCCeEEEEeCC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRG----GNGKVAYIDTE  169 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg----~~~~vl~i~~e  169 (352)
                      -+++|+++.|.|++|||||||+..++.  ..++..|.    .+..+.|+.-+
T Consensus        29 ~i~~Ge~~~iiG~NGsGKSTLlk~i~G--~~~p~~G~i~~~~~~~i~~v~Q~   78 (556)
T PRK11819         29 SFFPGAKIGVLGLNGAGKSTLLRIMAG--VDKEFEGEARPAPGIKVGYLPQE   78 (556)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhC--CCCCCCceEEecCCCEEEEEecC
Confidence            578999999999999999999996653  33333332    12345666544

>PRK14242 phosphate transporter ATP-binding protein; Provisional

Probab=98.17  E-value=1.7e-05  Score=71.94  Aligned_cols=28  Identities=21%  Similarity=0.279  Sum_probs=25.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++|+++.|.|++|+|||||+..++..
T Consensus        28 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   55 (253)
T PRK14242         28 EFEQNQVTALIGPSGCGKSTFLRCLNRM   55 (253)
T ss_pred             EEeCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            4789999999999999999999977654

>TIGR00958 3a01208 Conjugate Transporter-2 (CT2) Family protein

Probab=98.17  E-value=5.6e-06  Score=86.06  Aligned_cols=28  Identities=25%  Similarity=0.318  Sum_probs=24.8

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++|+.+.|+|++|+|||||+.-++..
T Consensus       503 ~i~~Ge~vaIvG~SGsGKSTLl~lL~gl  530 (711)
T TIGR00958       503 TLHPGEVVALVGPSGSGKSTVAALLQNL  530 (711)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHhc
Confidence            5789999999999999999999976543

>PRK13409 putative ATPase RIL; Provisional

Probab=98.17  E-value=2.2e-05  Score=79.59  Aligned_cols=27  Identities=26%  Similarity=0.229  Sum_probs=23.9

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      =+++|+++.|.|++|+|||||+..++.
T Consensus        95 ~i~~Gev~gLvG~NGaGKSTLlkiL~G  121 (590)
T PRK13409         95 IPKEGKVTGILGPNGIGKTTAVKILSG  121 (590)
T ss_pred             cCCCCCEEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999999999996553

>PRK11160 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=98.17  E-value=7.9e-06  Score=82.94  Aligned_cols=28  Identities=25%  Similarity=0.358  Sum_probs=24.8

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      =+++|+.+.|+|++|+|||||+.-++..
T Consensus       362 ~i~~G~~~aivG~sGsGKSTL~~ll~g~  389 (574)
T PRK11160        362 QIKAGEKVALLGRTGCGKSTLLQLLTRA  389 (574)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999999999966543

>KOG0058 consensus Peptide exporter, ABC superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.16  E-value=1.4e-05  Score=80.16  Aligned_cols=41  Identities=24%  Similarity=0.288  Sum_probs=29.7

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      -++||+++.++||||+||||++.-+ .+.-.|     .. +.+.+|..
T Consensus       490 ti~pGe~vALVGPSGsGKSTiasLL-~rfY~P-----ts-G~IllDG~  530 (716)
T KOG0058|consen  490 TIRPGEVVALVGPSGSGKSTIASLL-LRFYDP-----TS-GRILLDGV  530 (716)
T ss_pred             eeCCCCEEEEECCCCCCHHHHHHHH-HHhcCC-----CC-CeEEECCe
Confidence            5899999999999999999999744 343333     33 34455554

>COG1245 Predicted ATPase, RNase L inhibitor (RLI) homolog [General function prediction only]

Probab=98.16  E-value=2.7e-05  Score=74.25  Aligned_cols=139  Identities=16%  Similarity=0.153  Sum_probs=76.7

Q ss_pred             cCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCC-C----CCeEEEEeCCCCCChhhHHHHHHHcCCCccccccc
Q 047388          120 GGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRG-G----NGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDN  194 (352)
Q Consensus       120 ~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg-~----~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~  194 (352)
                      +|.|..|+++.+.||+|.|||||+..+|.. .. ++.|. .    ..+--||..+-..+...+...+.+-.+....+.. 
T Consensus       361 ~G~i~~gEvigilGpNgiGKTTFvk~LAG~-ik-Pdeg~~~~~~vSyKPQyI~~~~~gtV~~~l~~~~~~~~~~s~~~~-  437 (591)
T COG1245         361 EGEIYDGEVIGILGPNGIGKTTFVKLLAGV-IK-PDEGSEEDLKVSYKPQYISPDYDGTVEDLLRSAIRSAFGSSYFKT-  437 (591)
T ss_pred             CCeeecceEEEEECCCCcchHHHHHHHhcc-cc-CCCCCCccceEeecceeecCCCCCcHHHHHHHhhhhhcccchhHH-
Confidence            478999999999999999999999966543 33 23332 1    1233456555332222222111111111100000 


Q ss_pred             EEEEecCCHHHHHHH---------HHHHH-HHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHH
Q 047388          195 IIYARAYTYEHQYNL---------LLGLA-AKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEE  264 (352)
Q Consensus       195 i~~~~~~~~~~~~~~---------l~~l~-~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~  264 (352)
                       .+..+.+.+.+++.         +.++. ...-....++.++|+.++++.        ..+|.    .+.+.+++++..
T Consensus       438 -ei~~pl~l~~i~e~~v~~LSGGELQRvaIaa~L~reADlYllDEPSA~LD--------vEqR~----~vakvIRR~~e~  504 (591)
T COG1245         438 -EIVKPLNLEDLLERPVDELSGGELQRVAIAAALSREADLYLLDEPSAYLD--------VEQRI----IVAKVIRRFIEN  504 (591)
T ss_pred             -hhcCccchHHHHhcccccCCchhHHHHHHHHHhccccCEEEecCchhhcc--------HHHHH----HHHHHHHHHHhh
Confidence             01122222222110         11111 111123679999999999863        34553    667788999999


Q ss_pred             hCcEEEEEcc
Q 047388          265 FNVAVYMTNQ  274 (352)
Q Consensus       265 ~~~~viv~~h  274 (352)
                      .+.+.+++-|
T Consensus       505 ~~kta~vVdH  514 (591)
T COG1245         505 NEKTALVVDH  514 (591)
T ss_pred             cCceEEEEec
Confidence            9999999998

>PRK14256 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.16  E-value=5.5e-06  Score=75.05  Aligned_cols=28  Identities=14%  Similarity=0.267  Sum_probs=24.9

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      =+++|+++.|+|++|||||||+..++..
T Consensus        26 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   53 (252)
T PRK14256         26 DFPENSVTAIIGPSGCGKSTVLRSINRM   53 (252)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHhc
Confidence            4789999999999999999999977654

>PTZ00265 multidrug resistance protein (mdr1); Provisional

Probab=98.16  E-value=8.2e-06  Score=90.59  Aligned_cols=30  Identities=23%  Similarity=0.253  Sum_probs=25.7

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQ  151 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~  151 (352)
                      =+++|+.+.|+|++||||||++.-++....
T Consensus      1190 ~i~~G~~vAIVG~SGsGKSTl~~LL~r~yd 1219 (1466)
T PTZ00265       1190 SCDSKKTTAIVGETGSGKSTVMSLLMRFYD 1219 (1466)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHHhCC
Confidence            588999999999999999999986665433

>PRK10938 putative molybdenum transport ATP-binding protein ModF; Provisional

Probab=98.16  E-value=1.7e-05  Score=78.91  Aligned_cols=27  Identities=19%  Similarity=0.245  Sum_probs=24.5

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|||||||+..++.
T Consensus       282 ~i~~Ge~~~i~G~NGsGKSTLl~~l~G  308 (490)
T PRK10938        282 QVNPGEHWQIVGPNGAGKSTLLSLITG  308 (490)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHcC
Confidence            478999999999999999999997765

>PRK14263 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.15  E-value=2.6e-05  Score=71.07  Aligned_cols=27  Identities=26%  Similarity=0.302  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|+|||||+..++.
T Consensus        30 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G   56 (261)
T PRK14263         30 PIRKNEITGFIGPSGCGKSTVLRSLNR   56 (261)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHc
Confidence            478999999999999999999996654

>PRK14266 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.15  E-value=7.8e-06  Score=73.95  Aligned_cols=28  Identities=25%  Similarity=0.334  Sum_probs=25.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++|+++.|.|++|+|||||+..++..
T Consensus        25 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   52 (250)
T PRK14266         25 DIPKNSVTALIGPSGCGKSTFIRTLNRM   52 (250)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            4789999999999999999999987754

>PRK14239 phosphate transporter ATP-binding protein; Provisional

Probab=98.15  E-value=5.9e-06  Score=74.84  Aligned_cols=28  Identities=25%  Similarity=0.287  Sum_probs=24.7

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++|+++.|.|++|+|||||+..++..
T Consensus        27 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   54 (252)
T PRK14239         27 DFYPNEITALIGPSGSGKSTLLRSINRM   54 (252)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhcc
Confidence            4789999999999999999999977643

>PRK14238 phosphate transporter ATP-binding protein; Provisional

Probab=98.15  E-value=6.2e-06  Score=75.64  Aligned_cols=29  Identities=24%  Similarity=0.299  Sum_probs=25.5

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      =+++|+++.|.|++|+|||||+..++...
T Consensus        46 ~i~~Ge~~~I~G~nGsGKSTLl~~i~Gl~   74 (271)
T PRK14238         46 DIHENEVTAIIGPSGCGKSTYIKTLNRMV   74 (271)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            47899999999999999999999777543

>PRK14268 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.14  E-value=2.2e-05  Score=71.42  Aligned_cols=27  Identities=22%  Similarity=0.306  Sum_probs=24.5

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|+|||||+..++.
T Consensus        34 ~i~~Ge~~~i~G~nGsGKSTLl~~i~G   60 (258)
T PRK14268         34 QIPKNSVTALIGPSGCGKSTFIRCLNR   60 (258)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhc
Confidence            578999999999999999999997764

>TIGR01192 chvA glucan exporter ATP-binding protein

Probab=98.14  E-value=8.2e-06  Score=82.97  Aligned_cols=27  Identities=26%  Similarity=0.302  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+.+.|+|++|+|||||+.-++.
T Consensus       357 ~i~~G~~~~ivG~sGsGKSTL~~ll~g  383 (585)
T TIGR01192       357 EAKAGQTVAIVGPTGAGKTTLINLLQR  383 (585)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHcc
Confidence            478999999999999999999996654

This model describes glucan exporter ATP binding protein in bacteria. It belongs to the larger ABC transporter superfamily with the characteristic ATP binding motif. The In general, this protein is in some ways implicated in osmoregulation and suggested to participate in the export of glucan from the cytoplasm to periplasm. The cyclic beta-1,2-glucan in the bactrerial periplasmic space is suggested to confer the property of high osmolority. It has also been demonstrated that mutants in this loci have lost functions of virulence and motility. It is unclear as to how virulence and osmoadaptaion are related.

>TIGR01257 rim_protein retinal-specific rim ABC transporter

Probab=98.14  E-value=1.7e-05  Score=89.50  Aligned_cols=29  Identities=24%  Similarity=0.204  Sum_probs=25.5

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      =++++|+++.|.|++|+||||++..++..
T Consensus      1960 f~I~~GEi~gLLG~NGAGKTTLlkmL~Gl 1988 (2272)
T TIGR01257      1960 VGVRPGECFGLLGVNGAGKTTTFKMLTGD 1988 (2272)
T ss_pred             EEEcCCcEEEEECCCCCcHHHHHHHHhCC
Confidence            37899999999999999999999966543

This model describes the photoreceptor protein (rim protein) in eukaryotes. It is the member of ABC transporter superfamily. Rim protein is a membrane glycoprotein which is localized in the photoreceptor outer segment discs. Mutation/s in its genetic loci is implicated in the recessive Stargardt's disease.

>PRK14265 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.14  E-value=3.3e-05  Score=70.94  Aligned_cols=28  Identities=21%  Similarity=0.210  Sum_probs=24.5

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      =+++|+++.|.|++|+|||||+..++..
T Consensus        42 ~i~~Ge~~~IiG~nGsGKSTLl~~l~Gl   69 (274)
T PRK14265         42 KIPAKKIIAFIGPSGCGKSTLLRCFNRM   69 (274)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            4689999999999999999999976543

>PRK14245 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.14  E-value=6.7e-06  Score=74.42  Aligned_cols=27  Identities=19%  Similarity=0.255  Sum_probs=24.5

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      =+.+|+++.|.|++|+|||||+..++.
T Consensus        25 ~i~~Ge~~~i~G~nGsGKSTLl~~i~G   51 (250)
T PRK14245         25 EIEEKSVVAFIGPSGCGKSTFLRLFNR   51 (250)
T ss_pred             EEeCCCEEEEECCCCCCHHHHHHHHhh
Confidence            478999999999999999999997764

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=98.13  E-value=3.2e-05  Score=76.95  Aligned_cols=133  Identities=20%  Similarity=0.216  Sum_probs=77.9

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccC----CCCCeEEEEeCCCCC--C----------------hhhHH
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMR----GGNGKVAYIDTEGTF--R----------------PDRIV  178 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~g----g~~~~vl~i~~e~~~--~----------------~~rl~  178 (352)
                      -.+.+|+-+.|.||+|+|||||+..++.....  ..|    |.+-++-||+-+..-  .                ...++
T Consensus       343 ~~i~~g~riaiiG~NG~GKSTLlk~l~g~~~~--~~G~v~~g~~v~igyf~Q~~~~l~~~~t~~d~l~~~~~~~~e~~~r  420 (530)
T COG0488         343 FRIDRGDRIAIVGPNGAGKSTLLKLLAGELGP--LSGTVKVGETVKIGYFDQHRDELDPDKTVLEELSEGFPDGDEQEVR  420 (530)
T ss_pred             EEecCCCEEEEECCCCCCHHHHHHHHhhhccc--CCceEEeCCceEEEEEEehhhhcCccCcHHHHHHhhCccccHHHHH
Confidence            47899999999999999999999977543322  223    345678898865421  1                12233


Q ss_pred             HHHHHcCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHH
Q 047388          179 PIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRL  258 (352)
Q Consensus       179 ~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L  258 (352)
                      ..+.+|++..+.+...+   ...+..+...+.  +. .+.-.++.++|+|+++..+.        +.        -...|
T Consensus       421 ~~L~~f~F~~~~~~~~v---~~LSGGEk~Rl~--La-~ll~~~pNvLiLDEPTNhLD--------i~--------s~~aL  478 (530)
T COG0488         421 AYLGRFGFTGEDQEKPV---GVLSGGEKARLL--LA-KLLLQPPNLLLLDEPTNHLD--------IE--------SLEAL  478 (530)
T ss_pred             HHHHHcCCChHHHhCch---hhcCHhHHHHHH--HH-HHhccCCCEEEEcCCCccCC--------HH--------HHHHH
Confidence            33344444443222211   112222222211  11 12224899999999998853        22        22334


Q ss_pred             HHHHHHhCcEEEEEccccc
Q 047388          259 TKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       259 ~~la~~~~~~viv~~h~~~  277 (352)
                      ......|.=+||+|+|=..
T Consensus       479 e~aL~~f~Gtvl~VSHDr~  497 (530)
T COG0488         479 EEALLDFEGTVLLVSHDRY  497 (530)
T ss_pred             HHHHHhCCCeEEEEeCCHH
Confidence            5555678889999999654

>PTZ00265 multidrug resistance protein (mdr1); Provisional

Probab=98.13  E-value=1.5e-05  Score=88.61  Aligned_cols=28  Identities=18%  Similarity=0.216  Sum_probs=25.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++|+++.|+|++|||||||+..++..
T Consensus       407 ~i~~Ge~vaIvG~SGsGKSTLl~lL~gl  434 (1466)
T PTZ00265        407 TLTEGKTYAFVGESGCGKSTILKLIERL  434 (1466)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            5899999999999999999999976654

>cd03243 ABC_MutS_homologs The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch

Probab=98.13  E-value=4.4e-06  Score=73.15  Aligned_cols=27  Identities=15%  Similarity=0.231  Sum_probs=23.4

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhc
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQ  151 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~  151 (352)
                      .|++++|+||+|+|||||+..++....
T Consensus        28 ~~~~~~l~G~Ng~GKStll~~i~~~~~   54 (202)
T cd03243          28 SGRLLLITGPNMGGKSTYLRSIGLAVL   54 (202)
T ss_pred             CCeEEEEECCCCCccHHHHHHHHHHHH
Confidence            359999999999999999999985543

Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, and recognition of specific DNA stru

>cd03288 ABCC_SUR2 The SUR domain 2

Probab=98.13  E-value=4.9e-06  Score=75.66  Aligned_cols=28  Identities=25%  Similarity=0.273  Sum_probs=24.8

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++|+++.|.|++|+|||||+..++..
T Consensus        43 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   70 (257)
T cd03288          43 YIKPGQKVGICGRTGSGKSSLSLAFFRM   70 (257)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHcc
Confidence            4789999999999999999999977653

The sulfonylurea receptor SUR is an ATP binding cassette (ABC) protein of the ABCC/MRP family. Unlike other ABC proteins, it has no intrinsic transport function, neither active nor passive, but associates with the potassium channel proteins Kir6.1 or Kir6.2 to form the ATP-sensitive potassium (K(ATP)) channel. Within the channel complex, SUR serves as a regulatory subunit that fine-tunes the gating of Kir6.x in response to alterations in cellular metabolism. It constitutes a major pharmaceutical target as it binds numerous drugs, K(ATP) channel openers and blockers, capable of up- or down-regulating channel activity.

>PRK14237 phosphate transporter ATP-binding protein; Provisional

Probab=98.12  E-value=7.8e-06  Score=74.80  Aligned_cols=28  Identities=29%  Similarity=0.311  Sum_probs=25.0

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+.+|+++.|.|++|+|||||+..++..
T Consensus        42 ~i~~Ge~~~I~G~nGsGKSTLl~~l~Gl   69 (267)
T PRK14237         42 QFEKNKITALIGPSGSGKSTYLRSLNRM   69 (267)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHhc
Confidence            4789999999999999999999977654

>cd03272 ABC_SMC3_euk Eukaryotic SMC3 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains

Probab=98.12  E-value=0.00018  Score=64.75  Aligned_cols=60  Identities=10%  Similarity=0.068  Sum_probs=39.3

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhh
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAH  299 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~  299 (352)
                      .+++++++|+.++.+.+        ..    ...+...|+++++  +.++|+++|...                   ...
T Consensus       179 ~~~~illlDEp~~~ld~--------~~----~~~~~~~l~~~~~--~~~ii~~~h~~~-------------------~~~  225 (243)
T cd03272         179 DPAPFYLFDEIDAALDA--------QY----RTAVANMIKELSD--GAQFITTTFRPE-------------------LLE  225 (243)
T ss_pred             CCCCEEEEECCccCCCH--------HH----HHHHHHHHHHHhC--CCEEEEEecCHH-------------------HHh
Confidence            35899999998876532        11    1256666777654  788888888632                   234


Q ss_pred             ccceEEEEEeecC
Q 047388          300 AVTIRLMFRKGKG  312 (352)
Q Consensus       300 ~~~~~i~L~~~~~  312 (352)
                      .+|.++.|....+
T Consensus       226 ~~d~i~~l~~~~~  238 (243)
T cd03272         226 VADKFYGVKFRNK  238 (243)
T ss_pred             hCCEEEEEEEECC
Confidence            6777777776443

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

>COG4987 CydC ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]

Probab=98.12  E-value=1.1e-05  Score=78.32  Aligned_cols=135  Identities=18%  Similarity=0.237  Sum_probs=79.3

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC-CChhhHHH----HHHHcCCCcccccccEE
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT-FRPDRIVP----IAERFGMDPGAVLDNII  196 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~-~~~~rl~~----~~~~~~~~~~~~~~~i~  196 (352)
                      -+.+|+-+.|.|++||||||++..++.+...      ..+.+.+=..+.. .+++.+++    +.++..+...++.+|+.
T Consensus       360 ~l~~GEkvAIlG~SGsGKSTllqLl~~~~~~------~~G~i~~~g~~~~~l~~~~~~e~i~vl~Qr~hlF~~Tlr~NL~  433 (573)
T COG4987         360 TLAQGEKVAILGRSGSGKSTLLQLLAGAWDP------QQGSITLNGVEIASLDEQALRETISVLTQRVHLFSGTLRDNLR  433 (573)
T ss_pred             eecCCCeEEEECCCCCCHHHHHHHHHhccCC------CCCeeeECCcChhhCChhhHHHHHhhhccchHHHHHHHHHHHh
Confidence            5789999999999999999999977765544      4455544333321 22222222    22333333345667776


Q ss_pred             EEecC-CHHHHHHHHHHH--H--------------------------------HHhhcCCceEEEEcccccchhcccCCC
Q 047388          197 YARAY-TYEHQYNLLLGL--A--------------------------------AKMSEEPFRLLIVDSVIALFRVDFTGR  241 (352)
Q Consensus       197 ~~~~~-~~~~~~~~l~~l--~--------------------------------~~l~~~~~~lvvIDsl~~l~~~~~~~~  241 (352)
                      ..... +.+++.+.++++  .                                +.+- ++..++++|+.+.-..+     
T Consensus       434 lA~~~AsDEel~~aL~qvgL~~l~~~~p~gl~t~lge~G~~LSGGE~rRLAlAR~LL-~dapl~lLDEPTegLD~-----  507 (573)
T COG4987         434 LANPDASDEELWAALQQVGLEKLLESAPDGLNTWLGEGGRRLSGGERRRLALARALL-HDAPLWLLDEPTEGLDP-----  507 (573)
T ss_pred             hcCCCCCHHHHHHHHHHcCHHHHHHhChhhhhchhccCCCcCCchHHHHHHHHHHHH-cCCCeEEecCCcccCCh-----
Confidence            65543 223333333221  0                                1111 26789999998876432     


Q ss_pred             cchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          242 GELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       242 g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                        ..+|     +++..|..-++  +.|+++++|--.
T Consensus       508 --~TE~-----~vL~ll~~~~~--~kTll~vTHrL~  534 (573)
T COG4987         508 --ITER-----QVLALLFEHAE--GKTLLMVTHRLR  534 (573)
T ss_pred             --hhHH-----HHHHHHHHHhc--CCeEEEEecccc
Confidence              3444     56666665554  789998888665

>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=98.12  E-value=5.8e-05  Score=65.71  Aligned_cols=91  Identities=21%  Similarity=0.281  Sum_probs=57.0

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCC---hhhHHHHHHHcCCCcccccccEEEEecCCH
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFR---PDRIVPIAERFGMDPGAVLDNIIYARAYTY  203 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~---~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~  203 (352)
                      .++.++||+|+||||.+-.+|.....      .+.+|.+++++. ++   .+.++..++.++++         +......
T Consensus         2 ~vi~lvGptGvGKTTt~aKLAa~~~~------~~~~v~lis~D~-~R~ga~eQL~~~a~~l~vp---------~~~~~~~   65 (196)
T PF00448_consen    2 KVIALVGPTGVGKTTTIAKLAARLKL------KGKKVALISADT-YRIGAVEQLKTYAEILGVP---------FYVARTE   65 (196)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHHH------TT--EEEEEEST-SSTHHHHHHHHHHHHHTEE---------EEESSTT
T ss_pred             EEEEEECCCCCchHhHHHHHHHHHhh------ccccceeecCCC-CCccHHHHHHHHHHHhccc---------cchhhcc
Confidence            37899999999999999999988776      578899998764 33   24456666666543         2222222


Q ss_pred             HHHHHHHHHHHHHhhcCCceEEEEcccccc
Q 047388          204 EHQYNLLLGLAAKMSEEPFRLLIVDSVIAL  233 (352)
Q Consensus       204 ~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l  233 (352)
                      .+..+.+.+..+.....+.++|+||.....
T Consensus        66 ~~~~~~~~~~l~~~~~~~~D~vlIDT~Gr~   95 (196)
T PF00448_consen   66 SDPAEIAREALEKFRKKGYDLVLIDTAGRS   95 (196)
T ss_dssp             SCHHHHHHHHHHHHHHTTSSEEEEEE-SSS
T ss_pred             hhhHHHHHHHHHHHhhcCCCEEEEecCCcc
Confidence            222223333333344557899999986544

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 ....

>PRK14251 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.12  E-value=1.1e-05  Score=73.06  Aligned_cols=28  Identities=21%  Similarity=0.270  Sum_probs=25.0

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+.+|+++.|.|++|+|||||+..++..
T Consensus        26 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   53 (251)
T PRK14251         26 DFEEKELTALIGPSGCGKSTFLRCLNRM   53 (251)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhhc
Confidence            4789999999999999999999977654

>PRK14974 cell division protein FtsY; Provisional

Probab=98.11  E-value=0.0005  Score=64.72  Aligned_cols=92  Identities=14%  Similarity=0.142  Sum_probs=55.3

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCCh---hhHHHHHHHcCCCcccccccEEEEecCC
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRP---DRIVPIAERFGMDPGAVLDNIIYARAYT  202 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~---~rl~~~~~~~~~~~~~~~~~i~~~~~~~  202 (352)
                      ..++.++|++|+||||++..++.....      .+.+|+++++.. +..   ++++..++.+++....      .....+
T Consensus       140 ~~vi~~~G~~GvGKTTtiakLA~~l~~------~g~~V~li~~Dt-~R~~a~eqL~~~a~~lgv~v~~------~~~g~d  206 (336)
T PRK14974        140 PVVIVFVGVNGTGKTTTIAKLAYYLKK------NGFSVVIAAGDT-FRAGAIEQLEEHAERLGVKVIK------HKYGAD  206 (336)
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHHH------cCCeEEEecCCc-CcHHHHHHHHHHHHHcCCceec------ccCCCC
Confidence            579999999999999999988876543      466888887653 332   3455556666543210      001112


Q ss_pred             HHHHHHHHHHHHHHhhcCCceEEEEcccccc
Q 047388          203 YEHQYNLLLGLAAKMSEEPFRLLIVDSVIAL  233 (352)
Q Consensus       203 ~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l  233 (352)
                      +.   ..+....+.....+.++|+||....+
T Consensus       207 p~---~v~~~ai~~~~~~~~DvVLIDTaGr~  234 (336)
T PRK14974        207 PA---AVAYDAIEHAKARGIDVVLIDTAGRM  234 (336)
T ss_pred             HH---HHHHHHHHHHHhCCCCEEEEECCCcc
Confidence            21   11222222223346789999988665

>PRK14264 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.11  E-value=8.2e-06  Score=76.14  Aligned_cols=28  Identities=21%  Similarity=0.273  Sum_probs=24.9

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+.+|+++.|+|++|+|||||+..++..
T Consensus        67 ~i~~Ge~~~IvG~nGsGKSTLl~~L~Gl   94 (305)
T PRK14264         67 DIPEKSVTALIGPSGCGKSTFLRCLNRM   94 (305)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            4779999999999999999999977654

>COG4136 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=98.10  E-value=5.8e-05  Score=61.69  Aligned_cols=30  Identities=23%  Similarity=0.270  Sum_probs=25.4

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQ  151 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~  151 (352)
                      -+-+|+|+.|.||||||||||+..++....
T Consensus        24 Tia~GeivtlMGPSGcGKSTLls~~~G~La   53 (213)
T COG4136          24 TIAKGEIVTLMGPSGCGKSTLLSWMIGALA   53 (213)
T ss_pred             EecCCcEEEEECCCCccHHHHHHHHHhhcc
Confidence            467899999999999999999987665544

>PRK14272 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.10  E-value=4.8e-06  Score=75.44  Aligned_cols=28  Identities=18%  Similarity=0.360  Sum_probs=24.7

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+.+|+++.|.|++|+|||||+..++..
T Consensus        26 ~i~~Ge~~~i~G~nGsGKSTLl~~i~G~   53 (252)
T PRK14272         26 DVQRGTVNALIGPSGCGKTTFLRAINRM   53 (252)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            4789999999999999999999976553

>PRK14246 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.10  E-value=9.4e-06  Score=73.84  Aligned_cols=28  Identities=29%  Similarity=0.288  Sum_probs=24.6

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      =+.+|+++.|.|++|+|||||+..++..
T Consensus        32 ~i~~Ge~~~i~G~nGsGKSTLl~~iaG~   59 (257)
T PRK14246         32 KIPNNSIFGIMGPSGSGKSTLLKVLNRL   59 (257)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4679999999999999999999976643

>TIGR01846 type_I_sec_HlyB type I secretion system ABC transporter, HlyB family

Probab=98.10  E-value=1.2e-05  Score=83.36  Aligned_cols=28  Identities=29%  Similarity=0.343  Sum_probs=24.7

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++|+.+.|+|++|||||||+.-++..
T Consensus       479 ~i~~G~~vaivG~sGsGKSTL~~ll~g~  506 (694)
T TIGR01846       479 DIKPGEFIGIVGPSGSGKSTLTKLLQRL  506 (694)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999999999966544

Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion.

>PRK10636 putative ABC transporter ATP-binding protein; Provisional

Probab=98.10  E-value=3.4e-05  Score=79.17  Aligned_cols=46  Identities=20%  Similarity=0.255  Sum_probs=32.4

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCC----CCCeEEEEeCC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRG----GNGKVAYIDTE  169 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg----~~~~vl~i~~e  169 (352)
                      -+.+|+++.|+||+|||||||+..++.  ..++..|.    .+.++.|+...
T Consensus       334 ~i~~Ge~~~l~G~NGsGKSTLlk~l~G--~~~p~~G~i~~~~~~~igy~~Q~  383 (638)
T PRK10636        334 NLVPGSRIGLLGRNGAGKSTLIKLLAG--ELAPVSGEIGLAKGIKLGYFAQH  383 (638)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhC--CCCCCCCeEEECCCEEEEEecCc
Confidence            578999999999999999999997664  33333332    12346666543

>PRK14262 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.10  E-value=8.2e-06  Score=73.82  Aligned_cols=28  Identities=29%  Similarity=0.253  Sum_probs=24.7

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      --+++|+++.|.|++|+|||||+..++.
T Consensus        24 ~~i~~Ge~~~i~G~nGsGKSTLl~~i~G   51 (250)
T PRK14262         24 MKIFKNQITAIIGPSGCGKTTLLRSINR   51 (250)
T ss_pred             EeecCCCEEEEECCCCCCHHHHHHHHhc
Confidence            3578999999999999999999997664

>PRK11147 ABC transporter ATPase component; Reviewed

Probab=98.10  E-value=9.9e-05  Score=75.83  Aligned_cols=27  Identities=26%  Similarity=0.219  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|+|++|||||||+..++.
T Consensus        25 ~i~~Ge~v~LvG~NGsGKSTLLriiaG   51 (635)
T PRK11147         25 HIEDNERVCLVGRNGAGKSTLMKILNG   51 (635)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHcC
Confidence            578999999999999999999996654

>PLN03130 ABC transporter C family member; Provisional

Probab=98.10  E-value=1.1e-05  Score=90.58  Aligned_cols=131  Identities=15%  Similarity=0.138  Sum_probs=75.0

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcc-------ccccc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPG-------AVLDN  194 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~-------~~~~~  194 (352)
                      -+++|+.+.|+|++|||||||+..++.-...       ..+.++||..+- ..-.+..+.+++++-++       ++.+|
T Consensus      1261 ~I~~GekVaIVGrSGSGKSTLl~lL~rl~~p-------~~G~I~IDG~dI-~~i~l~~LR~~IsiVpQdp~LF~GTIreN 1332 (1622)
T PLN03130       1261 EISPSEKVGIVGRTGAGKSSMLNALFRIVEL-------ERGRILIDGCDI-SKFGLMDLRKVLGIIPQAPVLFSGTVRFN 1332 (1622)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCcCCC-------CCceEEECCEec-ccCCHHHHHhccEEECCCCccccccHHHH
Confidence            5789999999999999999999966543222       334567776532 22223333344443332       34455


Q ss_pred             EEEEecCCHHHHHHHHH-----------------------------------HHHHHhhcCCceEEEEcccccchhcccC
Q 047388          195 IIYARAYTYEHQYNLLL-----------------------------------GLAAKMSEEPFRLLIVDSVIALFRVDFT  239 (352)
Q Consensus       195 i~~~~~~~~~~~~~~l~-----------------------------------~l~~~l~~~~~~lvvIDsl~~l~~~~~~  239 (352)
                      +......+.++..+.++                                   -.+..+  .+++++|+|+.++-...   
T Consensus      1333 Ld~~~~~tdeei~~Al~~a~l~~~I~~lp~GLdt~Vge~G~nLSgGQrQrlaLARALL--r~p~ILILDEATSaLD~--- 1407 (1622)
T PLN03130       1333 LDPFNEHNDADLWESLERAHLKDVIRRNSLGLDAEVSEAGENFSVGQRQLLSLARALL--RRSKILVLDEATAAVDV--- 1407 (1622)
T ss_pred             hCcCCCCCHHHHHHHHHHcCcHHHHHhCccccCccccCCCCCCCHHHHHHHHHHHHHH--cCCCEEEEECCCCCCCH---
Confidence            54443333333332222                                   111122  26899999999887532   


Q ss_pred             CCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          240 GRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       240 ~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                          ..+     ..+.+.|++..  .++|||+++|-.
T Consensus      1408 ----~Te-----~~Iq~~I~~~~--~~~TvI~IAHRL 1433 (1622)
T PLN03130       1408 ----RTD-----ALIQKTIREEF--KSCTMLIIAHRL 1433 (1622)
T ss_pred             ----HHH-----HHHHHHHHHHC--CCCEEEEEeCCh
Confidence                122     14445555543  379999999943

>PRK14248 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.09  E-value=1e-05  Score=74.08  Aligned_cols=28  Identities=25%  Similarity=0.345  Sum_probs=25.0

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+.+|+++.|.|++|+|||||+..++..
T Consensus        43 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   70 (268)
T PRK14248         43 DIEKHAVTALIGPSGCGKSTFLRSINRM   70 (268)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHhc
Confidence            4789999999999999999999977653

>PRK14243 phosphate transporter ATP-binding protein; Provisional

Probab=98.09  E-value=1e-05  Score=73.94  Aligned_cols=28  Identities=21%  Similarity=0.254  Sum_probs=24.9

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++|+++.|.|++|+|||||+..++..
T Consensus        32 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   59 (264)
T PRK14243         32 DIPKNQITAFIGPSGCGKSTILRCFNRL   59 (264)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            5789999999999999999999977653

>COG1132 MdlB ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

Probab=98.09  E-value=2e-05  Score=79.91  Aligned_cols=132  Identities=20%  Similarity=0.241  Sum_probs=72.5

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCc-------cccccc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDP-------GAVLDN  194 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~-------~~~~~~  194 (352)
                      -+++|+.+.|+|++||||||++.-++...-.      ..| .+++|..+- ..-......++.++-+       .++.+|
T Consensus       351 ~i~~Ge~vaiVG~sGsGKSTl~~LL~r~~~~------~~G-~I~idg~dI-~~i~~~~lr~~I~~V~Qd~~LF~~TI~~N  422 (567)
T COG1132         351 SIEPGEKVAIVGPSGSGKSTLIKLLLRLYDP------TSG-EILIDGIDI-RDISLDSLRKRIGIVSQDPLLFSGTIREN  422 (567)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhccCCC------CCC-eEEECCEeh-hhcCHHHHHHhccEEcccceeecccHHHH
Confidence            4899999999999999999999966543322      334 445554321 1111222333344322       345667


Q ss_pred             EEEEecC-CHHHHHHHHHHH--H--------------------------------HHhhcCCceEEEEcccccchhcccC
Q 047388          195 IIYARAY-TYEHQYNLLLGL--A--------------------------------AKMSEEPFRLLIVDSVIALFRVDFT  239 (352)
Q Consensus       195 i~~~~~~-~~~~~~~~l~~l--~--------------------------------~~l~~~~~~lvvIDsl~~l~~~~~~  239 (352)
                      +.+.+.. +.++..+.++..  .                                +.+ -.+++++|+|+.++-...+  
T Consensus       423 I~~g~~~at~eei~~a~k~a~~~d~I~~lp~g~dt~vge~G~~LSgGQrQrlaiARal-l~~~~ILILDEaTSalD~~--  499 (567)
T COG1132         423 IALGRPDATDEEIEEALKLANAHEFIANLPDGYDTIVGERGVNLSGGQRQRLAIARAL-LRNPPILILDEATSALDTE--  499 (567)
T ss_pred             HhcCCCCCCHHHHHHHHHHhChHHHHHhCcccccceecCCCccCCHHHHHHHHHHHHH-hcCCCEEEEeccccccCHH--
Confidence            7766542 333333322211  0                                111 1267899999988775321  


Q ss_pred             CCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          240 GRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       240 ~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                           .+     ..+.+.+.++.+  +.|+++++|--
T Consensus       500 -----tE-----~~I~~~l~~l~~--~rT~iiIaHRl  524 (567)
T COG1132         500 -----TE-----ALIQDALKKLLK--GRTTLIIAHRL  524 (567)
T ss_pred             -----hH-----HHHHHHHHHHhc--CCEEEEEeccH
Confidence                 22     255566665553  34677677743

>PRK14275 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.09  E-value=5.3e-05  Score=70.04  Aligned_cols=28  Identities=18%  Similarity=0.229  Sum_probs=25.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+.+|+++.|.|++|+|||||+..++..
T Consensus        61 ~i~~Ge~~~l~G~nGsGKSTLl~~L~Gl   88 (286)
T PRK14275         61 DILSKYVTAIIGPSGCGKSTFLRAINRM   88 (286)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            5789999999999999999999977653

>cd03291 ABCC_CFTR1 The CFTR subfamily domain 1

Probab=98.09  E-value=7.2e-06  Score=75.54  Aligned_cols=27  Identities=33%  Similarity=0.346  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|+|||||+..++.
T Consensus        59 ~i~~Ge~~~liG~NGsGKSTLl~~I~G   85 (282)
T cd03291          59 KIEKGEMLAITGSTGSGKTSLLMLILG   85 (282)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999999999996654

The cystic fibrosis transmembrane regulator (CFTR), the product of the gene mutated in patients with cystic fibrosis, has adapted the ABC transporter structural motif to form a tightly regulated anion channel at the apical surface of many epithelia. Use of the term assembly of a functional ion channel implies the coming together of subunits, or at least smaller not-yet functional components of the active whole. In fact, on the basis of current knowledge only the CFTR polypeptide itself is required to form an ATP- and protein kinase A-dependent low-conductance chloride channel of the type present in the apical membrane of many epithelial cells. CFTR displays the typical organization (IM-ABC)2 and carries a characteristic hydrophilic R-domain that separates IM1-ABC1 from IM2-ABC2.

>PRK14252 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.09  E-value=3.7e-05  Score=70.19  Aligned_cols=28  Identities=14%  Similarity=0.191  Sum_probs=24.6

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      =+.+|+++.|+|++|+|||||+..++..
T Consensus        38 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   65 (265)
T PRK14252         38 MVHEKQVTALIGPSGCGKSTFLRCFNRM   65 (265)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhcc
Confidence            3789999999999999999999977543

>PRK14236 phosphate transporter ATP-binding protein; Provisional

Probab=98.09  E-value=3e-05  Score=71.10  Aligned_cols=28  Identities=21%  Similarity=0.247  Sum_probs=25.0

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++|+++.|.|++|+|||||+..++..
T Consensus        47 ~i~~Ge~~~I~G~nGsGKSTLl~~laGl   74 (272)
T PRK14236         47 RIPKNRVTAFIGPSGCGKSTLLRCFNRM   74 (272)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHhc
Confidence            5789999999999999999999977653

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

Probab=98.09  E-value=1.9e-05  Score=76.08  Aligned_cols=121  Identities=17%  Similarity=0.240  Sum_probs=66.7

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEec
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARA  200 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~  200 (352)
                      -|++++.-+.|+||||+|||+++..+|....         ...+.+...     .    ....+            +.  
T Consensus       174 ~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~---------~~fi~i~~s-----~----l~~k~------------~g--  221 (398)
T PTZ00454        174 IGIDPPRGVLLYGPPGTGKTMLAKAVAHHTT---------ATFIRVVGS-----E----FVQKY------------LG--  221 (398)
T ss_pred             cCCCCCceEEEECCCCCCHHHHHHHHHHhcC---------CCEEEEehH-----H----HHHHh------------cc--
Confidence            4788888999999999999999998876532         222222211     0    11110            00  


Q ss_pred             CCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCC-cchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          201 YTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGR-GELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       201 ~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~-g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                          +....+..+........+.+|+||++..+........ +.-.+-++.+.+++..+..+....++.||++++-..
T Consensus       222 ----e~~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~~~~v~VI~aTN~~d  295 (398)
T PTZ00454        222 ----EGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQTTNVKVIMATNRAD  295 (398)
T ss_pred             ----hhHHHHHHHHHHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCCCCCEEEEEecCCch
Confidence                0011122232333445789999999998865432211 111122233455555555444455777887766443

>PRK14260 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.09  E-value=1.1e-05  Score=73.48  Aligned_cols=28  Identities=25%  Similarity=0.289  Sum_probs=25.0

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+.+|+++.|.|++|+|||||+..++..
T Consensus        29 ~i~~Ge~~~l~G~nGsGKSTLlk~l~Gl   56 (259)
T PRK14260         29 DIYRNKVTAIIGPSGCGKSTFIKTLNRI   56 (259)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            4779999999999999999999977754

>TIGR03719 ABC_ABC_ChvD ATP-binding cassette protein, ChvD family

Probab=98.09  E-value=8.7e-05  Score=75.03  Aligned_cols=28  Identities=21%  Similarity=0.189  Sum_probs=24.7

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      --|++|+++.|.|++|+|||||+..++.
T Consensus        26 ~~i~~Ge~~~liG~NGsGKSTLl~~i~G   53 (552)
T TIGR03719        26 LSFFPGAKIGVLGLNGAGKSTLLRIMAG   53 (552)
T ss_pred             EEECCCCEEEEECCCCCCHHHHHHHHhC
Confidence            3578999999999999999999996654

Members of this protein family have two copies of the ABC transporter ATP-binding cassette, but are found outside the common ABC transporter operon structure that features integral membrane permease proteins and substrate-binding proteins encoded next to the ATP-binding cassette (ABC domain) protein. The member protein ChvD from Agrobacterium tumefaciens was identified as both a candidate to interact with VirB8, based on yeast two-hybrid analysis, and as an apparent regulator of VirG. The general function of this protein family is unknown.

>KOG0061 consensus Transporter, ABC superfamily (Breast cancer resistance protein) [Secondary metabolites biosynthesis, transport and catabolism]

Probab=98.08  E-value=1.5e-05  Score=81.20  Aligned_cols=32  Identities=28%  Similarity=0.367  Sum_probs=28.2

Q ss_pred             cCCCCCCcEEEEecCCCCChhHHHHHHHHHhc
Q 047388          120 GGGIETGAITEAFGEFRSGKTQLAHTLCVCTQ  151 (352)
Q Consensus       120 ~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~  151 (352)
                      .|=+++|+++.|.||+|+|||||+..++....
T Consensus        50 sg~~~~Gel~AimG~SGsGKtTLL~~Lagr~~   81 (613)
T KOG0061|consen   50 SGTAKPGELLAIMGPSGSGKTTLLNALAGRLN   81 (613)
T ss_pred             EEEEecCeEEEEECCCCCCHHHHHHHHhcccc
Confidence            37899999999999999999999998776544

>PLN03073 ABC transporter F family; Provisional

Probab=98.08  E-value=5.5e-05  Score=78.40  Aligned_cols=43  Identities=19%  Similarity=0.309  Sum_probs=32.9

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhc--CCCccCCCCCeEEEEeCC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQ--LPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~--~~~~~gg~~~~vl~i~~e  169 (352)
                      -+.+|+.+.|+|++|||||||+..++....  .|     .++.+.|+..+
T Consensus       199 ~i~~Ge~~gLvG~NGsGKSTLLr~l~g~~~~g~p-----~~g~I~~~~Q~  243 (718)
T PLN03073        199 TLAFGRHYGLVGRNGTGKTTFLRYMAMHAIDGIP-----KNCQILHVEQE  243 (718)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHcCCCCCCCC-----CCCEEEEEecc
Confidence            488999999999999999999997764211  22     45678887654

>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=98.08  E-value=7.1e-05  Score=65.25  Aligned_cols=26  Identities=23%  Similarity=0.373  Sum_probs=22.2

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      +++| ++.|.||+|+|||||+..++..
T Consensus        20 ~~~g-~~~i~G~nGsGKStll~al~~l   45 (197)
T cd03278          20 FPPG-LTAIVGPNGSGKSNIIDAIRWV   45 (197)
T ss_pred             cCCC-cEEEECCCCCCHHHHHHHHHHH
Confidence            5678 9999999999999999876543

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

>PRK11147 ABC transporter ATPase component; Reviewed

Probab=98.08  E-value=4.5e-05  Score=78.33  Aligned_cols=27  Identities=22%  Similarity=0.267  Sum_probs=24.4

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+.+|+++.|.|++|||||||+..++.
T Consensus       341 ~i~~Ge~~~l~G~NGsGKSTLlk~l~G  367 (635)
T PRK11147        341 QVQRGDKIALIGPNGCGKTTLLKLMLG  367 (635)
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhC
Confidence            478999999999999999999997664

>PRK14254 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.08  E-value=2.1e-05  Score=72.67  Aligned_cols=28  Identities=18%  Similarity=0.267  Sum_probs=24.7

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -|.+|+++.|.|++|+|||||+..++..
T Consensus        61 ~i~~Ge~~~I~G~nGsGKSTLl~~l~Gl   88 (285)
T PRK14254         61 DIPENQVTAMIGPSGCGKSTFLRCINRM   88 (285)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            4789999999999999999999977644

>PRK14241 phosphate transporter ATP-binding protein; Provisional

Probab=98.07  E-value=4.2e-05  Score=69.54  Aligned_cols=28  Identities=29%  Similarity=0.349  Sum_probs=25.0

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++|+++.|.|++|+|||||+..++..
T Consensus        26 ~i~~Ge~~~i~G~nGsGKSTLl~~laGl   53 (258)
T PRK14241         26 NIEPRSVTAFIGPSGCGKSTVLRTLNRM   53 (258)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhcc
Confidence            4789999999999999999999977654

>COG4161 ArtP ABC-type arginine transport system, ATPase component [Amino acid transport and metabolism]

Probab=98.07  E-value=3.5e-05  Score=63.66  Aligned_cols=135  Identities=18%  Similarity=0.172  Sum_probs=74.5

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeC-----CCCCChhhHHHHHHHcCCCcc-------
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDT-----EGTFRPDRIVPIAERFGMDPG-------  189 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~-----e~~~~~~rl~~~~~~~~~~~~-------  189 (352)
                      -.+.|+.+++.||+|+|||+|+..+  |.+..+.     .+.+-|..     ........++...+..|+-.+       
T Consensus        24 ~~~~getlvllgpsgagkssllr~l--nlle~p~-----sg~l~ia~~~fd~s~~~~~k~i~~lr~~vgmvfqqy~lwph   96 (242)
T COG4161          24 DCPEGETLVLLGPSGAGKSSLLRVL--NLLEMPR-----SGTLNIAGNHFDFSKTPSDKAIRDLRRNVGMVFQQYNLWPH   96 (242)
T ss_pred             cCCCCCEEEEECCCCCchHHHHHHH--HHHhCCC-----CCeEEecccccccccCccHHHHHHHHHhhhhhhhhhccCch
Confidence            4688999999999999999999844  5444322     22333322     222223445555555555432       


Q ss_pred             -cccccEEEEe-----cCCH---HHHHHHHHHHH--H-----------------Hhh---cCCceEEEEcccccchhccc
Q 047388          190 -AVLDNIIYAR-----AYTY---EHQYNLLLGLA--A-----------------KMS---EEPFRLLIVDSVIALFRVDF  238 (352)
Q Consensus       190 -~~~~~i~~~~-----~~~~---~~~~~~l~~l~--~-----------------~l~---~~~~~lvvIDsl~~l~~~~~  238 (352)
                       .+.+|+.-..     ....   .+..+++.+++  .                 .+.   -.+|.++.+|+.++.+.++.
T Consensus        97 ltv~enlieap~kv~gl~~~qa~~~a~ellkrlrl~~~adr~plhlsggqqqrvaiaralmmkpqvllfdeptaaldpei  176 (242)
T COG4161          97 LTVQENLIEAPCRVLGLSKDQALARAEKLLKRLRLKPYADRYPLHLSGGQQQRVAIARALMMEPQVLLFDEPTAALDPEI  176 (242)
T ss_pred             hHHHHHHHhhhHHHhCCCHHHHHHHHHHHHHHhccccccccCceecccchhhhHHHHHHHhcCCcEEeecCcccccCHHH
Confidence             2223321111     0000   11122222221  0                 000   12789999999988865432


Q ss_pred             CCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          239 TGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       239 ~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                                  ..+++..+++++. .|++-++++|-.
T Consensus       177 ------------taqvv~iikel~~-tgitqvivthev  201 (242)
T COG4161         177 ------------TAQIVSIIKELAE-TGITQVIVTHEV  201 (242)
T ss_pred             ------------HHHHHHHHHHHHh-cCceEEEEEeeh
Confidence                        2467777888865 699988877743

>KOG0057 consensus Mitochondrial Fe/S cluster exporter, ABC superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.07  E-value=2.2e-05  Score=76.38  Aligned_cols=131  Identities=18%  Similarity=0.201  Sum_probs=77.6

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcc-------cccc
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPG-------AVLD  193 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~-------~~~~  193 (352)
                      .-+|+|+-+.|+|+|||||||++..+..-.-        ..+-++||+-+- ..-+.....+..|+.|+       +++.
T Consensus       373 f~I~kGekVaIvG~nGsGKSTilr~LlrF~d--------~sG~I~IdG~di-k~~~~~SlR~~Ig~VPQd~~LFndTIl~  443 (591)
T KOG0057|consen  373 FTIPKGEKVAIVGSNGSGKSTILRLLLRFFD--------YSGSILIDGQDI-KEVSLESLRQSIGVVPQDSVLFNDTILY  443 (591)
T ss_pred             EEecCCCEEEEECCCCCCHHHHHHHHHHHhc--------cCCcEEECCeeH-hhhChHHhhhheeEeCCcccccchhHHH
Confidence            3689999999999999999999997765422        234567776542 12223333334455443       4566


Q ss_pred             cEEEEecCCH-HHHHHH-----------------------------------HHHHHHHhhcCCceEEEEcccccchhcc
Q 047388          194 NIIYARAYTY-EHQYNL-----------------------------------LLGLAAKMSEEPFRLLIVDSVIALFRVD  237 (352)
Q Consensus       194 ~i~~~~~~~~-~~~~~~-----------------------------------l~~l~~~l~~~~~~lvvIDsl~~l~~~~  237 (352)
                      |+.+....-. ++..+.                                   +.-++..+  .++.+++.|+.++-+.. 
T Consensus       444 NI~YGn~sas~eeV~e~~k~a~~hd~i~~l~~GY~T~VGerG~~LSGGekQrvslaRa~l--Kda~Il~~DEaTS~LD~-  520 (591)
T KOG0057|consen  444 NIKYGNPSASDEEVVEACKRAGLHDVISRLPDGYQTLVGERGLMLSGGEKQRVSLARAFL--KDAPILLLDEATSALDS-  520 (591)
T ss_pred             HhhcCCCCcCHHHHHHHHHHcCcHHHHHhccccchhhHhhcccccccchHHHHHHHHHHh--cCCCeEEecCcccccch-
Confidence            6666543322 111111                                   11111111  26789999999887542 


Q ss_pred             cCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          238 FTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       238 ~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                            -.++     ++++.+..  ..-+.|+|++.|-.
T Consensus       521 ------~TE~-----~i~~~i~~--~~~~rTvI~IvH~l  546 (591)
T KOG0057|consen  521 ------ETER-----EILDMIMD--VMSGRTVIMIVHRL  546 (591)
T ss_pred             ------hhHH-----HHHHHHHH--hcCCCeEEEEEecc
Confidence                  2343     66666666  34578999888844

>PRK15064 ABC transporter ATP-binding protein; Provisional

Probab=98.07  E-value=5.2e-05  Score=76.26  Aligned_cols=27  Identities=37%  Similarity=0.368  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|+|||||+..++.
T Consensus       341 ~i~~Ge~~~l~G~NGsGKSTLl~~i~G  367 (530)
T PRK15064        341 LLEAGERLAIIGENGVGKTTLLRTLVG  367 (530)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999999999997653

>PLN03232 ABC transporter C family member; Provisional

Probab=98.07  E-value=1.3e-05  Score=89.64  Aligned_cols=131  Identities=13%  Similarity=0.088  Sum_probs=73.0

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcc-------ccccc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPG-------AVLDN  194 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~-------~~~~~  194 (352)
                      -+++|+.+.|+|++|||||||+..+..... |      ..+.++||..+- ..-.+..+.+++++-++       ++.+|
T Consensus      1258 ~I~~GekvaIVG~SGSGKSTL~~lL~rl~~-p------~~G~I~IdG~di-~~i~~~~lR~~i~iVpQdp~LF~gTIr~N 1329 (1495)
T PLN03232       1258 FVSPSEKVGVVGRTGAGKSSMLNALFRIVE-L------EKGRIMIDDCDV-AKFGLTDLRRVLSIIPQSPVLFSGTVRFN 1329 (1495)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCc-C------CCceEEECCEEh-hhCCHHHHHhhcEEECCCCeeeCccHHHH
Confidence            478999999999999999999996654322 2      234466666432 11122333344443332       34455


Q ss_pred             EEEEecCCHHHHHHHHH-----------------------------------HHHHHhhcCCceEEEEcccccchhcccC
Q 047388          195 IIYARAYTYEHQYNLLL-----------------------------------GLAAKMSEEPFRLLIVDSVIALFRVDFT  239 (352)
Q Consensus       195 i~~~~~~~~~~~~~~l~-----------------------------------~l~~~l~~~~~~lvvIDsl~~l~~~~~~  239 (352)
                      +......+.++..+.++                                   -.+..+  .+++++|+|+.++-...   
T Consensus      1330 L~~~~~~sdeei~~al~~a~l~~~I~~lp~GLdt~v~e~G~~LSgGQrQrlaLARALL--r~~~ILILDEATSaLD~--- 1404 (1495)
T PLN03232       1330 IDPFSEHNDADLWEALERAHIKDVIDRNPFGLDAEVSEGGENFSVGQRQLLSLARALL--RRSKILVLDEATASVDV--- 1404 (1495)
T ss_pred             cCCCCCCCHHHHHHHHHHcCCHHHHHhCcCCCCceecCCCCCCCHHHHHHHHHHHHHH--hCCCEEEEECCcccCCH---
Confidence            54433333333222221                                   111122  26899999998877532   


Q ss_pred             CCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          240 GRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       240 ~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                          ..++     .+.+.|++..  .++|||+++|--
T Consensus      1405 ----~Te~-----~Iq~~L~~~~--~~~TvI~IAHRl 1430 (1495)
T PLN03232       1405 ----RTDS-----LIQRTIREEF--KSCTMLVIAHRL 1430 (1495)
T ss_pred             ----HHHH-----HHHHHHHHHc--CCCEEEEEeCCH
Confidence                1221     3444455442  379999999954

>PRK10867 signal recognition particle protein; Provisional

Probab=98.07  E-value=0.00024  Score=69.06  Aligned_cols=91  Identities=19%  Similarity=0.256  Sum_probs=57.7

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcCCCccCCC-CCeEEEEeCCCCCChh---hHHHHHHHcCCCcccccccEEEE-ec
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGG-NGKVAYIDTEGTFRPD---RIVPIAERFGMDPGAVLDNIIYA-RA  200 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~-~~~vl~i~~e~~~~~~---rl~~~~~~~~~~~~~~~~~i~~~-~~  200 (352)
                      ..++.++|++|+||||++..+|.....      . +.+|++++++. +.+.   +++.++++.+++.       +.. ..
T Consensus       100 p~vI~~vG~~GsGKTTtaakLA~~l~~------~~G~kV~lV~~D~-~R~aa~eQL~~~a~~~gv~v-------~~~~~~  165 (433)
T PRK10867        100 PTVIMMVGLQGAGKTTTAGKLAKYLKK------KKKKKVLLVAADV-YRPAAIEQLKTLGEQIGVPV-------FPSGDG  165 (433)
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHHH------hcCCcEEEEEccc-cchHHHHHHHHHHhhcCCeE-------EecCCC
Confidence            479999999999999999999987665      4 67899999874 4443   3444455555432       111 11


Q ss_pred             CCHHHHHHHHHHHHHHhhcCCceEEEEcccccc
Q 047388          201 YTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIAL  233 (352)
Q Consensus       201 ~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l  233 (352)
                      .++..   +...........+.++||||....+
T Consensus       166 ~dp~~---i~~~a~~~a~~~~~DvVIIDTaGrl  195 (433)
T PRK10867        166 QDPVD---IAKAALEEAKENGYDVVIVDTAGRL  195 (433)
T ss_pred             CCHHH---HHHHHHHHHHhcCCCEEEEeCCCCc
Confidence            23322   2222333334457899999987655

>PRK14244 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.07  E-value=3.7e-05  Score=69.63  Aligned_cols=29  Identities=17%  Similarity=0.200  Sum_probs=25.5

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      -+.+|+++.|.|++|+|||||+..++...
T Consensus        27 ~i~~Ge~~~I~G~nGsGKSTLl~~i~G~~   55 (251)
T PRK14244         27 DIYKREVTAFIGPSGCGKSTFLRCFNRMN   55 (251)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            47799999999999999999999776543

>PRK14257 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.06  E-value=1.1e-05  Score=75.90  Aligned_cols=28  Identities=21%  Similarity=0.290  Sum_probs=25.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++|+++.|+|++|||||||+..++..
T Consensus       104 ~I~~Ge~v~IvG~~GsGKSTLl~~L~g~  131 (329)
T PRK14257        104 DIKRNKVTAFIGPSGCGKSTFLRNLNQL  131 (329)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            5889999999999999999999977644

>PTZ00243 ABC transporter; Provisional

Probab=98.06  E-value=7.5e-06  Score=91.53  Aligned_cols=41  Identities=20%  Similarity=0.203  Sum_probs=30.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      =+++|+.+.|+|++|||||||+..+......       ..+.+++|..
T Consensus      1332 ~I~~GekVaIVGrTGSGKSTLl~lLlrl~~p-------~~G~I~IDG~ 1372 (1560)
T PTZ00243       1332 RIAPREKVGIVGRTGSGKSTLLLTFMRMVEV-------CGGEIRVNGR 1372 (1560)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhCCCCC-------CCcEEEECCE
Confidence            3679999999999999999999966543322       2344566654

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=98.06  E-value=0.00026  Score=68.93  Aligned_cols=88  Identities=20%  Similarity=0.254  Sum_probs=55.1

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhc-CCCccCCCCCeEEEEeCCCCCCh---hhHHHHHHHcCCCcccccccEEEEec
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQ-LPTNMRGGNGKVAYIDTEGTFRP---DRIVPIAERFGMDPGAVLDNIIYARA  200 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~-~~~~~gg~~~~vl~i~~e~~~~~---~rl~~~~~~~~~~~~~~~~~i~~~~~  200 (352)
                      .|.++.|+||+|+||||++..+|.... ..     .+.+|.+++++.. ..   +.++..++..++..         ...
T Consensus       220 ~~~~i~~vGptGvGKTTt~~kLA~~~~~~~-----~g~~V~li~~D~~-r~~a~eqL~~~a~~~~vp~---------~~~  284 (424)
T PRK05703        220 QGGVVALVGPTGVGKTTTLAKLAARYALLY-----GKKKVALITLDTY-RIGAVEQLKTYAKIMGIPV---------EVV  284 (424)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhc-----CCCeEEEEECCcc-HHHHHHHHHHHHHHhCCce---------Ecc
Confidence            467999999999999999999988765 31     4678999998642 21   22444444444332         222


Q ss_pred             CCHHHHHHHHHHHHHHhhcCCceEEEEcccccc
Q 047388          201 YTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIAL  233 (352)
Q Consensus       201 ~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l  233 (352)
                      .+..++...+..    +  .+.++|+||.....
T Consensus       285 ~~~~~l~~~l~~----~--~~~DlVlIDt~G~~  311 (424)
T PRK05703        285 YDPKELAKALEQ----L--RDCDVILIDTAGRS  311 (424)
T ss_pred             CCHHhHHHHHHH----h--CCCCEEEEeCCCCC
Confidence            333333332221    1  25799999987643

>cd03227 ABC_Class2 ABC-type Class 2 contains systems involved in cellular processes other than transport

Probab=98.06  E-value=4.7e-05  Score=64.18  Aligned_cols=27  Identities=22%  Similarity=0.271  Sum_probs=23.5

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcC
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQL  152 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~  152 (352)
                      +.+++|+||+|+|||+++.+++.....
T Consensus        21 ~~~~~i~G~NgsGKS~~l~~i~~~~~~   47 (162)
T cd03227          21 GSLTIITGPNGSGKSTILDAIGLALGG   47 (162)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            479999999999999999988776654

These families are characterised by the fact that the ABC subunit is made up of duplicated, fused ABC modules (ABC2). No known transmembrane proteins or domains are associated with these proteins.

>PLN03073 ABC transporter F family; Provisional

Probab=98.05  E-value=6.9e-05  Score=77.64  Aligned_cols=27  Identities=19%  Similarity=0.268  Sum_probs=24.3

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+.+|+++.|.|++|||||||+..++.
T Consensus       531 ~i~~Ge~i~LvG~NGsGKSTLLk~L~G  557 (718)
T PLN03073        531 GIDLDSRIAMVGPNGIGKSTILKLISG  557 (718)
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhC
Confidence            578999999999999999999996654

>PF09807 DUF2348: Uncharacterized conserved protein (DUF2348); InterPro: IPR018627 Members of this family of putative uncharacterised proteins have no known function

Probab=98.05  E-value=0.00021  Score=64.56  Aligned_cols=174  Identities=13%  Similarity=0.162  Sum_probs=118.1

Q ss_pred             ChhhHHhh---cCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCc
Q 047388          112 SQALDELL---GGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDP  188 (352)
Q Consensus       112 ~~~LD~~L---~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~  188 (352)
                      +++|+.+|   .+..++|.+++|... ++-=+.|++++....+.      .+.+|+|+...++  ...-..+++++|++.
T Consensus         2 f~eln~ll~~~~~~~~~g~~ili~d~-~~dgsFLlh~~L~~~Lk------~~~~V~fv~~~q~--~~HY~~v~~KLG~NL   72 (249)
T PF09807_consen    2 FPELNSLLNWSPDSVPPGKLILIEDC-ETDGSFLLHHFLSQYLK------AGCKVCFVAFSQS--FSHYNNVAQKLGVNL   72 (249)
T ss_pred             chHHHHHhcCCCCCCCCCeEEEEEcC-CCCchhHHHHHHHHHhc------CCCcEEEEEccCC--HHHHHHHHHhhEecc
Confidence            45677766   367889999999999 99999999999888777      6789999999987  445677888988876


Q ss_pred             ccccc--cEEEEecC-------------------------CHHHHHHHHHHHHHHhhc---CCceEEEEcccccchhccc
Q 047388          189 GAVLD--NIIYARAY-------------------------TYEHQYNLLLGLAAKMSE---EPFRLLIVDSVIALFRVDF  238 (352)
Q Consensus       189 ~~~~~--~i~~~~~~-------------------------~~~~~~~~l~~l~~~l~~---~~~~lvvIDsl~~l~~~~~  238 (352)
                      ....+  ++.+++..                         ....+..+...+.+.+..   .+.-+||||.++.+.....
T Consensus        73 ~~~~~~gql~fiD~l~~~~~~l~~~~~~~~~~~~~~l~~~~~~~L~~L~~~I~~~l~~~~~~~~~~liIDdls~Ll~lG~  152 (249)
T PF09807_consen   73 SAAKEKGQLVFIDGLKSSLDLLFDEDSSDEPNPLKFLREDNASSLRSLYEFIQEALSPADSNGSVVLIIDDLSVLLSLGV  152 (249)
T ss_pred             hHhccCCcEEEeehhhhhhhhhhccccccCCccccccccCCcchHHHHHHHHHHHHhhccCCCCeEEEEeCHHHHHHcCC
Confidence            43221  22222211                         111233444445444443   3578999999999976322


Q ss_pred             CCCcchHHHHHHHHHHHHHHH-HHHHHhCcEEEEEcccccCCCCCcccCCCCCCC-cchhhhhccceEEEEEe
Q 047388          239 TGRGELADRQQKLGQMLSRLT-KISEEFNVAVYMTNQVIADPGGGVFISDPKKPA-GGHVLAHAVTIRLMFRK  309 (352)
Q Consensus       239 ~~~g~~~~r~~~l~~i~~~L~-~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~-gg~~~~~~~~~~i~L~~  309 (352)
                            +.  ..+-.+++.++ .++.+.+..+|+..|.......       .... ....+.|.++.+|.++.
T Consensus       153 ------s~--~~vldF~~ycra~l~~~~~~~lVvl~h~d~~~~~-------e~~~~l~~~L~h~a~l~i~v~~  210 (249)
T PF09807_consen  153 ------SS--NDVLDFIHYCRATLCSESNGSLVVLVHCDIDDED-------EENDLLLNSLAHMADLVITVEP  210 (249)
T ss_pred             ------CH--HHHHHHHHHHHHHhccccCCCEEEEEecCCCCcc-------chHHHHHHHHHHHhcEEEEecC
Confidence                  22  22447777777 5777777788887776542111       1122 67889999999999985

>TIGR01187 potA spermidine/putrescine ABC transporter ATP-binding subunit

Probab=98.05  E-value=5.1e-06  Score=78.22  Aligned_cols=44  Identities=18%  Similarity=0.281  Sum_probs=33.1

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                      +++++++|+.++-+..        ..|    ..+.+.|++++++.+.++|+++|-.
T Consensus       118 ~p~lllLDEP~s~LD~--------~~~----~~l~~~l~~l~~~~g~tiiivTHd~  161 (325)
T TIGR01187       118 KPKILLLDEPLSALDK--------KLR----DQMQLELKTIQEQLGITFVFVTHDQ  161 (325)
T ss_pred             CCCEEEEeCCCccCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEeCCH
Confidence            7899999998776431        222    2677778888888899999999944

This model describes spermidine/putrescine ABC transporter, ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. Polyamines like spermidine and putrescine play vital role in cell proliferation, differentiation, and ion homeostasis. The concentration of polyamines within the cell are regulated by biosynthesis, degradation and transport (uptake and efflux included).

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=98.05  E-value=5.6e-05  Score=66.04  Aligned_cols=28  Identities=29%  Similarity=0.392  Sum_probs=25.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+.+|++..|.||+|||||||+..++.+
T Consensus        26 ~v~~GEvhaiMGPNGsGKSTLa~~i~G~   53 (251)
T COG0396          26 TVKEGEVHAIMGPNGSGKSTLAYTIMGH   53 (251)
T ss_pred             eEcCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999999999987754

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

Probab=98.05  E-value=0.00015  Score=73.10  Aligned_cols=202  Identities=15%  Similarity=0.187  Sum_probs=112.4

Q ss_pred             HhCCCCHHHHHHHHHcCCCchhhhhcCCh-----------hhHHhhhCCCHHHHHHHHHHHHHHhhcCCC-------chh
Q 047388           35 ISQGINAGDVKKLQDAGIYTCNGLMMHTK-----------KHLTGIKGLSEAKVEKICEAAEKIVNFGYI-------TGS   96 (352)
Q Consensus        35 ~~~~~~~~~~~~l~~~g~~t~~~~~~~~~-----------~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~   96 (352)
                      +..|++..++..|-.+.-..+.+......           ....+..-+.++++.+.++.+++.....+.       +..
T Consensus       593 ~t~gfs~~~L~~l~~~~s~~~~~~i~~~~l~g~~~~~~~~~~~~~~~~l~~edf~kals~~~~~fs~aiGAPKIPnV~Wd  672 (953)
T KOG0736|consen  593 KTSGFSFGDLEALVAHSSLAAKTRIKNKGLAGGLQEEDEGELCAAGFLLTEEDFDKALSRLQKEFSDAIGAPKIPNVSWD  672 (953)
T ss_pred             hcCCCCHHHHHHHhcCchHHHHHHHHhhcccccchhccccccccccceecHHHHHHHHHHHHHhhhhhcCCCCCCccchh
Confidence            44777777777777666111111111100           112222334556777777766665533221       222


Q ss_pred             hh------HHhhhcccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388           97 DA------LLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus        97 ~~------~~~~~~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      |.      ...-.+.-.+|--.+   ++++-|+++.+=++++||||+|||.+|..+|-++-           .-|++-.+
T Consensus       673 DVGGLeevK~eIldTIqlPL~hp---eLfssglrkRSGILLYGPPGTGKTLlAKAVATEcs-----------L~FlSVKG  738 (953)
T KOG0736|consen  673 DVGGLEEVKTEILDTIQLPLKHP---ELFSSGLRKRSGILLYGPPGTGKTLLAKAVATECS-----------LNFLSVKG  738 (953)
T ss_pred             cccCHHHHHHHHHHHhcCcccCh---hhhhccccccceeEEECCCCCchHHHHHHHHhhce-----------eeEEeecC
Confidence            22      111111112222222   36778999999999999999999999998776544           34777765


Q ss_pred             CCChhhHHHHHHHcCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhccc-CCC-cchHHHH
Q 047388          171 TFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDF-TGR-GELADRQ  248 (352)
Q Consensus       171 ~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~-~~~-g~~~~r~  248 (352)
                      +   +-+.                .++.      +-.+-+.++-+..++..|.+|++|++.++.+..- +|. |+..+| 
T Consensus       739 P---ELLN----------------MYVG------qSE~NVR~VFerAR~A~PCVIFFDELDSlAP~RG~sGDSGGVMDR-  792 (953)
T KOG0736|consen  739 P---ELLN----------------MYVG------QSEENVREVFERARSAAPCVIFFDELDSLAPNRGRSGDSGGVMDR-  792 (953)
T ss_pred             H---HHHH----------------HHhc------chHHHHHHHHHHhhccCCeEEEeccccccCccCCCCCCccccHHH-
Confidence            3   3221                1111      1111122233334455899999999999877532 121 333343 


Q ss_pred             HHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          249 QKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       249 ~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                       .+.+++..|-.+......-|+++.-.++
T Consensus       793 -VVSQLLAELDgls~~~s~~VFViGATNR  820 (953)
T KOG0736|consen  793 -VVSQLLAELDGLSDSSSQDVFVIGATNR  820 (953)
T ss_pred             -HHHHHHHHhhcccCCCCCceEEEecCCC
Confidence             4678888888887655566777766665

>TIGR01194 cyc_pep_trnsptr cyclic peptide transporter

Probab=98.05  E-value=5.8e-05  Score=76.36  Aligned_cols=27  Identities=37%  Similarity=0.521  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      =+++|+++.|+||+|+|||||+.-++.
T Consensus       364 ~i~~G~~~aivG~sGsGKSTl~~ll~g  390 (555)
T TIGR01194       364 RIAQGDIVFIVGENGCGKSTLAKLFCG  390 (555)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999999999996654

This model describes cyclic peptide transporter in bacteria. Bacteria have elaborate pathways for the production of toxins and secondary metabolites. Many such compounds, including syringomycin and pyoverdine are synthesized on non-ribosomal templates consisting of a multienzyme complex. On several occasions the proteins of the complex and transporter protein are present on the same operon. Often times these compounds cross the biological membrane by specific transporters. Syringomycin is an amphipathic, cylclic lipodepsipeptide when inserted into host causes formation of channels, permeable to variety of cations. On the other hand, pyoverdine is a cyclic octa-peptidyl dihydroxyquinoline, which is efficient in sequestering iron for uptake.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=98.04  E-value=9.4e-05  Score=67.74  Aligned_cols=93  Identities=17%  Similarity=0.178  Sum_probs=57.5

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCCh---hhHHHHHHHcCCCcccccccEEEEecC
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRP---DRIVPIAERFGMDPGAVLDNIIYARAY  201 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~---~rl~~~~~~~~~~~~~~~~~i~~~~~~  201 (352)
                      ++.++.++|++|+||||.+..+|.....      .+.+|+.++++. +..   +.+..++++.+...      +......
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~~l~~------~g~~V~li~~D~-~r~~a~~ql~~~~~~~~i~~------~~~~~~~  137 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLANKLKK------QGKSVLLAAGDT-FRAAAIEQLEEWAKRLGVDV------IKQKEGA  137 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHh------cCCEEEEEeCCC-CCHHHHHHHHHHHHhCCeEE------EeCCCCC
Confidence            4679999999999999999999987654      567899998874 322   44555666665321      0000112


Q ss_pred             CHHHHHHHHHHHHHHhhcCCceEEEEcccccc
Q 047388          202 TYEHQYNLLLGLAAKMSEEPFRLLIVDSVIAL  233 (352)
Q Consensus       202 ~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l  233 (352)
                      ++...  ....+ ......+.++|+||.....
T Consensus       138 dp~~~--~~~~l-~~~~~~~~D~ViIDT~G~~  166 (272)
T TIGR00064       138 DPAAV--AFDAI-QKAKARNIDVVLIDTAGRL  166 (272)
T ss_pred             CHHHH--HHHHH-HHHHHCCCCEEEEeCCCCC
Confidence            22211  11111 1223357899999987765

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.

>TIGR00954 3a01203 Peroxysomal Fatty Acyl CoA Transporter (FAT) Family protei

Probab=98.04  E-value=6.8e-05  Score=77.28  Aligned_cols=27  Identities=22%  Similarity=0.213  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|+||+|||||||+..++.
T Consensus       474 ~i~~Ge~~~IvG~nGsGKSTLl~lL~G  500 (659)
T TIGR00954       474 EVPSGNHLLICGPNGCGKSSLFRILGE  500 (659)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999999999996654

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.03  E-value=0.00069  Score=64.50  Aligned_cols=62  Identities=19%  Similarity=0.223  Sum_probs=44.4

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCC-CeEEEEeCCCCC--ChhhHHHHHHHcCCCc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGN-GKVAYIDTEGTF--RPDRIVPIAERFGMDP  188 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~-~~vl~i~~e~~~--~~~rl~~~~~~~~~~~  188 (352)
                      -++.|.++.|+||+|+||||++..++......     .+ .+|.+++++...  ..+.++..++.+++..
T Consensus       133 ~~~~g~ii~lvGptGvGKTTtiakLA~~~~~~-----~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~  197 (374)
T PRK14722        133 LMERGGVFALMGPTGVGKTTTTAKLAARCVMR-----FGASKVALLTTDSYRIGGHEQLRIFGKILGVPV  197 (374)
T ss_pred             cccCCcEEEEECCCCCCHHHHHHHHHHHHHHh-----cCCCeEEEEecccccccHHHHHHHHHHHcCCce
Confidence            36678999999999999999999998875431     23 578888876421  2345666666666543

>KOG0055 consensus Multidrug/pheromone exporter, ABC superfamily [Secondary metabolites biosynthesis, transport and catabolism]

Probab=98.03  E-value=3.7e-05  Score=81.57  Aligned_cols=71  Identities=24%  Similarity=0.319  Sum_probs=47.0

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcc-------ccccc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPG-------AVLDN  194 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~-------~~~~~  194 (352)
                      -+|+|+++.|+|+|||||||+..-+..- -.|      ..+.+++|.++- ..-.+.....+.|+-.+       .+.+|
T Consensus       375 ~i~~G~~valVG~SGsGKST~i~LL~Rf-ydP------~~G~V~idG~di-~~~~~~~lr~~iglV~QePvlF~~tI~eN  446 (1228)
T KOG0055|consen  375 KIPSGQTVALVGPSGSGKSTLIQLLARF-YDP------TSGEVLIDGEDI-RNLNLKWLRSQIGLVSQEPVLFATTIREN  446 (1228)
T ss_pred             EeCCCCEEEEECCCCCCHHHHHHHHHHh-cCC------CCceEEEcCccc-hhcchHHHHhhcCeeeechhhhcccHHHH
Confidence            4899999999999999999998755443 332      456788888763 22223444445665332       45577


Q ss_pred             EEEEec
Q 047388          195 IIYARA  200 (352)
Q Consensus       195 i~~~~~  200 (352)
                      +.+.+.
T Consensus       447 I~~G~~  452 (1228)
T KOG0055|consen  447 IRYGKP  452 (1228)
T ss_pred             HhcCCC
Confidence            777654

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=98.03  E-value=0.0003  Score=68.08  Aligned_cols=39  Identities=21%  Similarity=0.090  Sum_probs=32.8

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      ..++.++|++|+||||++..+|.....      .+.+|+.++++.
T Consensus       100 ~~vi~lvG~~GvGKTTtaaKLA~~l~~------~G~kV~lV~~D~  138 (429)
T TIGR01425       100 QNVIMFVGLQGSGKTTTCTKLAYYYQR------KGFKPCLVCADT  138 (429)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHH------CCCCEEEEcCcc
Confidence            368999999999999999999987654      567899998863

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.

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=98.03  E-value=6.3e-05  Score=74.89  Aligned_cols=51  Identities=22%  Similarity=0.311  Sum_probs=36.7

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCC----CCCeEEEEeCCCCCCh
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRG----GNGKVAYIDTEGTFRP  174 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg----~~~~vl~i~~e~~~~~  174 (352)
                      -+.+|+-+.|+|++|+|||||+.-++..  ..++.|.    .+-++.|+.-+..+..
T Consensus        25 ~~~~G~riGLvG~NGaGKSTLLkilaG~--~~~~~G~i~~~~~~~v~~l~Q~~~~~~   79 (530)
T COG0488          25 TLNPGERIGLVGRNGAGKSTLLKILAGE--LEPDSGEVTRPKGLRVGYLSQEPPLDP   79 (530)
T ss_pred             eeCCCCEEEEECCCCCCHHHHHHHHcCC--CcCCCCeEeecCCceEEEeCCCCCcCC
Confidence            5889999999999999999999965533  3333332    2347888887766553

>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional

Probab=98.02  E-value=1e-05  Score=71.41  Aligned_cols=27  Identities=26%  Similarity=0.236  Sum_probs=24.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.|++|+|||||+..++.
T Consensus         9 ~i~~Ge~~~l~G~NGsGKSTLlk~i~G   35 (213)
T PRK15177          9 VMGYHEHIGILAAPGSGKTTLTRLLCG   35 (213)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999999999997654

>cd03280 ABC_MutS2 MutS2 homologs in bacteria and eukaryotes

Probab=98.02  E-value=1.1e-05  Score=70.46  Aligned_cols=27  Identities=26%  Similarity=0.185  Sum_probs=22.3

Q ss_pred             CCC-cEEEEecCCCCChhHHHHHHHHHh
Q 047388          124 ETG-AITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       124 ~~G-~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ..| .++.|+||+|+|||||+..++...
T Consensus        25 ~~~~~~~~ltG~Ng~GKStll~~i~~~~   52 (200)
T cd03280          25 GENKRVLVITGPNAGGKTVTLKTLGLLT   52 (200)
T ss_pred             CCCceEEEEECCCCCChHHHHHHHHHHH
Confidence            345 589999999999999999887433

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, a

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=98.02  E-value=9.3e-05  Score=69.27  Aligned_cols=94  Identities=19%  Similarity=0.176  Sum_probs=57.0

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCCh---hhHHHHHHHcCCCcccccccEEEEec
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRP---DRIVPIAERFGMDPGAVLDNIIYARA  200 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~---~rl~~~~~~~~~~~~~~~~~i~~~~~  200 (352)
                      .+|.++.++||+|+||||++..+|.....      .+++|+.++... +..   +++..++.+.++..      +.....
T Consensus       112 ~~~~vi~lvGpnGsGKTTt~~kLA~~l~~------~g~~V~Li~~D~-~r~~a~eql~~~a~~~~i~~------~~~~~~  178 (318)
T PRK10416        112 KKPFVILVVGVNGVGKTTTIGKLAHKYKA------QGKKVLLAAGDT-FRAAAIEQLQVWGERVGVPV------IAQKEG  178 (318)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHHHh------cCCeEEEEecCc-cchhhHHHHHHHHHHcCceE------EEeCCC
Confidence            46899999999999999999999987664      567898888753 332   33444555554321      000011


Q ss_pred             CCHHHHHHHHHHHHHHhhcCCceEEEEcccccc
Q 047388          201 YTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIAL  233 (352)
Q Consensus       201 ~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l  233 (352)
                      .++..  .....+.. ....+.++|+||....+
T Consensus       179 ~dpa~--~v~~~l~~-~~~~~~D~ViIDTaGr~  208 (318)
T PRK10416        179 ADPAS--VAFDAIQA-AKARGIDVLIIDTAGRL  208 (318)
T ss_pred             CCHHH--HHHHHHHH-HHhCCCCEEEEeCCCCC
Confidence            12211  11111211 12357899999987765

>COG4172 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]

Probab=98.01  E-value=9.2e-05  Score=69.72  Aligned_cols=43  Identities=23%  Similarity=0.349  Sum_probs=34.2

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcc
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQ  274 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h  274 (352)
                      ..|+++|-|+.+..+.-        .    ...++++.|+.|-+++|.++++++|
T Consensus       174 n~P~lLIADEPTTALDV--------t----vQaQIL~Ll~~Lq~~~gMa~lfITH  216 (534)
T COG4172         174 NEPDLLIADEPTTALDV--------T----VQAQILDLLKELQAELGMAILFITH  216 (534)
T ss_pred             CCCCeEeecCCcchhhh--------h----hHHHHHHHHHHHHHHhCcEEEEEec
Confidence            36888888887766421        1    2258999999999999999999999

>COG4525 TauB ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.01  E-value=0.00015  Score=61.87  Aligned_cols=27  Identities=26%  Similarity=0.375  Sum_probs=23.7

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHH
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la  147 (352)
                      =++.+|+++++.||||||||||+.-+|
T Consensus        26 L~ia~ge~vv~lGpSGcGKTTLLnl~A   52 (259)
T COG4525          26 LTIASGELVVVLGPSGCGKTTLLNLIA   52 (259)
T ss_pred             eeecCCCEEEEEcCCCccHHHHHHHHh
Confidence            478899999999999999999998444

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=98.00  E-value=3.6e-05  Score=67.20  Aligned_cols=161  Identities=20%  Similarity=0.147  Sum_probs=92.2

Q ss_pred             CCCCcE-EEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHH-cCCCcccccccEEEEec
Q 047388          123 IETGAI-TEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAER-FGMDPGAVLDNIIYARA  200 (352)
Q Consensus       123 l~~G~i-~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~-~~~~~~~~~~~i~~~~~  200 (352)
                      ...|.+ ++|.|||++||||++..+|........ +-.+.+|..+|+.+.        ++-. .|.+....-.++.+.+.
T Consensus       133 y~~g~lntLiigpP~~GKTTlLRdiaR~~s~g~~-~~l~kkv~IiDersE--------Iag~~~gvpq~~~g~R~dVld~  203 (308)
T COG3854         133 YQNGWLNTLIIGPPQVGKTTLLRDIARLLSDGIN-QFLPKKVGIIDERSE--------IAGCLNGVPQHGRGRRMDVLDP  203 (308)
T ss_pred             HhcCceeeEEecCCCCChHHHHHHHHHHhhcccc-ccCCceEEEEeccch--------hhccccCCchhhhhhhhhhccc
Confidence            346777 999999999999999999987664221 125678999987643        2211 11111111112222222


Q ss_pred             CCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCC
Q 047388          201 YTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPG  280 (352)
Q Consensus       201 ~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~  280 (352)
                      ....   +   -+...+..+.|+++|+|++....                  .....+.  |-..|+-+|.+.|-..- +
T Consensus       204 cpk~---~---gmmmaIrsm~PEViIvDEIGt~~------------------d~~A~~t--a~~~GVkli~TaHG~~i-e  256 (308)
T COG3854         204 CPKA---E---GMMMAIRSMSPEVIIVDEIGTEE------------------DALAILT--ALHAGVKLITTAHGNGI-E  256 (308)
T ss_pred             chHH---H---HHHHHHHhcCCcEEEEeccccHH------------------HHHHHHH--HHhcCcEEEEeeccccH-H
Confidence            1111   1   12224456689999999997652                  1111122  22469999999996541 1


Q ss_pred             CCcccCCCCCCCcchhhhh-ccceEEEEEeecCCeEEEEEEeCCC
Q 047388          281 GGVFISDPKKPAGGHVLAH-AVTIRLMFRKGKGEQRVCKVFDAPN  324 (352)
Q Consensus       281 ~~~~~~~~~~~~gg~~~~~-~~~~~i~L~~~~~~~R~~~i~Ks~~  324 (352)
                      .     -.+.|.+...|.. +.+--+.+++.+|...+..++|.|.
T Consensus       257 d-----l~krp~lkdlv~i~af~r~~elsrr~g~g~v~~ird~~~  296 (308)
T COG3854         257 D-----LIKRPTLKDLVEIQAFDRGIELSRRRGPGTVVLIRDAPP  296 (308)
T ss_pred             H-----hhcChhHHHHHhhhHHHHHHHHhhccCCCeEEEEecCCC
Confidence            1     0134777777754 3444455666566666677777653

>COG4133 CcmA ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]

Probab=98.00  E-value=2.5e-05  Score=66.17  Aligned_cols=41  Identities=24%  Similarity=0.292  Sum_probs=29.8

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      |.+|+++.|.||+|+|||||+.-+|.-...      ..+ -+|+..+.
T Consensus        25 l~~Ge~~~i~G~NG~GKTtLLRilaGLl~p------~~G-~v~~~~~~   65 (209)
T COG4133          25 LNAGEALQITGPNGAGKTTLLRILAGLLRP------DAG-EVYWQGEP   65 (209)
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHHcccCC------CCC-eEEecCCC
Confidence            568999999999999999999966543332      334 45555544

>TIGR03689 pup_AAA proteasome ATPase

Probab=97.99  E-value=4.5e-05  Score=75.40  Aligned_cols=129  Identities=16%  Similarity=0.176  Sum_probs=65.7

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAY  201 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~  201 (352)
                      |+++..-++|+||||+|||+++..++.....+... .......|++...+   .    +.           .. ++  ..
T Consensus       212 gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~-~~~~~~~fl~v~~~---e----Ll-----------~k-yv--Ge  269 (512)
T TIGR03689       212 DLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGA-ETGDKSYFLNIKGP---E----LL-----------NK-YV--GE  269 (512)
T ss_pred             cCCCCcceEEECCCCCcHHHHHHHHHHhhcccccc-ccCCceeEEeccch---h----hc-----------cc-cc--ch
Confidence            56666669999999999999999887765432100 01223444443321   0    00           00 00  00


Q ss_pred             CHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEc
Q 047388          202 TYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTN  273 (352)
Q Consensus       202 ~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~  273 (352)
                      .......++..+........+.+|+||++..++...-.+...-.++ ..+..++..|..+....++.||.++
T Consensus       270 te~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~-~il~~LL~~LDgl~~~~~ViVI~AT  340 (512)
T TIGR03689       270 TERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVET-TVVPQLLSELDGVESLDNVIVIGAS  340 (512)
T ss_pred             HHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHH-HHHHHHHHHhcccccCCceEEEecc
Confidence            0111222333333333334688999999999876432211111122 2345666666555444456666544

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.

>TIGR00957 MRP_assoc_pro multi drug resistance-associated protein (MRP)

Probab=97.98  E-value=2.1e-05  Score=88.09  Aligned_cols=42  Identities=21%  Similarity=0.185  Sum_probs=31.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      -+++|+.+.|+|++|||||||+..+..-...       ..+.++||..+
T Consensus      1308 ~I~~GekiaIVGrTGsGKSTL~~lL~rl~~~-------~~G~I~IdG~d 1349 (1522)
T TIGR00957      1308 TIHGGEKVGIVGRTGAGKSSLTLGLFRINES-------AEGEIIIDGLN 1349 (1522)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCccC-------CCCeEEECCEE
Confidence            5789999999999999999999976543322       23446666643

This model describes multi drug resistance-associated protein (MRP) in eukaryotes. The multidrug resistance-associated protein is an integral membrane protein that causes multidrug resistance when overexpressed in mammalian cells. It belongs to ABC transporter superfamily. The protein topology and function was experimentally demonstrated by epitope tagging and immunofluorescence. Insertion of tags in the critical regions associated with drug efflux, abrogated its function. The C-terminal domain seem to highly conserved.

>PRK14255 phosphate ABC transporter ATP-binding protein; Provisional

Probab=97.98  E-value=0.00018  Score=65.15  Aligned_cols=27  Identities=26%  Similarity=0.304  Sum_probs=24.4

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      =+.+|+++.|.|++|+|||||+..++.
T Consensus        27 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G   53 (252)
T PRK14255         27 DFNQNEITALIGPSGCGKSTYLRTLNR   53 (252)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhc
Confidence            478999999999999999999997764

>TIGR00959 ffh signal recognition particle protein

Probab=97.98  E-value=0.0005  Score=66.78  Aligned_cols=92  Identities=18%  Similarity=0.239  Sum_probs=56.9

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChh---hHHHHHHHcCCCcccccccEEEEecCCH
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPD---RIVPIAERFGMDPGAVLDNIIYARAYTY  203 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~---rl~~~~~~~~~~~~~~~~~i~~~~~~~~  203 (352)
                      .++.++|++|+||||++..+|......     .+.+|++++++. +.+.   .+..++++.+++.      +......++
T Consensus       100 ~vi~~vG~~GsGKTTtaakLA~~l~~~-----~g~kV~lV~~D~-~R~~a~~QL~~~a~~~gvp~------~~~~~~~~P  167 (428)
T TIGR00959       100 TVILMVGLQGSGKTTTCGKLAYYLKKK-----QGKKVLLVACDL-YRPAAIEQLKVLGQQVGVPV------FALGKGQSP  167 (428)
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHh-----CCCeEEEEeccc-cchHHHHHHHHHHHhcCCce------EecCCCCCH
Confidence            699999999999999999999875421     467899999874 3332   2334455555432      111111223


Q ss_pred             HHHHHHHHHHHHHhhcCCceEEEEcccccc
Q 047388          204 EHQYNLLLGLAAKMSEEPFRLLIVDSVIAL  233 (352)
Q Consensus       204 ~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l  233 (352)
                      ..   +.....+.+...+.++||||....+
T Consensus       168 ~~---i~~~al~~~~~~~~DvVIIDTaGr~  194 (428)
T TIGR00959       168 VE---IARRALEYAKENGFDVVIVDTAGRL  194 (428)
T ss_pred             HH---HHHHHHHHHHhcCCCEEEEeCCCcc
Confidence            22   2222333344457899999987655

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.

>COG4178 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]

Probab=97.98  E-value=9.5e-05  Score=73.75  Aligned_cols=56  Identities=16%  Similarity=0.208  Sum_probs=38.7

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCC----CCCeEEEEeCCCCCChhhHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRG----GNGKVAYIDTEGTFRPDRIVP  179 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg----~~~~vl~i~~e~~~~~~rl~~  179 (352)
                      .+++|+-+.|.|+||||||+|...+|  .+.|...|.    .+..++|+.-..-++.-.+++
T Consensus       415 ~v~~G~~llI~G~SG~GKTsLlRaia--GLWP~g~G~I~~P~~~~~lflpQ~PY~p~GtLre  474 (604)
T COG4178         415 EVRPGERLLITGESGAGKTSLLRALA--GLWPWGSGRISMPADSALLFLPQRPYLPQGTLRE  474 (604)
T ss_pred             eeCCCCEEEEECCCCCCHHHHHHHHh--ccCccCCCceecCCCCceEEecCCCCCCCccHHH
Confidence            68999999999999999999999554  566654443    234467776554444433433

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

Probab=97.98  E-value=3.8e-05  Score=71.11  Aligned_cols=128  Identities=22%  Similarity=0.309  Sum_probs=82.3

Q ss_pred             cccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHc-CC
Q 047388          108 ITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERF-GM  186 (352)
Q Consensus       108 i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~-~~  186 (352)
                      +|--.|+|=+-+  |+.|-.=++++||||+|||.|+...|..           -.+-||-.-++   +    ..++| | 
T Consensus       169 LPL~~PElF~~~--GI~PPKGVLLYGPPGTGKTLLAkAVA~~-----------T~AtFIrvvgS---E----lVqKYiG-  227 (406)
T COG1222         169 LPLKNPELFEEL--GIDPPKGVLLYGPPGTGKTLLAKAVANQ-----------TDATFIRVVGS---E----LVQKYIG-  227 (406)
T ss_pred             ccccCHHHHHHc--CCCCCCceEeeCCCCCcHHHHHHHHHhc-----------cCceEEEeccH---H----HHHHHhc-
Confidence            333334443334  7888888999999999999999966532           23455544332   2    11111 1 


Q ss_pred             CcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccC-CCcchHHHHHHHHHHHHHHHHHHHHh
Q 047388          187 DPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFT-GRGELADRQQKLGQMLSRLTKISEEF  265 (352)
Q Consensus       187 ~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~-~~g~~~~r~~~l~~i~~~L~~la~~~  265 (352)
                                        +-..++.++.++..++.|.+|+||.+.++-...+. +.+.-.+-|+.+-++++.|-.+-..-
T Consensus       228 ------------------EGaRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~  289 (406)
T COG1222         228 ------------------EGARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRG  289 (406)
T ss_pred             ------------------cchHHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCCC
Confidence                              11234455666677789999999999888654443 22333556677778888888877777


Q ss_pred             CcEEEEEcc
Q 047388          266 NVAVYMTNQ  274 (352)
Q Consensus       266 ~~~viv~~h  274 (352)
                      |+-||+.+.
T Consensus       290 nvKVI~ATN  298 (406)
T COG1222         290 NVKVIMATN  298 (406)
T ss_pred             CeEEEEecC
Confidence            888887655

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.96  E-value=0.00078  Score=66.51  Aligned_cols=45  Identities=22%  Similarity=0.256  Sum_probs=35.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      .+..|.++.|+|++|+||||++..|+......    +.+.+|.+++++.
T Consensus       346 ~l~~G~vIaLVGPtGvGKTTtaakLAa~la~~----~~gkkVaLIdtDt  390 (559)
T PRK12727        346 PLERGGVIALVGPTGAGKTTTIAKLAQRFAAQ----HAPRDVALVTTDT  390 (559)
T ss_pred             cccCCCEEEEECCCCCCHHHHHHHHHHHHHHh----cCCCceEEEeccc
Confidence            45678999999999999999999988765542    0246788888763

>PF13173 AAA_14: AAA domain

Probab=97.95  E-value=7e-05  Score=60.46  Aligned_cols=39  Identities=23%  Similarity=0.201  Sum_probs=32.6

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT  171 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~  171 (352)
                      +.++.|.||.|+||||++.+++....       .+.+++|++.++.
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~-------~~~~~~yi~~~~~   40 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLL-------PPENILYINFDDP   40 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhc-------ccccceeeccCCH
Confidence            56899999999999999999987654       2467899998864

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

Probab=97.95  E-value=6.4e-05  Score=73.13  Aligned_cols=119  Identities=18%  Similarity=0.233  Sum_probs=66.4

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAY  201 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~  201 (352)
                      |+.++.-++|+||||+|||+++..++....         ...+.+....         +...+            +    
T Consensus       213 gi~~p~gVLL~GPPGTGKT~LAraIA~el~---------~~fi~V~~se---------L~~k~------------~----  258 (438)
T PTZ00361        213 GIKPPKGVILYGPPGTGKTLLAKAVANETS---------ATFLRVVGSE---------LIQKY------------L----  258 (438)
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHHHhhC---------CCEEEEecch---------hhhhh------------c----
Confidence            678888899999999999999998876432         2223332211         00000            0    


Q ss_pred             CHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCC-CcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          202 TYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTG-RGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       202 ~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~-~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                        .+....+..+........+.+|+||.+..+....... .+...+-++.+..++..|..+....++.||++++-.
T Consensus       259 --Ge~~~~vr~lF~~A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~~~~V~VI~ATNr~  332 (438)
T PTZ00361        259 --GDGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSRGDVKVIMATNRI  332 (438)
T ss_pred             --chHHHHHHHHHHHHHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhcccCCeEEEEecCCh
Confidence              0001112222223334578899999998886532211 111122233445566666665556688888877643

>COG2401 ABC-type ATPase fused to a predicted acetyltransferase domain [General function prediction only]

Probab=97.95  E-value=4.7e-05  Score=71.81  Aligned_cols=45  Identities=13%  Similarity=0.260  Sum_probs=36.4

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                      .+++++++|.+.+++..       +.     ...+++.+.++|++.++|+++++|-.
T Consensus       524 erpn~~~iDEF~AhLD~-------~T-----A~rVArkiselaRe~giTlivvThrp  568 (593)
T COG2401         524 ERPNVLLIDEFAAHLDE-------LT-----AVRVARKISELAREAGITLIVVTHRP  568 (593)
T ss_pred             cCCCcEEhhhhhhhcCH-------HH-----HHHHHHHHHHHHHHhCCeEEEEecCH
Confidence            47899999999888531       22     34889999999999999999988744

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

Probab=97.94  E-value=3.4e-05  Score=70.45  Aligned_cols=134  Identities=17%  Similarity=0.196  Sum_probs=77.6

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCC
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYT  202 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~  202 (352)
                      +--..++++.||||+|||+||..+|-........  ...+...+.-..   ..-+.+++...|                 
T Consensus       174 It~NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~--~y~~~~liEins---hsLFSKWFsESg-----------------  231 (423)
T KOG0744|consen  174 ITWNRLILLHGPPGTGKTSLCKALAQKLSIRTND--RYYKGQLIEINS---HSLFSKWFSESG-----------------  231 (423)
T ss_pred             eeeeeEEEEeCCCCCChhHHHHHHHHhheeeecC--ccccceEEEEeh---hHHHHHHHhhhh-----------------
Confidence            3446789999999999999999888665432110  111111111110   011112221111                 


Q ss_pred             HHHHHHHHHHHHHHhhcC-CceEEEEcccccchhc--ccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCC
Q 047388          203 YEHQYNLLLGLAAKMSEE-PFRLLIVDSVIALFRV--DFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADP  279 (352)
Q Consensus       203 ~~~~~~~l~~l~~~l~~~-~~~lvvIDsl~~l~~~--~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~  279 (352)
                       .-...+++++.+.+... ..=.|.||++-++-..  ..+++.+.++-.+.+..++..|.++-+..|+.++.|+.+....
T Consensus       232 -KlV~kmF~kI~ELv~d~~~lVfvLIDEVESLa~aR~s~~S~~EpsDaIRvVNalLTQlDrlK~~~NvliL~TSNl~~si  310 (423)
T KOG0744|consen  232 -KLVAKMFQKIQELVEDRGNLVFVLIDEVESLAAARTSASSRNEPSDAIRVVNALLTQLDRLKRYPNVLILATSNLTDSI  310 (423)
T ss_pred             -hHHHHHHHHHHHHHhCCCcEEEEEeHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHhccCCCEEEEeccchHHHH
Confidence             11234455666666554 3456678987666432  2223334444456678888999999888899999998887654

>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=97.94  E-value=7.9e-05  Score=68.57  Aligned_cols=122  Identities=16%  Similarity=0.131  Sum_probs=68.6

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCCh-hhHHHHHHHcCCCcccccccEEEEecCC
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRP-DRIVPIAERFGMDPGAVLDNIIYARAYT  202 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~-~rl~~~~~~~~~~~~~~~~~i~~~~~~~  202 (352)
                      ....++.|.|.+|+|||+|+.+++.......    .-..++|++....... .-+..+++.++......      ....+
T Consensus        17 ~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~----~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~~------~~~~~   86 (287)
T PF00931_consen   17 NEVRVVAIVGMGGIGKTTLARQVARDLRIKN----RFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSSI------SDPKD   86 (287)
T ss_dssp             TSSEEEEEEESTTSSHHHHHHHHHCHHHHCC----CCTEEEEEEEES-SCCHHHHHHHHHHHTCC-STS------SCCSS
T ss_pred             CCeEEEEEEcCCcCCcceeeeeccccccccc----cccccccccccccccccccccccccccccccccc------ccccc
Confidence            7788999999999999999998886522211    2357888876654443 33556777776653221      01122


Q ss_pred             HHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          203 YEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       203 ~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                      ...   ....+.+.+... .-++|+|++....               .+..+...+..  ...++.||+|+...
T Consensus        87 ~~~---~~~~l~~~L~~~-~~LlVlDdv~~~~---------------~~~~l~~~~~~--~~~~~kilvTTR~~  139 (287)
T PF00931_consen   87 IEE---LQDQLRELLKDK-RCLLVLDDVWDEE---------------DLEELREPLPS--FSSGSKILVTTRDR  139 (287)
T ss_dssp             HHH---HHHHHHHHHCCT-SEEEEEEEE-SHH---------------HH-------HC--HHSS-EEEEEESCG
T ss_pred             ccc---ccccchhhhccc-cceeeeeeecccc---------------ccccccccccc--cccccccccccccc
Confidence            222   334445555544 7899999865441               12233333322  23588899987643

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.

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.94  E-value=0.00065  Score=66.18  Aligned_cols=55  Identities=27%  Similarity=0.368  Sum_probs=40.3

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCCh---hhHHHHHHHcCC
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRP---DRIVPIAERFGM  186 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~---~rl~~~~~~~~~  186 (352)
                      +..++.++|++|+||||++..+|.....      .+.+|+++++.. +.+   +.++.++++.++
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~------~g~kV~lV~~D~-~R~aa~eQL~~la~~~gv  151 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFKK------KGLKVGLVAADT-YRPAAYDQLKQLAEKIGV  151 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHH------cCCeEEEecCCC-CCHHHHHHHHHHHHHcCC
Confidence            3568999999999999999999877654      567899998864 333   234555555554

>cd01131 PilT Pilus retraction ATPase PilT

Probab=97.92  E-value=7.8e-05  Score=65.05  Aligned_cols=24  Identities=17%  Similarity=0.141  Sum_probs=20.8

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhc
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQ  151 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~  151 (352)
                      ++.|+||+||||||++..++....
T Consensus         3 lilI~GptGSGKTTll~~ll~~~~   26 (198)
T cd01131           3 LVLVTGPTGSGKSTTLAAMIDYIN   26 (198)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhh
Confidence            789999999999999988766544

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.

>cd03271 ABC_UvrA_II The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=97.92  E-value=0.00014  Score=66.18  Aligned_cols=26  Identities=31%  Similarity=0.327  Sum_probs=24.0

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la  147 (352)
                      .||.|.++.|+|.||||||||+..+.
T Consensus        17 ~ip~g~~~~vtGvSGsGKStL~~~~l   42 (261)
T cd03271          17 DIPLGVLTCVTGVSGSGKSSLINDTL   42 (261)
T ss_pred             eccCCcEEEEECCCCCchHHHHHHHH
Confidence            58999999999999999999998764

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.

>TIGR01271 CFTR_protein cystic fibrosis transmembrane conductor regulator (CFTR)

Probab=97.92  E-value=2.6e-05  Score=87.11  Aligned_cols=130  Identities=17%  Similarity=0.168  Sum_probs=72.6

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcc-------ccccc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPG-------AVLDN  194 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~-------~~~~~  194 (352)
                      =+++|+.+.|+|++|||||||+..++.-.  +      ..+.++||..+- ....+..+.+++++-|+       ++.+|
T Consensus      1241 ~I~~GekvaIvGrSGsGKSTLl~lL~rl~--~------~~G~I~IdG~di-~~i~~~~lR~~is~IpQdp~LF~GTIR~N 1311 (1490)
T TIGR01271      1241 SVEGGQRVGLLGRTGSGKSTLLSALLRLL--S------TEGEIQIDGVSW-NSVTLQTWRKAFGVIPQKVFIFSGTFRKN 1311 (1490)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhhhc--C------CCcEEEECCEEc-ccCCHHHHHhceEEEeCCCccCccCHHHH
Confidence            47899999999999999999999776543  2      123456666432 12122333333433222       34444


Q ss_pred             EEEEecCCHHHHH-----------------------------------HHHHHHHHHhhcCCceEEEEcccccchhcccC
Q 047388          195 IIYARAYTYEHQY-----------------------------------NLLLGLAAKMSEEPFRLLIVDSVIALFRVDFT  239 (352)
Q Consensus       195 i~~~~~~~~~~~~-----------------------------------~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~  239 (352)
                      +......+.++..                                   +.+.-.+..+  .+++++++|+.++-...+  
T Consensus      1312 Ldp~~~~tdeei~~aL~~~~L~~~i~~lp~GLdt~v~e~G~nLSgGQrQrL~LARALL--r~~~ILlLDEaTS~lD~~-- 1387 (1490)
T TIGR01271      1312 LDPYEQWSDEEIWKVAEEVGLKSVIEQFPDKLDFVLVDGGYVLSNGHKQLMCLARSIL--SKAKILLLDEPSAHLDPV-- 1387 (1490)
T ss_pred             hCcccCCCHHHHHHHHHHCCCHHHHHhCccccccccccCCCcCCHHHHHHHHHHHHHh--CCCCEEEEeCCcccCCHH--
Confidence            4322222222222                                   2222112222  268999999988875321  


Q ss_pred             CCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          240 GRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       240 ~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                           .+     ..+.+.|+...  .++|||+++|-.
T Consensus      1388 -----Te-----~~I~~~L~~~~--~~~TvI~IaHRl 1412 (1490)
T TIGR01271      1388 -----TL-----QIIRKTLKQSF--SNCTVILSEHRV 1412 (1490)
T ss_pred             -----HH-----HHHHHHHHHHc--CCCEEEEEecCH
Confidence                 11     24555565543  379999999954

The model describes the cystis fibrosis transmembrane conductor regulator (CFTR) in eukaryotes. The principal role of this protein is chloride ion conductance. The protein is predicted to consist of 12 transmembrane domains. Mutations or lesions in the genetic loci have been linked to the aetiology of asthma, bronchiectasis, chronic obstructive pulmonary disease etc. Disease-causing mutations have been studied by 36Cl efflux assays in vitro cell cultures and electrophysiology, all of which point to the impairment of chloride channel stability and not the biosynthetic processing per se.

>PLN03211 ABC transporter G-25; Provisional

Probab=97.92  E-value=1.7e-05  Score=81.48  Aligned_cols=30  Identities=30%  Similarity=0.360  Sum_probs=26.4

Q ss_pred             cCCCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          120 GGGIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       120 ~GGl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .+=+++|+++.|.||||+|||||+..++..
T Consensus        88 s~~i~~Ge~~aI~GpnGaGKSTLL~iLaG~  117 (659)
T PLN03211         88 TGMASPGEILAVLGPSGSGKSTLLNALAGR  117 (659)
T ss_pred             EEEEECCEEEEEECCCCCCHHHHHHHHhCC
Confidence            467999999999999999999999976643

>PRK07721 fliI flagellum-specific ATP synthase; Validated

Probab=97.91  E-value=0.00016  Score=70.42  Aligned_cols=157  Identities=15%  Similarity=0.196  Sum_probs=83.9

Q ss_pred             cccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcC
Q 047388          106 IKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFG  185 (352)
Q Consensus       106 ~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~  185 (352)
                      ..+.||+..+|.++  =+.+|+.+.|+|++|+|||+|+..++... .      ....++.+..+..-+   +.++.+. .
T Consensus       140 ~~l~tg~~vid~l~--~i~~Gq~i~I~G~sG~GKStLl~~I~~~~-~------~~~gvI~~~Gerg~e---v~e~~~~-~  206 (438)
T PRK07721        140 EPMEVGVRAIDSLL--TVGKGQRVGIFAGSGVGKSTLMGMIARNT-S------ADLNVIALIGERGRE---VREFIER-D  206 (438)
T ss_pred             cccccchhhhheee--eecCCcEEEEECCCCCCHHHHHHHHhccc-C------CCeEEEEEEecCCcc---HHHHHHh-h
Confidence            46899999999985  58999999999999999999997665432 2      233456666665422   2322222 0


Q ss_pred             CCcccccccEEEEecCCHHHHHHH-----HHHHHHHhhcCCce-EEEEcccccchhcc--c-------CCCcchHHHHHH
Q 047388          186 MDPGAVLDNIIYARAYTYEHQYNL-----LLGLAAKMSEEPFR-LLIVDSVIALFRVD--F-------TGRGELADRQQK  250 (352)
Q Consensus       186 ~~~~~~~~~i~~~~~~~~~~~~~~-----l~~l~~~l~~~~~~-lvvIDsl~~l~~~~--~-------~~~g~~~~r~~~  250 (352)
                      ++...+...+.++...+..-....     -..+.+.+...+-+ ++++||++.+....  .       .+...+..  ..
T Consensus       207 l~~~~l~r~v~vv~~~~~~~~~r~~~~~~a~~iAEyfr~~g~~Vll~~Dsltr~A~A~rEisl~~ge~P~~~G~dp--~~  284 (438)
T PRK07721        207 LGPEGLKRSIVVVATSDQPALMRIKGAYTATAIAEYFRDQGLNVMLMMDSVTRVAMAQREIGLAVGEPPTTKGYTP--SV  284 (438)
T ss_pred             cChhhhcCeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCcEEEEEeChHHHHHHHHHHHHhcCCCCccccCCH--HH
Confidence            111112233444432221111111     11233444444444 66789999875531  1       11111111  12


Q ss_pred             HHHHHHHHHHHHH-HhCc-----EEEEEccccc
Q 047388          251 LGQMLSRLTKISE-EFNV-----AVYMTNQVIA  277 (352)
Q Consensus       251 l~~i~~~L~~la~-~~~~-----~viv~~h~~~  277 (352)
                      ...+.+.+.++.. ..|.     ||++.+|-..
T Consensus       285 ~~~l~~ller~~~~~~GsIT~~~TVlv~~hdm~  317 (438)
T PRK07721        285 FAILPKLLERTGTNASGSITAFYTVLVDGDDMN  317 (438)
T ss_pred             HHHHHHHHHHhcCCCCCCeeeEEEEEEECCCCC
Confidence            2355566666653 3463     6666666443

>TIGR03719 ABC_ABC_ChvD ATP-binding cassette protein, ChvD family

Probab=97.90  E-value=0.00017  Score=72.95  Aligned_cols=27  Identities=22%  Similarity=0.345  Sum_probs=24.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+.+|+++.|.|++|||||||+..++.
T Consensus       344 ~i~~Ge~~~l~G~NGsGKSTLl~~l~G  370 (552)
T TIGR03719       344 KLPPGGIVGVIGPNGAGKSTLFRMITG  370 (552)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHcC
Confidence            478999999999999999999996653

Members of this protein family have two copies of the ABC transporter ATP-binding cassette, but are found outside the common ABC transporter operon structure that features integral membrane permease proteins and substrate-binding proteins encoded next to the ATP-binding cassette (ABC domain) protein. The member protein ChvD from Agrobacterium tumefaciens was identified as both a candidate to interact with VirB8, based on yeast two-hybrid analysis, and as an apparent regulator of VirG. The general function of this protein family is unknown.

>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes

Probab=97.90  E-value=0.00012  Score=64.85  Aligned_cols=30  Identities=20%  Similarity=0.210  Sum_probs=26.4

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHhcC
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCTQL  152 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~~~  152 (352)
                      +..|+++.|.||+|+|||+|+.+++....+
T Consensus        28 ~~~g~~~~itG~N~~GKStll~~i~~~~~l   57 (222)
T cd03287          28 AEGGYCQIITGPNMGGKSSYIRQVALITIM   57 (222)
T ss_pred             ecCCcEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            567899999999999999999999886555

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

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

Probab=97.89  E-value=0.00016  Score=66.02  Aligned_cols=95  Identities=22%  Similarity=0.213  Sum_probs=51.4

Q ss_pred             CCCCC-cEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEE-eCCCCCChhhHHHHHHHcCCCcccccccEEEEe
Q 047388          122 GIETG-AITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYI-DTEGTFRPDRIVPIAERFGMDPGAVLDNIIYAR  199 (352)
Q Consensus       122 Gl~~G-~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i-~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~  199 (352)
                      +++++ .++.|+|++|+||||++..++.....      ....+.++ .+..+ ..+-+..++..+|...+.         
T Consensus        38 ~~~~~~~~~~l~G~~G~GKTtl~~~l~~~l~~------~~~~~~~~~~~~~~-~~~~l~~i~~~lG~~~~~---------  101 (269)
T TIGR03015        38 GLSQREGFILITGEVGAGKTTLIRNLLKRLDQ------ERVVAAKLVNTRVD-AEDLLRMVAADFGLETEG---------  101 (269)
T ss_pred             HHhcCCCEEEEEcCCCCCHHHHHHHHHHhcCC------CCeEEeeeeCCCCC-HHHHHHHHHHHcCCCCCC---------
Confidence            34444 48999999999999999988655332      11122232 22222 123345666677765421         


Q ss_pred             cCCHHHHHH-HHHHHHHHhhcCCceEEEEcccccc
Q 047388          200 AYTYEHQYN-LLLGLAAKMSEEPFRLLIVDSVIAL  233 (352)
Q Consensus       200 ~~~~~~~~~-~l~~l~~~l~~~~~~lvvIDsl~~l  233 (352)
                       .+...... +...+.......+..++|||....+
T Consensus       102 -~~~~~~~~~l~~~l~~~~~~~~~~vliiDe~~~l  135 (269)
T TIGR03015       102 -RDKAALLRELEDFLIEQFAAGKRALLVVDEAQNL  135 (269)
T ss_pred             -CCHHHHHHHHHHHHHHHHhCCCCeEEEEECcccC
Confidence             11111111 2122223333456679999997765

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.

>KOG0056 consensus Heavy metal exporter HMT1, ABC superfamily [Inorganic ion transport and metabolism]

Probab=97.89  E-value=0.0002  Score=69.02  Aligned_cols=135  Identities=15%  Similarity=0.247  Sum_probs=80.8

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcc-------ccccc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPG-------AVLDN  194 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~-------~~~~~  194 (352)
                      -+++|..+.++||||+||||++.-+..-.-       .+.+++-||..+- ..-......+..|.-|+       .++.|
T Consensus       560 ~v~pGktvAlVG~SGaGKSTimRlLfRffd-------v~sGsI~iDgqdI-rnvt~~SLRs~IGVVPQDtvLFNdTI~yN  631 (790)
T KOG0056|consen  560 TVQPGKTVALVGPSGAGKSTIMRLLFRFFD-------VNSGSITIDGQDI-RNVTQSSLRSSIGVVPQDTVLFNDTILYN  631 (790)
T ss_pred             EecCCcEEEEECCCCCchhHHHHHHHHHhh-------ccCceEEEcCchH-HHHHHHHHHHhcCcccCcceeecceeeeh
Confidence            478999999999999999999985554332       3567788887653 22223334455777664       46677


Q ss_pred             EEEEecCCHHH-HHHHH------HHHH------------------------HHhh---cCCceEEEEcccccchhcccCC
Q 047388          195 IIYARAYTYEH-QYNLL------LGLA------------------------AKMS---EEPFRLLIVDSVIALFRVDFTG  240 (352)
Q Consensus       195 i~~~~~~~~~~-~~~~l------~~l~------------------------~~l~---~~~~~lvvIDsl~~l~~~~~~~  240 (352)
                      |.+.++...++ ..+..      +++.                        -.+.   -..|.+|.+|+-++.+..    
T Consensus       632 Iryak~~AsneevyaAAkAA~IHdrIl~fPegY~t~VGERGLkLSGGEKQRVAiARtiLK~P~iIlLDEATSALDT----  707 (790)
T KOG0056|consen  632 IRYAKPSASNEEVYAAAKAAQIHDRILQFPEGYNTRVGERGLKLSGGEKQRVAIARTILKAPSIILLDEATSALDT----  707 (790)
T ss_pred             eeecCCCCChHHHHHHHHHhhHHHHHhcCchhhhhhhhhcccccCCcchhhHHHHHHHhcCCcEEEEcchhhhcCC----
Confidence            88877654332 21111      0110                        0000   126889999998877543    


Q ss_pred             CcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          241 RGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       241 ~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                         ..+|     .+-..|.++|. ...+||+.+.+++
T Consensus       708 ---~tER-----~IQaaL~rlca-~RTtIVvAHRLST  735 (790)
T KOG0056|consen  708 ---NTER-----AIQAALARLCA-NRTTIVVAHRLST  735 (790)
T ss_pred             ---ccHH-----HHHHHHHHHhc-CCceEEEeeeehh
Confidence               2455     44556778886 3455555544444

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=97.87  E-value=8.7e-05  Score=68.42  Aligned_cols=88  Identities=24%  Similarity=0.264  Sum_probs=53.8

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCC--hhhHHHHHHHcCCCcccccccEEEEecC
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFR--PDRIVPIAERFGMDPGAVLDNIIYARAY  201 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~--~~rl~~~~~~~~~~~~~~~~~i~~~~~~  201 (352)
                      +.+.++.|+||+|+||||++..++.......    .+.+|.+++++....  .+.+...++.++++.         ....
T Consensus       192 ~~~~vi~~vGptGvGKTTt~~kLa~~~~~~~----g~~~V~li~~D~~r~~a~eql~~~~~~~~~p~---------~~~~  258 (282)
T TIGR03499       192 EQGGVIALVGPTGVGKTTTLAKLAARFVLEH----GNKKVALITTDTYRIGAVEQLKTYAKILGVPV---------KVAR  258 (282)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHHc----CCCeEEEEECCccchhHHHHHHHHHHHhCCce---------eccC
Confidence            4678999999999999999999988765410    136899999874211  223344444444332         1223


Q ss_pred             CHHHHHHHHHHHHHHhhcCCceEEEEccc
Q 047388          202 TYEHQYNLLLGLAAKMSEEPFRLLIVDSV  230 (352)
Q Consensus       202 ~~~~~~~~l~~l~~~l~~~~~~lvvIDsl  230 (352)
                      +...+...+.    .+  .+.++|+||..
T Consensus       259 ~~~~l~~~l~----~~--~~~d~vliDt~  281 (282)
T TIGR03499       259 DPKELRKALD----RL--RDKDLILIDTA  281 (282)
T ss_pred             CHHHHHHHHH----Hc--cCCCEEEEeCC
Confidence            3333333222    22  24799999974

>PRK06921 hypothetical protein; Provisional

Probab=97.87  E-value=0.00013  Score=66.66  Aligned_cols=38  Identities=21%  Similarity=0.094  Sum_probs=31.8

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcCCCccCCC-CCeEEEEeCC
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGG-NGKVAYIDTE  169 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~-~~~vl~i~~e  169 (352)
                      +.-+.|+|++|+|||.|+..++..+..      . +..|+|++..
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l~~------~~g~~v~y~~~~  155 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANELMR------KKGVPVLYFPFV  155 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhh------hcCceEEEEEHH
Confidence            567899999999999999988877654      4 6789998863

>PRK11819 putative ABC transporter ATP-binding protein; Reviewed

Probab=97.87  E-value=0.0002  Score=72.54  Aligned_cols=27  Identities=22%  Similarity=0.352  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+.+|+++.|.|++|||||||+..++.
T Consensus       346 ~i~~Ge~~~l~G~NGsGKSTLl~~i~G  372 (556)
T PRK11819        346 SLPPGGIVGIIGPNGAGKSTLFKMITG  372 (556)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999999999997663

>TIGR01257 rim_protein retinal-specific rim ABC transporter

Probab=97.86  E-value=6.6e-05  Score=84.94  Aligned_cols=27  Identities=26%  Similarity=0.208  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      .+++|+++.|.|++|+|||||+..++.
T Consensus       952 ~I~~Gei~aLLG~NGAGKSTLLkiLaG  978 (2272)
T TIGR01257       952 TFYENQITAFLGHNGAGKTTTLSILTG  978 (2272)
T ss_pred             EEcCCcEEEEECCCCChHHHHHHHHhc
Confidence            588999999999999999999996554

This model describes the photoreceptor protein (rim protein) in eukaryotes. It is the member of ABC transporter superfamily. Rim protein is a membrane glycoprotein which is localized in the photoreceptor outer segment discs. Mutation/s in its genetic loci is implicated in the recessive Stargardt's disease.

>PRK12377 putative replication protein; Provisional

Probab=97.86  E-value=7.8e-05  Score=67.19  Aligned_cols=37  Identities=16%  Similarity=0.053  Sum_probs=31.0

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      .-+.|.|+||+|||.|+..++..+..      .+..|+|++..
T Consensus       102 ~~l~l~G~~GtGKThLa~AIa~~l~~------~g~~v~~i~~~  138 (248)
T PRK12377        102 TNFVFSGKPGTGKNHLAAAIGNRLLA------KGRSVIVVTVP  138 (248)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHH------cCCCeEEEEHH
Confidence            46899999999999999998877765      56778998775

>PRK10535 macrolide transporter ATP-binding /permease protein; Provisional

Probab=97.86  E-value=1.5e-05  Score=81.89  Aligned_cols=28  Identities=29%  Similarity=0.372  Sum_probs=24.6

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      =+++|+++.|.|++|+|||||+..++..
T Consensus        30 ~i~~Ge~~~l~G~nGsGKSTLl~~i~Gl   57 (648)
T PRK10535         30 DIYAGEMVAIVGASGSGKSTLMNILGCL   57 (648)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3789999999999999999999976644

>PRK07952 DNA replication protein DnaC; Validated

Probab=97.85  E-value=8.5e-05  Score=66.80  Aligned_cols=36  Identities=28%  Similarity=0.251  Sum_probs=30.5

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeC
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDT  168 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~  168 (352)
                      ..+.|.|+||+|||+|+..++..+..      .+.+|+|++.
T Consensus       100 ~~~~l~G~~GtGKThLa~aia~~l~~------~g~~v~~it~  135 (244)
T PRK07952        100 ASFIFSGKPGTGKNHLAAAICNELLL------RGKSVLIITV  135 (244)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHh------cCCeEEEEEH
Confidence            36899999999999999999887665      5678999864

>PRK08727 hypothetical protein; Validated

Probab=97.85  E-value=7.6e-05  Score=66.86  Aligned_cols=38  Identities=26%  Similarity=0.367  Sum_probs=30.8

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      ...+.|+|++|+|||.|+..++..+..      .+.+++|++.+
T Consensus        41 ~~~l~l~G~~G~GKThL~~a~~~~~~~------~~~~~~y~~~~   78 (233)
T PRK08727         41 SDWLYLSGPAGTGKTHLALALCAAAEQ------AGRSSAYLPLQ   78 (233)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHH------cCCcEEEEeHH
Confidence            356999999999999999988777654      46688998754

>cd03275 ABC_SMC1_euk Eukaryotic SMC1 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains

Probab=97.85  E-value=0.0011  Score=59.78  Aligned_cols=59  Identities=12%  Similarity=0.149  Sum_probs=40.7

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +++++++|++++.+..        ..+    ..+...|++++++ +.+||+++|-..                   +...
T Consensus       177 ~p~~lllDEPt~~LD~--------~~~----~~l~~~i~~~~~~-g~~vi~isH~~~-------------------~~~~  224 (247)
T cd03275         177 PAPFFVLDEVDAALDN--------TNV----GKVASYIREQAGP-NFQFIVISLKEE-------------------FFSK  224 (247)
T ss_pred             CCCEEEEecccccCCH--------HHH----HHHHHHHHHhccC-CcEEEEEECCHH-------------------HHhh
Confidence            5799999998877532        222    2566677777654 889999999532                   1245


Q ss_pred             cceEEEEEeec
Q 047388          301 VTIRLMFRKGK  311 (352)
Q Consensus       301 ~~~~i~L~~~~  311 (352)
                      +|..+.+.|..
T Consensus       225 ~d~i~~~~~~~  235 (247)
T cd03275         225 ADALVGVYRDQ  235 (247)
T ss_pred             CCeEEEEEecC
Confidence            78888888753

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 (for

>COG2087 CobU Adenosyl cobinamide kinase/adenosyl cobinamide phosphate guanylyltransferase [Coenzyme metabolism]

Probab=97.84  E-value=0.00043  Score=57.46  Aligned_cols=127  Identities=20%  Similarity=0.241  Sum_probs=71.5

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEec-CCHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARA-YTYEHQ  206 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~-~~~~~~  206 (352)
                      .+.|.|+.-||||.++-.++..         .++.++||.|-..|+.+--.++.....--+    +....... .+.   
T Consensus         2 ~ilvtGgaRSGKS~~AE~la~~---------~~~~v~YvAT~~a~D~Em~~RI~~Hr~rRp----~~W~tvE~~~~l---   65 (175)
T COG2087           2 MILVTGGARSGKSSFAEALAGE---------SGGQVLYVATGRAFDDEMQERIAHHRARRP----EHWRTVEAPLDL---   65 (175)
T ss_pred             eEEEecCccCCchHHHHHHHHh---------hCCceEEEEecCCCCHHHHHHHHHHHhcCC----CcceEEeccccH---
Confidence            5789999999999999988865         367899999998887653333333322222    12222211 111   


Q ss_pred             HHHHHHHHHHhhcC--CceEEEEcccccchhcccC-CCcchHHHHHHHHHHHH-HHHHHHHHhCcEEEEEcccccC
Q 047388          207 YNLLLGLAAKMSEE--PFRLLIVDSVIALFRVDFT-GRGELADRQQKLGQMLS-RLTKISEEFNVAVYMTNQVIAD  278 (352)
Q Consensus       207 ~~~l~~l~~~l~~~--~~~lvvIDsl~~l~~~~~~-~~g~~~~r~~~l~~i~~-~L~~la~~~~~~viv~~h~~~~  278 (352)
                      ..       .+...  +-++|+||+++.+....+- +..+... ...+..... .+..+....+..|+++|.+...
T Consensus        66 ~~-------~L~~~~~~~~~VLvDcLt~wvtNll~~~e~~~~~-~~~~~~~~~~L~~al~~~~~~~ilVsNEvG~G  133 (175)
T COG2087          66 AT-------LLEALIEPGDVVLVDCLTLWVTNLLFAGEKDWSA-EAAIEAEIEALLAALSRAPGTVVLVSNEVGLG  133 (175)
T ss_pred             HH-------HHHhcccCCCEEEEEcHHHHHHHHHhccccccch-hhhHHHHHHHHHHHHhcCCccEEEEecCccCC
Confidence            11       22222  3489999999988765332 1111111 111222333 3333444445677888887653

>PRK08181 transposase; Validated

Probab=97.84  E-value=9.3e-05  Score=67.54  Aligned_cols=40  Identities=25%  Similarity=0.307  Sum_probs=33.4

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeC
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDT  168 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~  168 (352)
                      +..+.-+.|+||||+|||.|+..++..+..      .+.+|+|++.
T Consensus       103 ~~~~~nlll~Gp~GtGKTHLa~Aia~~a~~------~g~~v~f~~~  142 (269)
T PRK08181        103 LAKGANLLLFGPPGGGKSHLAAAIGLALIE------NGWRVLFTRT  142 (269)
T ss_pred             HhcCceEEEEecCCCcHHHHHHHHHHHHHH------cCCceeeeeH
Confidence            446778999999999999999988877665      5678999875

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes

Probab=97.83  E-value=8.9e-05  Score=64.96  Aligned_cols=31  Identities=13%  Similarity=0.124  Sum_probs=25.7

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQL  152 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~  152 (352)
                      ....|+++.|.||+|+||||++..++..+.+
T Consensus        25 ~~~~~~~~~l~G~n~~GKstll~~i~~~~~l   55 (204)
T cd03282          25 TRGSSRFHIITGPNMSGKSTYLKQIALLAIM   55 (204)
T ss_pred             eeCCCcEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3457899999999999999999988765543

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>PF05625 PAXNEB: PAXNEB protein; InterPro: IPR008728 The RNA polymerase II elongator complex is a major histone acetyltransferase component of the RNA polymerase II (RNAPII) holoenzyme and is involved in transcriptional elongation [, ]

Probab=97.81  E-value=0.00024  Score=67.74  Aligned_cols=106  Identities=15%  Similarity=0.160  Sum_probs=61.8

Q ss_pred             HHHHHHHHHHHhhc------CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHH--HhCcEEEEEccccc
Q 047388          206 QYNLLLGLAAKMSE------EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISE--EFNVAVYMTNQVIA  277 (352)
Q Consensus       206 ~~~~l~~l~~~l~~------~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~--~~~~~viv~~h~~~  277 (352)
                      ...++.++.+.+..      ..+-.|+|-++....+....    ..+ ...+.+++..|+.|.+  ..+++++++-  ..
T Consensus       179 ~~~ll~~i~~~i~~~~~~~~~~v~RI~I~sl~SP~w~~~~----~~~-~~~ll~FL~~LR~LlR~~~s~~v~~iTl--P~  251 (363)
T PF05625_consen  179 YRSLLQQIQQIISKSGFSPPSKVLRIVIPSLGSPLWYPPS----ASQ-PSELLRFLHSLRALLRKYSSNAVAMITL--PS  251 (363)
T ss_dssp             HHHHHHHHHHHHHH----TTTSEEEEEETTTT-TTTS-GG----GGB-HHHHHHHHHHHHHHHHHTTTTEEEEEEE--EG
T ss_pred             HHHHHHHHHHHHHhhccCCCCceEEEEEcCCCCcccCCcc----ccc-HHHHHHHHHHHHHHHhccCCCEEEEEEE--CH
Confidence            34455555555543      36778899998876553221    111 1246799999999999  5555555553  22


Q ss_pred             CCCCCcccCCCCCCCcchhhhhccceEEEEEeecCC------------eEEEEEEeCCCC
Q 047388          278 DPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGE------------QRVCKVFDAPNL  325 (352)
Q Consensus       278 ~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~~------------~R~~~i~Ks~~~  325 (352)
                      ..    | .  ..+..-..|+|.+|++|.|+-..+.            .=.++|.|-|..
T Consensus       252 ~L----~-~--~~~~~~~~l~~l~D~vi~Le~F~~~~~~~~~~~~~~~~Gll~v~KLp~~  304 (363)
T PF05625_consen  252 HL----Y-P--RSPSLVRRLEHLADGVIELESFAGSMEKETNPPFKDYHGLLHVHKLPRL  304 (363)
T ss_dssp             TT----S------HHHHHHHHHHSSEEEEEEE--HHHHHTTT-GGG---EEEEEEE-TTH
T ss_pred             HH----h-c--cChHHHHHHHHhCCEEEEeecCCCccccccCCcCcCCcEEEEEEEeccc
Confidence            11    1 0  0145567899999999999853221            246788886654

It may also play some role in wobble uridine tRNA modification []. This entry represents the ELP4 subunit. ELP4 is not required for the association of the complex with nascent RNA transcript, but is required for complex integrity and histone acetyltransferase activity. It is also required for an early step in synthesis of 5-methoxycarbonylmethyl (mcm5) and 5-carbamoylmethyl (ncm5) groups present on uridines at the wobble position in tRNA in yeast species.; GO: 0006357 regulation of transcription from RNA polymerase II promoter, 0033588 Elongator holoenzyme complex; PDB: 4EJS_A 4A8J_A.

>PF02283 CobU: Cobinamide kinase / cobinamide phosphate guanyltransferase; InterPro: IPR003203 This family is composed of a group of bifunctional cobalbumin biosynthesis enzymes which display cobinamide kinase and cobinamide phosphate guanyltransferase activity

Probab=97.81  E-value=6.7e-05  Score=63.49  Aligned_cols=122  Identities=23%  Similarity=0.240  Sum_probs=62.7

Q ss_pred             EEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCCh---hhHHHHHHHcCCCcccccccEEEEecCCHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRP---DRIVPIAERFGMDPGAVLDNIIYARAYTYEH  205 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~---~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~~  205 (352)
                      |.|.|...||||.|+.+++..         .+.+++|+.|-..++.   +|+...-++.+.       ++..+....   
T Consensus         1 ilv~GG~rSGKS~~Ae~la~~---------~~~~~~YiAT~~~~D~em~~RI~~H~~~R~~-------~w~tiE~~~---   61 (167)
T PF02283_consen    1 ILVTGGARSGKSSFAERLALS---------FGGPVTYIATARPFDEEMRERIARHRQRRPK-------GWITIEEPR---   61 (167)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS-----------SCEEEEESSHHHHHHHHHHHHHHHHHSST-------CEEEEE-SS---
T ss_pred             CEEeCCCCcchHHHHHHHHHh---------cCCCcEEEeCCCCCCHHHHHHHHHHHHhCCC-------CcEEEecch---
Confidence            579999999999999998832         3578999999766543   233333333322       233322211   


Q ss_pred             HHHHHHHHHHHhhcC-CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          206 QYNLLLGLAAKMSEE-PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       206 ~~~~l~~l~~~l~~~-~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                            .+...+... ..+.|+||+++.+....+......  ......++.+.+..+.+...-.|||+|.+..
T Consensus        62 ------~l~~~~~~~~~~~~vLlDclt~wl~n~l~~~~~~--~~~~~~~i~~~l~~l~~~~~~lViVsnEVG~  126 (167)
T PF02283_consen   62 ------DLAEALEELSPGDVVLLDCLTLWLANLLFAEEDD--EEDILEEIERLLEALRERNADLVIVSNEVGW  126 (167)
T ss_dssp             -------GGGTS-TTS-T-EEEEE-HHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHH--SEEEEEEE---S
T ss_pred             ------hHHHHHHHhccCCeEEEeCHHHHHHHHHHhccCc--HHHHHHHHHHHHHHHHccCCCEEEEEcCCCC
Confidence                  111222222 248999999999876543210000  1223345555555554544556667777765

The crystal structure of the enzyme reveals the molecule to be a trimer with a propeller-like shape [].; GO: 0000166 nucleotide binding, 0043752 adenosylcobinamide kinase activity, 0051188 cofactor biosynthetic process; PDB: 1CBU_C 1C9K_B.

>COG1119 ModF ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]

Probab=97.81  E-value=0.00038  Score=61.56  Aligned_cols=26  Identities=27%  Similarity=0.303  Sum_probs=23.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la  147 (352)
                      -+.+|+-..|.|++|+|||||+.-++
T Consensus        53 ~V~~ge~W~I~G~NGsGKTTLL~ll~   78 (257)
T COG1119          53 QVNPGEHWAIVGPNGAGKTTLLSLLT   78 (257)
T ss_pred             eecCCCcEEEECCCCCCHHHHHHHHh
Confidence            47899999999999999999998544

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

Probab=97.81  E-value=0.00011  Score=62.91  Aligned_cols=40  Identities=25%  Similarity=0.262  Sum_probs=30.6

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      ..+.-+.|.|++|+|||.|+..++..+..      .+.+|+|++..
T Consensus        45 ~~~~~l~l~G~~G~GKThLa~ai~~~~~~------~g~~v~f~~~~   84 (178)
T PF01695_consen   45 ENGENLILYGPPGTGKTHLAVAIANEAIR------KGYSVLFITAS   84 (178)
T ss_dssp             SC--EEEEEESTTSSHHHHHHHHHHHHHH------TT--EEEEEHH
T ss_pred             ccCeEEEEEhhHhHHHHHHHHHHHHHhcc------CCcceeEeecC
Confidence            45667999999999999999999887776      67889998764

They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.

>COG1101 PhnK ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=97.80  E-value=0.00013  Score=63.14  Aligned_cols=42  Identities=19%  Similarity=0.233  Sum_probs=33.3

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      -++.|+++.|.|.+|+|||||+..++.....       .++-++|+..+
T Consensus        28 ~I~~g~FvtViGsNGAGKSTlln~iaG~l~~-------t~G~I~Idg~d   69 (263)
T COG1101          28 EIAEGDFVTVIGSNGAGKSTLLNAIAGDLKP-------TSGQILIDGVD   69 (263)
T ss_pred             eecCCceEEEEcCCCccHHHHHHHhhCcccc-------CCceEEECcee
Confidence            5889999999999999999999988766554       34456676654

>TIGR00955 3a01204 The Eye Pigment Precursor Transporter (EPP) Family protein

Probab=97.80  E-value=0.00017  Score=73.80  Aligned_cols=34  Identities=26%  Similarity=0.443  Sum_probs=28.4

Q ss_pred             hHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          115 LDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       115 LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      |+. +.+-+++|+++.|.||+|+|||||+..++..
T Consensus        41 L~~-vs~~i~~Ge~~aI~G~sGsGKSTLL~~L~g~   74 (617)
T TIGR00955        41 LKN-VSGVAKPGELLAVMGSSGAGKTTLMNALAFR   74 (617)
T ss_pred             ccC-CEEEEeCCeEEEEECCCCCCHHHHHHHHhCC
Confidence            444 3478999999999999999999999977643

>PRK06793 fliI flagellum-specific ATP synthase; Validated

Probab=97.80  E-value=9.2e-05  Score=71.61  Aligned_cols=116  Identities=19%  Similarity=0.166  Sum_probs=68.4

Q ss_pred             cccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhH-HHHHHHc
Q 047388          106 IKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRI-VPIAERF  184 (352)
Q Consensus       106 ~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl-~~~~~~~  184 (352)
                      ..+.||+..+|.++  -+.+|+.+.|+|++|+|||+|+..++.+...       ...++.+..+...+..++ ...+...
T Consensus       138 ~~l~TGiraID~ll--~I~~Gqri~I~G~sG~GKTtLl~~Ia~~~~~-------~~gvI~~iGerg~ev~e~~~~~l~~~  208 (432)
T PRK06793        138 DVFETGIKSIDSML--TIGIGQKIGIFAGSGVGKSTLLGMIAKNAKA-------DINVISLVGERGREVKDFIRKELGEE  208 (432)
T ss_pred             hccCCCCEEEeccc--eecCCcEEEEECCCCCChHHHHHHHhccCCC-------CeEEEEeCCCCcccHHHHHHHHhhhc
Confidence            46889999999976  6789999999999999999999888765432       334555555554333222 2223222


Q ss_pred             CCCcccccccEEEEecCCHHHHHHH-----HHHHH-HHhhcCCceEEEEcccccchh
Q 047388          185 GMDPGAVLDNIIYARAYTYEHQYNL-----LLGLA-AKMSEEPFRLLIVDSVIALFR  235 (352)
Q Consensus       185 ~~~~~~~~~~i~~~~~~~~~~~~~~-----l~~l~-~~l~~~~~~lvvIDsl~~l~~  235 (352)
                      ++.     ..+.+....+.......     -..+. .+..+.+.-++++|+++.+..
T Consensus       209 gl~-----~tvvv~~tsd~s~~~r~ra~~~a~~iAEyfr~~G~~VLlilDslTr~a~  260 (432)
T PRK06793        209 GMR-----KSVVVVATSDESHLMQLRAAKLATSIAEYFRDQGNNVLLMMDSVTRFAD  260 (432)
T ss_pred             ccc-----eeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEecchHHHHH
Confidence            321     12333332222111111     11222 233344778889999998754

>PRK08084 DNA replication initiation factor; Provisional

Probab=97.80  E-value=0.00013  Score=65.48  Aligned_cols=38  Identities=16%  Similarity=0.316  Sum_probs=30.9

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      +..+.|+||+|+|||+|+..++.....      .+.++.|++.+
T Consensus        45 ~~~l~l~Gp~G~GKThLl~a~~~~~~~------~~~~v~y~~~~   82 (235)
T PRK08084         45 SGYIYLWSREGAGRSHLLHAACAELSQ------RGRAVGYVPLD   82 (235)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHh------CCCeEEEEEHH
Confidence            457899999999999999988776554      46788898765

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.79  E-value=0.00043  Score=65.89  Aligned_cols=90  Identities=13%  Similarity=0.083  Sum_probs=56.3

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCC---hhhHHHHHHHcCCCcccccccEEEEecCC
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFR---PDRIVPIAERFGMDPGAVLDNIIYARAYT  202 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~---~~rl~~~~~~~~~~~~~~~~~i~~~~~~~  202 (352)
                      ..++.|+|++|+||||++..+|.....      .+.+|.+++++. +.   .+.++..++..++         .+....+
T Consensus       241 ~~vI~LVGptGvGKTTTiaKLA~~L~~------~GkkVglI~aDt-~RiaAvEQLk~yae~lgi---------pv~v~~d  304 (436)
T PRK11889        241 VQTIALIGPTGVGKTTTLAKMAWQFHG------KKKTVGFITTDH-SRIGTVQQLQDYVKTIGF---------EVIAVRD  304 (436)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHHH------cCCcEEEEecCC-cchHHHHHHHHHhhhcCC---------cEEecCC
Confidence            468999999999999999999887654      567899998864 22   2233333333332         2232334


Q ss_pred             HHHHHHHHHHHHHHhhcCCceEEEEcccccch
Q 047388          203 YEHQYNLLLGLAAKMSEEPFRLLIVDSVIALF  234 (352)
Q Consensus       203 ~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~  234 (352)
                      ...+.+.+..   .-...+.++|+||......
T Consensus       305 ~~~L~~aL~~---lk~~~~~DvVLIDTaGRs~  333 (436)
T PRK11889        305 EAAMTRALTY---FKEEARVDYILIDTAGKNY  333 (436)
T ss_pred             HHHHHHHHHH---HHhccCCCEEEEeCccccC
Confidence            4444333332   2112368999999877653

>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]

Probab=97.79  E-value=0.00016  Score=64.00  Aligned_cols=120  Identities=22%  Similarity=0.326  Sum_probs=75.4

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAY  201 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~  201 (352)
                      |+.+-.=++++||||||||.|+...|.+.           ..-||-.-++   +-+.   +-+|-.|             
T Consensus       185 gidpprgvllygppg~gktml~kava~~t-----------~a~firvvgs---efvq---kylgegp-------------  234 (408)
T KOG0727|consen  185 GIDPPRGVLLYGPPGTGKTMLAKAVANHT-----------TAAFIRVVGS---EFVQ---KYLGEGP-------------  234 (408)
T ss_pred             CCCCCcceEEeCCCCCcHHHHHHHHhhcc-----------chheeeeccH---HHHH---HHhccCc-------------
Confidence            67777778999999999999999766432           2334433322   1111   1123222             


Q ss_pred             CHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCC-cchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          202 TYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGR-GELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       202 ~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~-g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                            .+...+.+...+..|.+++||.+.++....+... |.-.+-|+.+.++++.+..+-...|+-||+.+.-..
T Consensus       235 ------rmvrdvfrlakenapsiifideidaiatkrfdaqtgadrevqril~ellnqmdgfdq~~nvkvimatnrad  305 (408)
T KOG0727|consen  235 ------RMVRDVFRLAKENAPSIIFIDEIDAIATKRFDAQTGADREVQRILIELLNQMDGFDQTTNVKVIMATNRAD  305 (408)
T ss_pred             ------HHHHHHHHHHhccCCcEEEeehhhhHhhhhccccccccHHHHHHHHHHHHhccCcCcccceEEEEecCccc
Confidence                  1223344455566899999999988876555422 333455666777888887777778888888765433

>cd03279 ABC_sbcCD SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends

Probab=97.79  E-value=7.7e-05  Score=65.83  Aligned_cols=24  Identities=13%  Similarity=0.286  Sum_probs=21.3

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHH
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la  147 (352)
                      ..|+++.|.|++|+|||||+..++
T Consensus        26 ~~~~~~~i~G~NGsGKSTll~~i~   49 (213)
T cd03279          26 DNNGLFLICGPTGAGKSTILDAIT   49 (213)
T ss_pred             CccCEEEEECCCCCCHHHHHHHhe
Confidence            448899999999999999998765

They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini.

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

Probab=97.79  E-value=0.00018  Score=65.38  Aligned_cols=122  Identities=17%  Similarity=0.174  Sum_probs=71.4

Q ss_pred             hcccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHH
Q 047388          103 KAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAE  182 (352)
Q Consensus       103 ~~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~  182 (352)
                      ...+.+.||+..+|-++  -+-+|+-..|+|++|+|||+|+.+++.+....     ....++|...-..  .+.+.++.+
T Consensus        48 ~~~e~L~TGIr~ID~l~--pig~GQr~~If~~~G~GKTtLa~~i~~~i~~~-----~~~~~V~~~iGer--~~Ev~e~~~  118 (274)
T cd01133          48 TKTEILETGIKVIDLLA--PYAKGGKIGLFGGAGVGKTVLIMELINNIAKA-----HGGYSVFAGVGER--TREGNDLYH  118 (274)
T ss_pred             CcCcccccCceeeeccC--CcccCCEEEEecCCCCChhHHHHHHHHHHHhc-----CCCEEEEEEeccC--cHHHHHHHH
Confidence            34467999999999877  57799999999999999999999998887642     2344555543322  233444444


Q ss_pred             HcCCCccccccc-EEEEecCCH--HHHHHH---HHHHHHHhhcC-Cce-EEEEcccccchh
Q 047388          183 RFGMDPGAVLDN-IIYARAYTY--EHQYNL---LLGLAAKMSEE-PFR-LLIVDSVIALFR  235 (352)
Q Consensus       183 ~~~~~~~~~~~~-i~~~~~~~~--~~~~~~---l~~l~~~l~~~-~~~-lvvIDsl~~l~~  235 (352)
                      .+.  ....+++ +.+....+.  ......   -..+.+.+... +-+ ++++||++.+..
T Consensus       119 ~~~--~~~~~~~tvvv~~t~d~~~~~r~~~~~~a~~~AEyfr~~~g~~Vl~~~Dsltr~a~  177 (274)
T cd01133         119 EMK--ESGVLSKTALVYGQMNEPPGARARVALTGLTMAEYFRDEEGQDVLLFIDNIFRFTQ  177 (274)
T ss_pred             HHH--hcCCcceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEeChhHHHH
Confidence            331  1123344 333322221  111111   11233344332 444 567799998754

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.

>PRK09099 type III secretion system ATPase; Provisional

Probab=97.78  E-value=0.00012  Score=71.13  Aligned_cols=59  Identities=22%  Similarity=0.231  Sum_probs=45.7

Q ss_pred             cccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC
Q 047388          104 AVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT  171 (352)
Q Consensus       104 ~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~  171 (352)
                      ..+.+.||+..+|.++  -+.+|+.+.|+|++|+|||+|+.+++.....       ...++.+..|..
T Consensus       143 i~e~l~TGi~~ID~l~--~i~~Gq~~~I~G~sG~GKTtLl~~ia~~~~~-------d~~vi~~iGer~  201 (441)
T PRK09099        143 VEAPLPTGVRIVDGLM--TLGEGQRMGIFAPAGVGKSTLMGMFARGTQC-------DVNVIALIGERG  201 (441)
T ss_pred             cccccCCCceecccee--eecCCCEEEEECCCCCCHHHHHHHHhCCCCC-------CeEEEEEEccCh
Confidence            3467999999999986  5779999999999999999999988765432       234555556554

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

Probab=97.78  E-value=7.3e-05  Score=73.54  Aligned_cols=119  Identities=17%  Similarity=0.223  Sum_probs=71.2

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEec
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARA  200 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~  200 (352)
                      -|+.|-.=++|.||||||||.|+..+|.....|           |+.-..   ++    +.  -|+.-            
T Consensus       218 lGv~PprGvLlHGPPGCGKT~lA~AiAgel~vP-----------f~~isA---pe----iv--SGvSG------------  265 (802)
T KOG0733|consen  218 LGVRPPRGVLLHGPPGCGKTSLANAIAGELGVP-----------FLSISA---PE----IV--SGVSG------------  265 (802)
T ss_pred             cCCCCCCceeeeCCCCccHHHHHHHHhhhcCCc-----------eEeecc---hh----hh--cccCc------------
Confidence            377777778999999999999999888664442           333221   11    00  01111            


Q ss_pred             CCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHH--hCcEEEEEccccc
Q 047388          201 YTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEE--FNVAVYMTNQVIA  277 (352)
Q Consensus       201 ~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~--~~~~viv~~h~~~  277 (352)
                      -+...+.+    +........|.+|+||.|.++-+..-....+|..  +.+.+++..|-.+..+  .|..|+++.-+++
T Consensus       266 ESEkkiRe----lF~~A~~~aPcivFiDeIDAI~pkRe~aqreMEr--RiVaQLlt~mD~l~~~~~~g~~VlVIgATnR  338 (802)
T KOG0733|consen  266 ESEKKIRE----LFDQAKSNAPCIVFIDEIDAITPKREEAQREMER--RIVAQLLTSMDELSNEKTKGDPVLVIGATNR  338 (802)
T ss_pred             ccHHHHHH----HHHHHhccCCeEEEeecccccccchhhHHHHHHH--HHHHHHHHhhhcccccccCCCCeEEEecCCC
Confidence            11122223    3333445679999999999996643222223333  3456777777766544  3677888877665

>cd03240 ABC_Rad50 The catalytic domains of Rad50 are similar to the ATP-binding cassette of ABC transporters, but are not associated with membrane-spanning domains

Probab=97.77  E-value=0.00013  Score=64.07  Aligned_cols=45  Identities=7%  Similarity=0.084  Sum_probs=31.9

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHH-HHHHHHHHHHHHhCcEEEEEcccc
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLG-QMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~-~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                      .+++++++|++...+..        ..    .. .+.+.|++++++.+.+||+++|..
T Consensus       138 ~~p~illlDEP~~~LD~--------~~----~~~~l~~~l~~~~~~~~~~iiiitH~~  183 (204)
T cd03240         138 SNCGILALDEPTTNLDE--------EN----IEESLAEIIEERKSQKNFQLIVITHDE  183 (204)
T ss_pred             cCCCEEEEcCCccccCH--------HH----HHHHHHHHHHHHHhccCCEEEEEEecH
Confidence            37899999998876432        11    13 566667777766688999999964

The conserved ATP-binding motifs common to Rad50 and the ABC transporter family include the Walker A and Walker B motifs, the Q loop, a histidine residue in the switch region, a D-loop, and a conserved LSGG sequence. This conserved sequence, LSGG, is the most specific and characteristic motif of this family and is thus known as the ABC signature sequence.

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=97.77  E-value=3.6e-05  Score=66.41  Aligned_cols=25  Identities=12%  Similarity=0.151  Sum_probs=21.1

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcC
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQL  152 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~  152 (352)
                      ++.|+|++|+|||||+.+++....+
T Consensus         1 ~~~ltG~N~~GKst~l~~i~~~~~l   25 (185)
T smart00534        1 VVIITGPNMGGKSTYLRQVGLIVIM   25 (185)
T ss_pred             CEEEECCCCCcHHHHHHHHHHHHHH
Confidence            3679999999999999999866543

>cd03285 ABC_MSH2_euk MutS2 homolog in eukaryotes

Probab=97.76  E-value=3.2e-05  Score=68.71  Aligned_cols=29  Identities=14%  Similarity=0.060  Sum_probs=25.0

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHhc
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCTQ  151 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~~  151 (352)
                      .+.++++.|+||+|+|||+++.+++....
T Consensus        27 ~~~~~~~~l~G~n~~GKstll~~i~~~~~   55 (222)
T cd03285          27 RGKSRFLIITGPNMGGKSTYIRQIGVIVL   55 (222)
T ss_pred             ecCCeEEEEECCCCCChHHHHHHHHHHHH
Confidence            45789999999999999999998886644

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>PRK06526 transposase; Provisional

Probab=97.76  E-value=0.00015  Score=65.78  Aligned_cols=40  Identities=20%  Similarity=0.202  Sum_probs=32.1

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeC
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDT  168 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~  168 (352)
                      +..+.-+.|+||||+|||+|+..++..++.      .+.+|+|++.
T Consensus        95 i~~~~nlll~Gp~GtGKThLa~al~~~a~~------~g~~v~f~t~  134 (254)
T PRK06526         95 VTGKENVVFLGPPGTGKTHLAIGLGIRACQ------AGHRVLFATA  134 (254)
T ss_pred             hhcCceEEEEeCCCCchHHHHHHHHHHHHH------CCCchhhhhH
Confidence            456778999999999999999998877665      5667777543

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=97.76  E-value=0.00019  Score=65.11  Aligned_cols=121  Identities=14%  Similarity=0.177  Sum_probs=68.6

Q ss_pred             hcccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHH
Q 047388          103 KAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAE  182 (352)
Q Consensus       103 ~~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~  182 (352)
                      ...+.+.||+..+|-++  -+-+|+-..|+|++|+|||+|+++...+...      .+..++|...-..  .+.+.++.+
T Consensus        48 ~i~e~L~TGI~~ID~l~--pigrGQr~~Ifg~~g~GKt~L~l~~i~~~~~------~~v~~V~~~iGer--~~ev~e~~~  117 (274)
T cd01132          48 SVNEPLQTGIKAIDAMI--PIGRGQRELIIGDRQTGKTAIAIDTIINQKG------KKVYCIYVAIGQK--ASTVAQVVK  117 (274)
T ss_pred             CcccccccCCEEeeccC--CcccCCEEEeeCCCCCCccHHHHHHHHHhcC------CCeEEEEEecccc--hHHHHHHHH
Confidence            34567999999999877  5779999999999999999997654444322      3445567654332  233444444


Q ss_pred             HcCCCccccccc-EEEEecCCHHHHHHH-----HHHHHHHhhcCCc-eEEEEcccccchh
Q 047388          183 RFGMDPGAVLDN-IIYARAYTYEHQYNL-----LLGLAAKMSEEPF-RLLIVDSVIALFR  235 (352)
Q Consensus       183 ~~~~~~~~~~~~-i~~~~~~~~~~~~~~-----l~~l~~~l~~~~~-~lvvIDsl~~l~~  235 (352)
                      .+.-  ...+++ +.+....+..-....     -..+.+.+...+- =+|++||++.+..
T Consensus       118 ~~~~--~~~~~~tvvv~~t~d~~~~~r~~a~~~a~aiAE~fr~~G~~Vlvl~DslTr~A~  175 (274)
T cd01132         118 TLEE--HGAMEYTIVVAATASDPAPLQYLAPYTGCAMGEYFMDNGKHALIIYDDLSKQAV  175 (274)
T ss_pred             HHHh--cCccceeEEEEeCCCCchhHHHHHHHHHHHHHHHHHHCCCCEEEEEcChHHHHH
Confidence            3311  112234 333322221111111     1123334444433 4667899998743

The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The alpha subunit of the F1 ATP synthase can bind nucleotides, but is non-catalytic.

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.75  E-value=0.00014  Score=76.07  Aligned_cols=116  Identities=19%  Similarity=0.209  Sum_probs=64.3

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEec
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARA  200 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~  200 (352)
                      -|++++.-+.|+||||+|||+|+..++...         +...++++...-         ...+            +   
T Consensus       207 ~gi~~~~giLL~GppGtGKT~laraia~~~---------~~~~i~i~~~~i---------~~~~------------~---  253 (733)
T TIGR01243       207 LGIEPPKGVLLYGPPGTGKTLLAKAVANEA---------GAYFISINGPEI---------MSKY------------Y---  253 (733)
T ss_pred             cCCCCCceEEEECCCCCChHHHHHHHHHHh---------CCeEEEEecHHH---------hccc------------c---
Confidence            378888999999999999999999887643         334555553211         0000            0   


Q ss_pred             CCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcc
Q 047388          201 YTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQ  274 (352)
Q Consensus       201 ~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h  274 (352)
                         ......+..+.+......+.+|+||++..+....-...+++..+  .+..++..|..+....++.||.+++
T Consensus       254 ---g~~~~~l~~lf~~a~~~~p~il~iDEid~l~~~r~~~~~~~~~~--~~~~Ll~~ld~l~~~~~vivI~atn  322 (733)
T TIGR01243       254 ---GESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKR--VVAQLLTLMDGLKGRGRVIVIGATN  322 (733)
T ss_pred             ---cHHHHHHHHHHHHHHhcCCcEEEeehhhhhcccccCCcchHHHH--HHHHHHHHhhccccCCCEEEEeecC
Confidence               00011122222233345678999999988865422222233322  2345656565554444555554444

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.

>COG4674 Uncharacterized ABC-type transport system, ATPase component [General function prediction only]

Probab=97.75  E-value=9.8e-05  Score=63.02  Aligned_cols=50  Identities=26%  Similarity=0.368  Sum_probs=34.5

Q ss_pred             CChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEe
Q 047388          111 GSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYID  167 (352)
Q Consensus       111 G~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~  167 (352)
                      |+..|+++- =-+.+|++-.|.||+|+|||||+-.+......      ..++|+|-+
T Consensus        17 GF~Aln~ls-~~v~~Gelr~lIGpNGAGKTT~mD~ItGKtrp------~~G~v~f~g   66 (249)
T COG4674          17 GFKALNDLS-FSVDPGELRVLIGPNGAGKTTLMDVITGKTRP------QEGEVLFDG   66 (249)
T ss_pred             ceeeeeeeE-EEecCCeEEEEECCCCCCceeeeeeecccCCC------CcceEEEcC
Confidence            445555532 35789999999999999999999866544332      345555544

>PRK13768 GTPase; Provisional

Probab=97.75  E-value=0.00029  Score=63.90  Aligned_cols=39  Identities=26%  Similarity=0.221  Sum_probs=32.4

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT  171 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~  171 (352)
                      .++.+.|++|+||||++.+++.....      .+.+|+.++.+..
T Consensus         3 ~~i~v~G~~G~GKTt~~~~~~~~l~~------~g~~v~~i~~D~~   41 (253)
T PRK13768          3 YIVFFLGTAGSGKTTLTKALSDWLEE------QGYDVAIVNLDPA   41 (253)
T ss_pred             EEEEEECCCCccHHHHHHHHHHHHHh------cCCceEEEECCCc
Confidence            47899999999999999999887765      5778999887643

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=97.75  E-value=0.00013  Score=70.44  Aligned_cols=28  Identities=32%  Similarity=0.326  Sum_probs=23.5

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      |+++-.-++|+||||+|||+++..++..
T Consensus       161 g~~~p~gvLL~GppGtGKT~lAkaia~~  188 (389)
T PRK03992        161 GIEPPKGVLLYGPPGTGKTLLAKAVAHE  188 (389)
T ss_pred             CCCCCCceEEECCCCCChHHHHHHHHHH
Confidence            5656666899999999999999988765

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

Probab=97.75  E-value=0.00023  Score=70.14  Aligned_cols=116  Identities=16%  Similarity=0.194  Sum_probs=73.0

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAY  201 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~  201 (352)
                      |+..-.=++++||||||||.|+...|.           ..+.=||+-.++   +-+.+                ++    
T Consensus       541 Gi~~PsGvLL~GPPGCGKTLlAKAVAN-----------Eag~NFisVKGP---ELlNk----------------YV----  586 (802)
T KOG0733|consen  541 GIDAPSGVLLCGPPGCGKTLLAKAVAN-----------EAGANFISVKGP---ELLNK----------------YV----  586 (802)
T ss_pred             CCCCCCceEEeCCCCccHHHHHHHHhh-----------hccCceEeecCH---HHHHH----------------Hh----
Confidence            555555589999999999999996653           233446666653   32211                11    


Q ss_pred             CHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccc
Q 047388          202 TYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQV  275 (352)
Q Consensus       202 ~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~  275 (352)
                        .+-...+.++.+..+...|.+|++|.+.++.+..-.+..+.+.  +.+.+++..|-.+-.+.|+.||..+.-
T Consensus       587 --GESErAVR~vFqRAR~saPCVIFFDEiDaL~p~R~~~~s~~s~--RvvNqLLtElDGl~~R~gV~viaATNR  656 (802)
T KOG0733|consen  587 --GESERAVRQVFQRARASAPCVIFFDEIDALVPRRSDEGSSVSS--RVVNQLLTELDGLEERRGVYVIAATNR  656 (802)
T ss_pred             --hhHHHHHHHHHHHhhcCCCeEEEecchhhcCcccCCCCchhHH--HHHHHHHHHhcccccccceEEEeecCC
Confidence              1112223333334444579999999999998753322222333  457789999999988888888876543

>TIGR02546 III_secr_ATP type III secretion apparatus H+-transporting two-sector ATPase

Probab=97.74  E-value=0.00026  Score=68.81  Aligned_cols=44  Identities=25%  Similarity=0.274  Sum_probs=38.1

Q ss_pred             cccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          104 AVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       104 ~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -.+.+.||+..+|.++  -+.+|+.+.|+|++|+|||+|+..++..
T Consensus       125 i~~~l~tG~~~id~l~--~i~~Gq~~~I~G~sG~GKStLl~~I~~~  168 (422)
T TIGR02546       125 IDQPLPTGVRAIDGLL--TCGEGQRIGIFAGAGVGKSTLLGMIARG  168 (422)
T ss_pred             cccccCCCceeehhhc--cccCCCEEEEECCCCCChHHHHHHHhCC
Confidence            3457999999999986  6789999999999999999998877654

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	352
1v5w_A	343	Crystal Structure Of The Human Dmc1 Protein Length		1e-109
2zjb_A	343	Crystal Structure Of The Human Dmc1-M200v Polymorph		1e-109
3lda_A	400	Yeast Rad51 H352y Filament Interface Mutant Length		4e-86
1szp_A	321	A Crystal Structure Of The Rad51 Filament Length =		8e-86
1pzn_A	349	Rad51 (Rada) Length = 349		7e-74
1n0w_A	243	Crystal Structure Of A Rad51-Brca2 Brc Repeat Compl		5e-72
2dfl_A	324	Crystal Structure Of Left-Handed Rada Filament Leng		8e-62
4b2i_A	231	Humanised Monomeric Rada In Complex With Indazole L		8e-61
2bke_A	324	Conformational Flexibility Revealed By The Crystal		2e-60
4a6p_A	231	Rada C-Terminal Atpase Domain From Pyrococcus Furio		9e-60
1t4g_A	322	Atpase In Complex With Amp-pnp Length = 322		2e-59
2f1h_A	322	Recombinase In Complex With Amp-pnp And Potassium L		7e-59
3ntu_A	319	Rada Recombinase D302k Mutant In Complex With Amp-P		2e-58
3etl_A	322	Rada Recombinase From Methanococcus Maripaludis In		5e-55
4dc9_A	266	Hexameric Ring Of Methanococcus Voltae Rada Length		1e-54
2gdj_A	264	Delta-62 Rada Recombinase In Complex With Amp-Pnp A		2e-54
2cvf_A	220	Crystal Structure Of The Radb Recombinase Length =		2e-20
1b22_A	114	Rad51 (N-Terminal Domain) Length = 114		5e-18
3cmt_A	1706	Mechanism Of Homologous Recombination From The Reca		2e-08
3cmv_A	1357	Mechanism Of Homologous Recombination From The Reca		3e-08
1n03_A	352	Model For Active Reca Filament Length = 352		3e-08
2rec_A	353	Reca Hexamer Model, Electron Microscopy Length = 35		3e-08
3cmu_A	2050	Mechanism Of Homologous Recombination From The Reca		3e-08
1u94_A	356	Crystal Structure Of E. Coli Reca In A Compressed H		3e-08
1g18_A	350	Reca-Adp-Alf4 Complex Length = 350		6e-08
1ubc_A	349	Structure Of Reca Protein Length = 349		5e-07
2zrc_A	349	Msreca Q196n Form Iv Length = 349		6e-07
2zr0_A	349	Msreca-Q196e Mutant Length = 349		1e-06
3hr8_A	356	Crystal Structure Of Thermotoga Maritima Reca Lengt		2e-06
2zrh_A	349	Msreca Q196a Form Iv Length = 349		3e-06
1xp8_A	366	"deinococcus Radiodurans Reca In Complex With Atp-G		8e-05

>pdb|1V5W|A Chain A, Crystal Structure Of The Human Dmc1 Protein Length = 343

Iteration: 1
 Score =  390 bits (1001), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 198/334 (59%), Positives = 246/334 (73%), Gaps = 11/334 (3%)
Query: 22  DDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKIC 81
           D+EE LF+ ID L   GIN  D+KKL+  GI T  G+ M T++ L  +KGLSEAKV+KI 
Sbjct: 18  DEEESLFQDIDLLQKHGINVADIKKLKSVGICTIKGIQMTTRRALCNVKGLSEAKVDKIK 77
Query: 82  EAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQ 141
           EAA K++  G++T  +   +RK V  ITTGSQ  D+LLGGGIE+ AITEAFGEFR+GKTQ
Sbjct: 78  EAANKLIEPGFLTAFEYSEKRKMVFHITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQ 137
Query: 142 LAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAY 201
           L+HTLCV  QLP       GK+ +IDTE TFRPDR+  IA+RF +D  AVLDN++YARAY
Sbjct: 138 LSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRDIADRFNVDHDAVLDNVLYARAY 197
Query: 202 TYEHQYNLLLGLAAKMSEEP--FRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLT 259
           T EHQ  LL  +AAK  EE   F+LLI+DS++ALFRVDF+GRGELA+RQQKL QMLSRL 
Sbjct: 198 TSEHQMELLDYVAAKFHEEAGIFKLLIIDSIMALFRVDFSGRGELAERQQKLAQMLSRLQ 257
Query: 260 KISEEFNVAVYMTNQVIADPGGGV-FISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCK 318
           KISEE+NVAV++TNQ+ ADPG  + F +DPKKP GGH+LAHA T R+  RKG+GE R+ K
Sbjct: 258 KISEEYNVAVFVTNQMTADPGATMTFQADPKKPIGGHILAHASTTRISLRKGRGELRIAK 317
Query: 319 VFDAPNLPEAEAISFSYHIILIKITPGGIADAKD 352
           ++D+P +PE EA           IT GGI DAK+
Sbjct: 318 IYDSPEMPENEAT--------FAITAGGIGDAKE 343

>pdb|2ZJB|A Chain A, Crystal Structure Of The Human Dmc1-M200v Polymorphic Variant Length = 343

Iteration: 1
 Score =  390 bits (1001), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 198/334 (59%), Positives = 246/334 (73%), Gaps = 11/334 (3%)
Query: 22  DDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKIC 81
           D+EE LF+ ID L   GIN  D+KKL+  GI T  G+ M T++ L  +KGLSEAKV+KI 
Sbjct: 18  DEEESLFQDIDLLQKHGINVADIKKLKSVGICTIKGIQMTTRRALCNVKGLSEAKVDKIK 77
Query: 82  EAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQ 141
           EAA K++  G++T  +   +RK V  ITTGSQ  D+LLGGGIE+ AITEAFGEFR+GKTQ
Sbjct: 78  EAANKLIEPGFLTAFEYSEKRKMVFHITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQ 137
Query: 142 LAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAY 201
           L+HTLCV  QLP       GK+ +IDTE TFRPDR+  IA+RF +D  AVLDN++YARAY
Sbjct: 138 LSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRDIADRFNVDHDAVLDNVLYARAY 197
Query: 202 TYEHQYNLLLGLAAKMSEEP--FRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLT 259
           T EHQ  LL  +AAK  EE   F+LLI+DS++ALFRVDF+GRGELA+RQQKL QMLSRL 
Sbjct: 198 TSEHQVELLDYVAAKFHEEAGIFKLLIIDSIMALFRVDFSGRGELAERQQKLAQMLSRLQ 257
Query: 260 KISEEFNVAVYMTNQVIADPGGGV-FISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCK 318
           KISEE+NVAV++TNQ+ ADPG  + F +DPKKP GGH+LAHA T R+  RKG+GE R+ K
Sbjct: 258 KISEEYNVAVFVTNQMTADPGATMTFQADPKKPIGGHILAHASTTRISLRKGRGELRIAK 317
Query: 319 VFDAPNLPEAEAISFSYHIILIKITPGGIADAKD 352
           ++D+P +PE EA           IT GGI DAK+
Sbjct: 318 IYDSPEMPENEAT--------FAITAGGIGDAKE 343

>pdb|3LDA|A Chain A, Yeast Rad51 H352y Filament Interface Mutant Length = 400

Iteration: 1
 Score =  314 bits (805), Expect = 4e-86,   Method: Compositional matrix adjust.
 Identities = 167/327 (51%), Positives = 230/327 (70%), Gaps = 3/327 (0%)
Query: 8   EEQSQLQLVEREDIDDEEDL--FEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKH 65
           +EQ++ Q    ++  DE  L  F  I+KL   GI   DVKKL+++G++T   +    +K 
Sbjct: 58  QEQAEAQGEMEDEAYDEAALGSFVPIEKLQVNGITMADVKKLRESGLHTAEAVAYAPRKD 117
Query: 66  LTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIET 125
           L  IKG+SEAK +K+   A ++V  G++T +D  +RR  +I +TTGS+ LD LLGGG+ET
Sbjct: 118 LLEIKGISEAKADKLLNEAARLVPMGFVTAADFHMRRSELICLTTGSKNLDTLLGGGVET 177
Query: 126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFG 185
           G+ITE FGEFR+GK+QL HTL V  Q+P ++ GG GK  YIDTEGTFRP R+V IA+RFG
Sbjct: 178 GSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRLVSIAQRFG 237
Query: 186 MDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELA 245
           +DP   L+N+ YARAY  +HQ  LL   A  MSE  F L++VDSV+AL+R DF+GRGEL+
Sbjct: 238 LDPDDALNNVAYARAYNADHQLRLLDAAAQMMSESRFSLIVVDSVMALYRTDFSGRGELS 297
Query: 246 DRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGV-FISDPKKPAGGHVLAHAVTIR 304
            RQ  L + +  L +++++F VAV +TNQV+A   GG+ F  DPKKP GG+++A++ T R
Sbjct: 298 ARQMHLAKFMRALQRLADQFGVAVVVTNQVVAQVDGGMAFNPDPKKPIGGNIMAYSSTTR 357
Query: 305 LMFRKGKGEQRVCKVFDAPNLPEAEAI 331
           L F+KGKG QR+CKV D+P LPEAE +
Sbjct: 358 LGFKKGKGCQRLCKVVDSPCLPEAECV 384

>pdb|1SZP|A Chain A, A Crystal Structure Of The Rad51 Filament Length = 321

Iteration: 1
 Score =  313 bits (803), Expect = 8e-86,   Method: Compositional matrix adjust.
 Identities = 162/306 (52%), Positives = 219/306 (71%), Gaps = 1/306 (0%)
Query: 31  IDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNF 90
           I+KL   GI   DVKKL+++G++T   +    +K L  IKG+SEAK +K+   A ++V  
Sbjct: 4   IEKLQVNGITMADVKKLRESGLHTAEAVAYAPRKDLLEIKGISEAKADKLLNEAARLVPM 63
Query: 91  GYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCT 150
           G++T +D  +RR  +I +TTGS+ LD LLGGG+ETG+ITE FGEFR+GK+QL HTL V  
Sbjct: 64  GFVTAADFHMRRSELICLTTGSKNLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVTC 123
Query: 151 QLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLL 210
           Q+P ++ GG GK  YIDTEGTFRP R+V IA+RFG+DP   L+N+ YARAY  +HQ  LL
Sbjct: 124 QIPLDIGGGEGKCLYIDTEGTFRPVRLVSIAQRFGLDPDDALNNVAYARAYNADHQLRLL 183
Query: 211 LGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVY 270
              A  MSE  F L++VDSV+AL+R DF+GRGEL+ RQ  L + +  L +++++F VAV 
Sbjct: 184 DAAAQMMSESRFSLIVVDSVMALYRTDFSGRGELSARQMHLAKFMRALQRLADQFGVAVV 243
Query: 271 MTNQVIADPGGGV-FISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAE 329
           +TNQV+A   GG+ F  DPKKP GG+++AH+ T RL F+KGKG QR+CKV D+P LPEAE
Sbjct: 244 VTNQVVAQVDGGMAFNPDPKKPTGGNIMAHSSTTRLGFKKGKGCQRLCKVVDSPCLPEAE 303
Query: 330 AISFSY 335
            +   Y
Sbjct: 304 CVFAIY 309

>pdb|1PZN|A Chain A, Rad51 (Rada) Length = 349

Iteration: 1
 Score =  274 bits (700), Expect = 7e-74,   Method: Compositional matrix adjust.
 Identities = 149/318 (46%), Positives = 203/318 (63%), Gaps = 16/318 (5%)
Query: 38  GINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSD 97
           G+     +KL++AG  T   + + +   L  + G+SE    KI +AA K  N G    +D
Sbjct: 42  GVGPATAEKLREAGYDTLEAIAVASPIELKEVAGISEGTALKIIQAARKAANLGTFXRAD 101
Query: 98  ALLRRKAVI-KITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNM 156
             L+++A I +I+TGS++LD+LLGGGIET AITE FGEF SGKTQLAHTL V  QLP   
Sbjct: 102 EYLKKRATIGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVXVQLPPEE 161
Query: 157 RGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAK 216
            G NG V +IDTE TFRP+RI  IA+  G+DP  VL +I  ARA+   HQ  L+     K
Sbjct: 162 GGLNGSVIWIDTENTFRPERIREIAQNRGLDPDEVLKHIYVARAFNSNHQXLLVQQAEDK 221
Query: 217 MSE-----EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYM 271
           + E      P +LLIVDS+ + FR ++ GRG LA+RQQKL + L+ L +++  +++AV++
Sbjct: 222 IKELLNTDRPVKLLIVDSLTSHFRSEYIGRGALAERQQKLAKHLADLHRLANLYDIAVFV 281
Query: 272 TNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAI 331
           TNQV A P    F  DP +P GGH+LAH+ T+R+  RKGKG +R+ ++ DAP+LPE EA+
Sbjct: 282 TNQVQARPDA--FFGDPTRPIGGHILAHSATLRVYLRKGKGGKRIARLIDAPHLPEGEAV 339
Query: 332 SFSYHIILIKITPGGIAD 349
            FS       IT  GI D
Sbjct: 340 -FS-------ITEKGIED 349

>pdb|1N0W|A Chain A, Crystal Structure Of A Rad51-Brca2 Brc Repeat Complex Length = 243

Iteration: 1
 Score =  267 bits (683), Expect = 5e-72,   Method: Compositional matrix adjust.
 Identities = 135/249 (54%), Positives = 175/249 (70%), Gaps = 9/249 (3%)
Query: 105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVA 164
           +I+ITTGS+ LD+LL GGIETG+ITE FGEFR+GKTQ+ HTL V  QLP +  GG GK  
Sbjct: 3   IIQITTGSKELDKLLQGGIETGSITEXFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAX 62
Query: 165 YIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRL 224
           YIDTEGTFRP+R++ +AER+G+    VLDN+ YARA+  +HQ  LL   +A   E  + L
Sbjct: 63  YIDTEGTFRPERLLAVAERYGLSGSDVLDNVAYARAFNTDHQTQLLYQASAXXVESRYAL 122
Query: 225 LIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIAD-PGGGV 283
           LIVDS  AL+R D++GRGEL+ RQ  L + L  L ++++EF VAV +TNQV+A   G   
Sbjct: 123 LIVDSATALYRTDYSGRGELSARQXHLARFLRXLLRLADEFGVAVVITNQVVAQVDGAAX 182
Query: 284 FISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKIT 343
           F +DPKKP GG+++AHA T RL  RKG+GE R+CK++D+P LPEAEA           I 
Sbjct: 183 FAADPKKPIGGNIIAHASTTRLYLRKGRGETRICKIYDSPCLPEAEA--------XFAIN 234
Query: 344 PGGIADAKD 352
             G+ DAKD
Sbjct: 235 ADGVGDAKD 243

>pdb|2DFL|A Chain A, Crystal Structure Of Left-Handed Rada Filament Length = 324

Iteration: 1
 Score =  234 bits (596), Expect = 8e-62,   Method: Compositional matrix adjust.
 Identities = 131/316 (41%), Positives = 191/316 (60%), Gaps = 11/316 (3%)
Query: 38  GINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSD 97
           GI+   + KL +AG  +   L + + + L+   G+  +  +KI + A   ++  + T  +
Sbjct: 19  GISQTVINKLIEAGYSSLETLAVASPQDLSVAAGIPLSTAQKIIKEARDALDIRFKTALE 78
Query: 98  ALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMR 157
               R  V KI+TGSQALD LL GGIET  +TE FGEF SGKTQL H L V  QLP    
Sbjct: 79  VKKERMNVKKISTGSQALDGLLAGGIETRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKG 138
Query: 158 GGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKM 217
           G +GK  YIDTEGTFR +RI  +A+  G+D   V++NI Y RA   +HQ  ++  L   +
Sbjct: 139 GLSGKAVYIDTEGTFRWERIENMAKALGLDIDNVMNNIYYIRAINTDHQIAIVDDLQELV 198
Query: 218 SEEP-FRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI 276
           S++P  +L++VDSV + FR ++ GR  LA RQQKL + L +LT+++E +++AV +TNQV+
Sbjct: 199 SKDPSIKLIVVDSVTSHFRAEYPGRENLAVRQQKLNKHLHQLTRLAEVYDIAVIITNQVM 258
Query: 277 ADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYH 336
           A P   +F  DP    GGH L H   IR+  +K +G +R+ +V DAP+LPE E       
Sbjct: 259 ARP--DMFYGDPTVAVGGHTLYHVPGIRIQLKKSRGNRRIARVVDAPHLPEGE------- 309
Query: 337 IILIKITPGGIADAKD 352
            ++  +T  GI DA++
Sbjct: 310 -VVFALTEEGIRDAEE 324

>pdb|4B2I|A Chain A, Humanised Monomeric Rada In Complex With Indazole Length = 231

Iteration: 1
 Score =  230 bits (587), Expect = 8e-61,   Method: Compositional matrix adjust.
 Identities = 126/249 (50%), Positives = 166/249 (66%), Gaps = 29/249 (11%)
Query: 107 KITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYI 166
           +I+TGS++LD+LLGGGIET AITE FGEF SGKTQLAHTL V  QLP    G NG V +I
Sbjct: 6   RISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVMWI 65
Query: 167 DTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEE------ 220
           DTE TFRP+RI  IA+  G+DP  VL +I YARA+   HQ  LL+  A  M +E      
Sbjct: 66  DTENTFRPERIREIAQNRGLDPDEVLKHIAYARAFNSNHQM-LLVQQAEDMIKELLNTDR 124
Query: 221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPG 280
           P +LLIVDS+ + FR ++ GRG LA+RQQKL + L+ L +++  +++AV++TNQV A+  
Sbjct: 125 PVKLLIVDSLTSHFRSEYIGRGALAERQQKLAKHLADLHRLANLYDIAVFVTNQVQAN-- 182
Query: 281 GGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILI 340
                       GGH+LAH+ T+R+  RKGKG +R+ ++ DAP+LPE EA+ FS      
Sbjct: 183 ------------GGHILAHSATLRVYLRKGKGGKRIARLIDAPHLPEGEAV-FS------ 223
Query: 341 KITPGGIAD 349
            IT  GI D
Sbjct: 224 -ITEKGIED 231

>pdb|2BKE|A Chain A, Conformational Flexibility Revealed By The Crystal Structure Of A Crenarchaeal Rada Length = 324

Iteration: 1
 Score =  229 bits (583), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 131/316 (41%), Positives = 186/316 (58%), Gaps = 11/316 (3%)
Query: 38  GINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSD 97
           GI+   + KL +AG  +   L + + + L+   G+  +  +KI + A   ++  + T  +
Sbjct: 19  GISQTVINKLIEAGYSSLETLAVASPQDLSVAAGIPLSTAQKIIKEARDALDIRFKTALE 78
Query: 98  ALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMR 157
               R  V KI+TGSQALD LL GGIET   TE FGEF SGKTQL H L V  QLP    
Sbjct: 79  VKKERXNVKKISTGSQALDGLLAGGIETRTXTEFFGEFGSGKTQLCHQLSVNVQLPPEKG 138
Query: 158 GGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKM 217
           G +GK  YIDTEGTFR +RI   A+  G+D   V +NI Y RA   +HQ  ++  L   +
Sbjct: 139 GLSGKAVYIDTEGTFRWERIENXAKALGLDIDNVXNNIYYIRAINTDHQIAIVDDLQELV 198
Query: 218 SEEP-FRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI 276
           S++P  +L++VDSV + FR ++ GR  LA RQQKL + L +LT+++E +++AV +TNQV 
Sbjct: 199 SKDPSIKLIVVDSVTSHFRAEYPGRENLAVRQQKLNKHLHQLTRLAEVYDIAVIITNQVX 258
Query: 277 ADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYH 336
           A P    F  DP    GGH L H   IR+  +K +G +R+ +V DAP+LPE E       
Sbjct: 259 ARP--DXFYGDPTVAVGGHTLYHVPGIRIQLKKSRGNRRIARVVDAPHLPEGE------- 309
Query: 337 IILIKITPGGIADAKD 352
            ++  +T  GI DA++
Sbjct: 310 -VVFALTEEGIRDAEE 324

>pdb|4A6P|A Chain A, Rada C-Terminal Atpase Domain From Pyrococcus Furiosus Length = 231

Iteration: 1
 Score =  227 bits (578), Expect = 9e-60,   Method: Compositional matrix adjust.
 Identities = 123/248 (49%), Positives = 163/248 (65%), Gaps = 27/248 (10%)
Query: 107 KITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYI 166
           +I+TGS++LD+LLGGGIET AITE FGEF SGKTQLAHTL V  QLP    G NG V +I
Sbjct: 6   RISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWI 65
Query: 167 DTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSE-----EP 221
           DTE TFRP+RI  IA+  G+DP  VL +I  ARA+   HQ  L+     K+ E      P
Sbjct: 66  DTENTFRPERIREIAQNRGLDPDEVLKHIYVARAFNSNHQMLLVQQAEDKIKELLNTDRP 125
Query: 222 FRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGG 281
            +LLIVDS+ + FR ++ GRG LA+RQQKL + L+ L +++  +++AV++TNQV A+   
Sbjct: 126 VKLLIVDSLTSHFRSEYIGRGALAERQQKLAKHLADLHRLANLYDIAVFVTNQVQAN--- 182
Query: 282 GVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIK 341
                      GGH+LAH+ T+R+  RKGKG +R+ ++ DAP+LPE EA+ FS       
Sbjct: 183 -----------GGHILAHSATLRVYLRKGKGGKRIARLIDAPHLPEGEAV-FS------- 223
Query: 342 ITPGGIAD 349
           IT  GI D
Sbjct: 224 ITEKGIED 231

>pdb|1T4G|A Chain A, Atpase In Complex With Amp-pnp Length = 322

Iteration: 1
 Score =  225 bits (574), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 129/323 (39%), Positives = 187/323 (57%), Gaps = 21/323 (6%)
Query: 38  GINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSD 97
           G+     +KL +AG      +   T   LT I+G+SE    K+   A  + + G+ +G D
Sbjct: 10  GVGPSTAEKLVEAGYIDFMKIATATVGELTDIEGISEKAAAKMIMGARDLCDLGFKSGID 69
Query: 98  ALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNM- 156
            L +R  V K++T S  LD +LGGG+E+ ++TE  G F SGKTQ+ H  CV  Q P  + 
Sbjct: 70  LLKQRSTVWKLSTSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLF 129
Query: 157 -------RG--GNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQY 207
                  +G     K  YIDTEGTFRP+RI+ +AE  G+D   VLDN   ARAY  + Q 
Sbjct: 130 YDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQMAEHAGIDGQTVLDNTFVARAYNSDMQM 189
Query: 208 NLLLGLAAKMSE-EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFN 266
                +   + E    +L+++DS+ + FR ++TGRG+LA+RQQKLG+ ++ L K+++ FN
Sbjct: 190 LFAEKIEDLIQEGNNIKLVVIDSLTSTFRNEYTGRGKLAERQQKLGRHMATLNKLADLFN 249
Query: 267 VAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLP 326
             V +TNQV A P    F    ++  GGH++ HA T R   RKGKG++RV K++D+P+LP
Sbjct: 250 CVVLVTNQVSAKP--DAFFGMAEQAIGGHIVGHAATFRFFVRKGKGDKRVAKLYDSPHLP 307
Query: 327 EAEAISFSYHIILIKITPGGIAD 349
           +AEAI         +IT  GI D
Sbjct: 308 DAEAI--------FRITEKGIQD 322

>pdb|2F1H|A Chain A, Recombinase In Complex With Amp-pnp And Potassium Length = 322

Iteration: 1
 Score =  224 bits (570), Expect = 7e-59,   Method: Compositional matrix adjust.
 Identities = 128/323 (39%), Positives = 187/323 (57%), Gaps = 21/323 (6%)
Query: 38  GINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSD 97
           G+     +KL +AG      +   T   LT I+G+SE    K+   A  + + G+ +G D
Sbjct: 10  GVGPSTAEKLVEAGYIDFMKIATATVGELTDIEGISEKAAAKMIMGARDLCDLGFKSGID 69
Query: 98  ALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNM- 156
            L +R  V K++T S  LD +LGGG+E+ ++TE  G F SGKTQ+ H  CV  Q P  + 
Sbjct: 70  LLKQRSTVWKLSTSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLF 129
Query: 157 -------RG--GNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQY 207
                  +G     K  YIDT+GTFRP+RI+ +AE  G+D   VLDN   ARAY  + Q 
Sbjct: 130 YDEEAVSKGEVAQPKAVYIDTDGTFRPERIMQMAEHAGIDGQTVLDNTFVARAYNSDMQM 189
Query: 208 NLLLGLAAKMSE-EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFN 266
                +   + E    +L+++DS+ + FR ++TGRG+LA+RQQKLG+ ++ L K+++ FN
Sbjct: 190 LFAEKIEDLIQEGNNIKLVVIDSLTSTFRNEYTGRGKLAERQQKLGRHMATLNKLADLFN 249
Query: 267 VAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLP 326
             V +TNQV A P    F    ++  GGH++ HA T R   RKGKG++RV K++D+P+LP
Sbjct: 250 CVVLVTNQVSAKP--DAFFGMAEQAIGGHIVGHAATFRFFVRKGKGDKRVAKLYDSPHLP 307
Query: 327 EAEAISFSYHIILIKITPGGIAD 349
           +AEAI         +IT  GI D
Sbjct: 308 DAEAI--------FRITEKGIQD 322

>pdb|3NTU|A Chain A, Rada Recombinase D302k Mutant In Complex With Amp-Pnp Length = 319

Iteration: 1
 Score =  223 bits (567), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 128/323 (39%), Positives = 186/323 (57%), Gaps = 21/323 (6%)
Query: 38  GINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSD 97
           G+     +KL +AG      +   T   LT I+G+SE    K+   A  + + G+ +G D
Sbjct: 7   GVGPSTAEKLVEAGYIDFMKIATATVGELTDIEGISEKAAAKMIMGARDLCDLGFKSGID 66
Query: 98  ALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNM- 156
            L +R  V K++T S  LD +LGGG+E+ ++TE  G F SGKTQ+ H  CV  Q P  + 
Sbjct: 67  LLKQRSTVWKLSTSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLF 126
Query: 157 -------RG--GNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQY 207
                  +G     K  YIDTEGTFRP+RI+ +AE  G+D   VLDN   ARAY  + Q 
Sbjct: 127 YDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQMAEHAGIDGQTVLDNTFVARAYNSDMQM 186
Query: 208 NLLLGLAAKMSE-EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFN 266
                +   + E    +L+++DS+ + FR ++TGRG+LA+RQQKLG+ ++ L K+++ FN
Sbjct: 187 LFAEKIEDLIQEGNNIKLVVIDSLTSTFRNEYTGRGKLAERQQKLGRHMATLNKLADLFN 246
Query: 267 VAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLP 326
             V +TNQV A P    F    ++  GGH++ HA T R   RKGKG++RV K++ +P+LP
Sbjct: 247 CVVLVTNQVSAKP--DAFFGMAEQAIGGHIVGHAATFRFFVRKGKGDKRVAKLYKSPHLP 304
Query: 327 EAEAISFSYHIILIKITPGGIAD 349
           +AEAI         +IT  GI D
Sbjct: 305 DAEAI--------FRITEKGIQD 319

>pdb|3ETL|A Chain A, Rada Recombinase From Methanococcus Maripaludis In Complex With Amppnp Length = 322

Iteration: 1
 Score =  211 bits (537), Expect = 5e-55,   Method: Compositional matrix adjust.
 Identities = 125/327 (38%), Positives = 187/327 (57%), Gaps = 29/327 (8%)
Query: 38  GINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSD 97
           G+      KL + G      +   T   LT I+G+SE    K+  AA  + + G+ +G +
Sbjct: 10  GVGPSTADKLIEGGYLDFMKIATATIGELTDIEGISEKAAAKMIMAARDLCDLGFKSGVE 69
Query: 98  ALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMR 157
            L +R++V +++TGS  LD +L GGIE+ ++TE  G F SGKTQ+ H  CV  Q+   + 
Sbjct: 70  LLKQRQSVWRLSTGSTELDTVLAGGIESQSVTEFAGMFGSGKTQIMHQTCVNLQMREKIF 129
Query: 158 GGNG----------KVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQY 207
                         K  YIDTEGTFRP+R+V +AE  G+D   VLDN   ARAY  + Q 
Sbjct: 130 ADLEGVVEEELEAPKAVYIDTEGTFRPERVVQMAEGAGIDGQTVLDNTFVARAYNSDMQ- 188
Query: 208 NLLLGLAAKMSE-----EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKIS 262
              +  A K+ +        +L+I+DS+ + FR +FTGRG+LA+RQQKLG+ ++ L K++
Sbjct: 189 ---MLFAEKIEDLIKGGNNIKLVIIDSLTSTFRNEFTGRGKLAERQQKLGRHMATLNKLA 245
Query: 263 EEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDA 322
           + +N  V +TNQV A P    +    ++  GGHV+ HA T R   RK KG++RV K++D+
Sbjct: 246 DLYNCIVLVTNQVAAKPDA--YFGVAEQAIGGHVVGHAATFRFFLRKSKGDKRVAKLYDS 303
Query: 323 PNLPEAEAISFSYHIILIKITPGGIAD 349
           P+LP++EA+         +IT  GI D
Sbjct: 304 PHLPDSEAV--------FRITEKGIQD 322

>pdb|4DC9|A Chain A, Hexameric Ring Of Methanococcus Voltae Rada Length = 266

Iteration: 1
 Score =  209 bits (533), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 115/273 (42%), Positives = 166/273 (60%), Gaps = 21/273 (7%)
Query: 88  VNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLC 147
           ++ G+ +G D L +R  V K++T S  LD +LGGG+E+ ++TE  G F SGKTQ+ H  C
Sbjct: 4   MDLGFKSGIDLLKQRSTVWKLSTSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSC 63
Query: 148 VCTQLPTNM--------RG--GNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIY 197
           V  Q P  +        +G     K  YIDTEGTFRP+RI+ +AE  G+D   VLDN   
Sbjct: 64  VNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQMAEHAGIDGQTVLDNTFV 123
Query: 198 ARAYTYEHQYNLLLGLAAKMSE-EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLS 256
           ARAY  + Q      +   + E    +L+++DS+ + FR ++TGRG+LA+RQQKLG+ ++
Sbjct: 124 ARAYNSDMQMLFAEKIEDLIQEGNNIKLVVIDSLTSTFRNEYTGRGKLAERQQKLGRHMA 183
Query: 257 RLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRV 316
            L K+++ FN  V +TNQV A P    F    ++  GGH++ HA T R   RKGKG++RV
Sbjct: 184 TLNKLADLFNCVVLVTNQVSAKPDA--FFGMAEQAIGGHIVGHAATFRFFVRKGKGDKRV 241
Query: 317 CKVFDAPNLPEAEAISFSYHIILIKITPGGIAD 349
            K++D+P+LP+AEAI         +IT  GI D
Sbjct: 242 AKLYDSPHLPDAEAI--------FRITEKGIQD 266

>pdb|2GDJ|A Chain A, Delta-62 Rada Recombinase In Complex With Amp-Pnp And Magnesium Length = 264

Iteration: 1
 Score =  209 bits (531), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 115/272 (42%), Positives = 165/272 (60%), Gaps = 21/272 (7%)
Query: 89  NFGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCV 148
           + G+ +G D L +R  V K++T S  LD +LGGG+E+ ++TE  G F SGKTQ+ H  CV
Sbjct: 3   HMGFKSGIDLLKQRSTVWKLSTSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCV 62
Query: 149 CTQLPTNM--------RG--GNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYA 198
             Q P  +        +G     K  YIDTEGTFRP+RI+ +AE  G+D   VLDN   A
Sbjct: 63  NLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQMAEHAGIDGQTVLDNTFVA 122
Query: 199 RAYTYEHQYNLLLGLAAKMSE-EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSR 257
           RAY  + Q      +   + E    +L+++DS+ + FR ++TGRG+LA+RQQKLG+ ++ 
Sbjct: 123 RAYNSDMQMLFAEKIEDLIQEGNNIKLVVIDSLTSTFRNEYTGRGKLAERQQKLGRHMAT 182
Query: 258 LTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVC 317
           L K+++ FN  V +TNQV A P    F    ++  GGH++ HA T R   RKGKG++RV 
Sbjct: 183 LNKLADLFNCVVLVTNQVSAKP--DAFFGMAEQAIGGHIVGHAATFRFFVRKGKGDKRVA 240
Query: 318 KVFDAPNLPEAEAISFSYHIILIKITPGGIAD 349
           K++D+P+LP+AEAI         +IT  GI D
Sbjct: 241 KLYDSPHLPDAEAI--------FRITEKGIQD 264

>pdb|2CVF|A Chain A, Crystal Structure Of The Radb Recombinase Length = 220

Iteration: 1
 Score = 96.3 bits (238), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 61/171 (35%), Positives = 94/171 (54%), Gaps = 14/171 (8%)
Query: 108 ITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYID 167
           ++TG+++LD LLGGG   G +T+ +G + SGKT LA        L T +  G  KVAY+D
Sbjct: 2   LSTGTKSLDSLLGGGFAPGVLTQVYGPYASGKTTLA--------LQTGLLSGK-KVAYVD 52
Query: 168 TEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIV 227
           TEG F P+R+V +AE  G++P   L   I      ++ Q   ++G   K  +  F L++V
Sbjct: 53  TEGGFSPERLVQMAETRGLNPEEALSRFILFTPSDFKEQRR-VIGSLKKTVDSNFALVVV 111
Query: 228 DSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIAD 278
           DS+ A +R +    G +A+    L + L  L  I+ + N+ V + NQV  D
Sbjct: 112 DSITAHYRAEENRSGLIAE----LSRQLQVLLWIARKHNIPVIVINQVHFD 158

>pdb|1B22|A Chain A, Rad51 (N-Terminal Domain) Length = 114

Iteration: 1
 Score = 88.6 bits (218), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 50/110 (45%), Positives = 68/110 (61%), Gaps = 2/110 (1%)
Query: 12  QLQLVEREDIDDEEDLF--EAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGI 69
           Q+QL    D   EE+ F  + I +L   GINA DVKKL++AG +T   +    KK L  I
Sbjct: 4   QMQLEANADTSVEEESFGPQPISRLEQCGINANDVKKLEEAGFHTVEAVAYAPKKELINI 63
Query: 70  KGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELL 119
           KG+SEAK +KI   A K+V  G+ T ++   RR  +I+ITTGS+ LD+LL
Sbjct: 64  KGISEAKADKILAEAAKLVPMGFTTATEFHQRRSEIIQITTGSKELDKLL 113

>pdb|3CMT|A Chain A, Mechanism Of Homologous Recombination From The Reca- SsdnaDSDNA STRUCTURES Length = 1706

Iteration: 1
 Score = 56.6 bits (135), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 73/264 (27%), Positives = 111/264 (42%), Gaps = 33/264 (12%)
Query: 55  CNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYIT--GSDALLRRKAVIKITTGS 112
             G M HT   ++ I    +  +       EK    G I   G D   R   V  I+TGS
Sbjct: 661 STGSMGHTTGSMSAIDENKQKALAAALGQIEKQFGKGSIMRLGED---RSMDVETISTGS 717
Query: 113 QALDELLG-GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT 171
            +LD  LG GG+  G I E +G   SGKT L   +    Q     R G    A+ID E  
Sbjct: 718 LSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ-----REGK-TCAFIDAEHA 771
Query: 172 FRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVI 231
             P      A + G+D    +DN++ ++  T E    +   LA   + +   +++VDSV 
Sbjct: 772 LDP----IYARKLGVD----IDNLLCSQPDTGEQALEICDALARSGAVD---VIVVDSVA 820
Query: 232 ALF-RVDFTGRGELADRQQKLG-----QMLSRLTKISEEFNVAVYMTNQVIADPGGGVFI 285
           AL  + +    GE+ D    L      Q + +L    ++ N  +   NQ+      GV  
Sbjct: 821 ALTPKAEI--EGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKI--GVMF 876
Query: 286 SDPKKPAGGHVLAHAVTIRLMFRK 309
            +P+   GG+ L    ++RL  R+
Sbjct: 877 GNPETTTGGNALKFYASVRLDIRR 900

>pdb|3CMV|A Chain A, Mechanism Of Homologous Recombination From The Reca- SsdnaDSDNA STRUCTURES Length = 1357

Iteration: 1
 Score = 56.2 bits (134), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 73/264 (27%), Positives = 111/264 (42%), Gaps = 33/264 (12%)
Query: 55  CNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYIT--GSDALLRRKAVIKITTGS 112
             G M HT   ++ I    +  +       EK    G I   G D   R   V  I+TGS
Sbjct: 661 STGSMGHTTGSMSAIDENKQKALAAALGQIEKQFGKGSIMRLGED---RSMDVETISTGS 717
Query: 113 QALDELLG-GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT 171
            +LD  LG GG+  G I E +G   SGKT L   +    Q     R G    A+ID E  
Sbjct: 718 LSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ-----REGK-TCAFIDAEHA 771
Query: 172 FRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVI 231
             P      A + G+D    +DN++ ++  T E    +   LA   + +   +++VDSV 
Sbjct: 772 LDP----IYARKLGVD----IDNLLCSQPDTGEQALEICDALARSGAVD---VIVVDSVA 820
Query: 232 ALF-RVDFTGRGELADRQQKLG-----QMLSRLTKISEEFNVAVYMTNQVIADPGGGVFI 285
           AL  + +    GE+ D    L      Q + +L    ++ N  +   NQ+      GV  
Sbjct: 821 ALTPKAEI--EGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKI--GVMF 876
Query: 286 SDPKKPAGGHVLAHAVTIRLMFRK 309
            +P+   GG+ L    ++RL  R+
Sbjct: 877 GNPETTTGGNALKFYASVRLDIRR 900

>pdb|1N03|A Chain A, Model For Active Reca Filament Length = 352

Iteration: 1
 Score = 55.8 bits (133), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 62/216 (28%), Positives = 96/216 (44%), Gaps = 28/216 (12%)
Query: 101 RRKAVIKITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGG 159
           R   V  I+TGS +LD  LG GG+  G I E +G   SGKT L   +    Q     R G
Sbjct: 33  RSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ-----REG 87
Query: 160 NGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSE 219
               A+ID E    P      A + G+D    +DN++ ++  T E    +   LA   + 
Sbjct: 88  K-TCAFIDAEHALDP----IYARKLGVD----IDNLLCSQPDTGEQALEICDALARSGAV 138
Query: 220 EPFRLLIVDSVIALF-RVDFTGRGELADRQQKLG-----QMLSRLTKISEEFNVAVYMTN 273
           +   +++VDSV AL  + +    GE+ D    L      Q + +L    ++ N  +   N
Sbjct: 139 D---VIVVDSVAALTPKAEI--EGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFIN 193
Query: 274 QVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRK 309
           Q+      GV   +P+   GG+ L    ++RL  R+
Sbjct: 194 QIRMKI--GVMFGNPETTTGGNALKFYASVRLDIRR 227

>pdb|2REC|A Chain A, Reca Hexamer Model, Electron Microscopy Length = 353

Iteration: 1
 Score = 55.8 bits (133), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 62/216 (28%), Positives = 96/216 (44%), Gaps = 28/216 (12%)
Query: 101 RRKAVIKITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGG 159
           R   V  I+TGS +LD  LG GG+  G I E +G   SGKT L   +    Q     R G
Sbjct: 34  RSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ-----REG 88
Query: 160 NGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSE 219
               A+ID E    P      A + G+D    +DN++ ++  T E    +   LA   + 
Sbjct: 89  K-TCAFIDAEHALDP----IYARKLGVD----IDNLLCSQPDTGEQALEICDALARSGAV 139
Query: 220 EPFRLLIVDSVIALF-RVDFTGRGELADRQQKLG-----QMLSRLTKISEEFNVAVYMTN 273
           +   +++VDSV AL  + +    GE+ D    L      Q + +L    ++ N  +   N
Sbjct: 140 D---VIVVDSVAALTPKAEI--EGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFIN 194
Query: 274 QVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRK 309
           Q+      GV   +P+   GG+ L    ++RL  R+
Sbjct: 195 QIRMKI--GVMFGNPETTTGGNALKFYASVRLDIRR 228

>pdb|3CMU|A Chain A, Mechanism Of Homologous Recombination From The Reca- SsdnaDSDNA STRUCTURES Length = 2050

Iteration: 1
 Score = 55.8 bits (133), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 73/264 (27%), Positives = 111/264 (42%), Gaps = 33/264 (12%)
Query: 55  CNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYIT--GSDALLRRKAVIKITTGS 112
             G M HT   ++ I    +  +       EK    G I   G D   R   V  I+TGS
Sbjct: 661 STGSMGHTTGAMSAIDENKQKALAAALGQIEKQFGKGSIMRLGED---RSMDVETISTGS 717
Query: 113 QALDELLG-GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT 171
            +LD  LG GG+  G I E +G   SGKT L   +    Q     R G    A+ID E  
Sbjct: 718 LSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ-----REGK-TCAFIDAEHA 771
Query: 172 FRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVI 231
             P      A + G+D    +DN++ ++  T E    +   LA   + +   +++VDSV 
Sbjct: 772 LDP----IYARKLGVD----IDNLLCSQPDTGEQALEICDALARSGAVD---VIVVDSVA 820
Query: 232 ALF-RVDFTGRGELADRQQKLG-----QMLSRLTKISEEFNVAVYMTNQVIADPGGGVFI 285
           AL  + +    GE+ D    L      Q + +L    ++ N  +   NQ+      GV  
Sbjct: 821 ALTPKAEI--EGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKI--GVMF 876
Query: 286 SDPKKPAGGHVLAHAVTIRLMFRK 309
            +P+   GG+ L    ++RL  R+
Sbjct: 877 GNPETTTGGNALKFYASVRLDIRR 900

>pdb|1U94|A Chain A, Crystal Structure Of E. Coli Reca In A Compressed Helical Filament Form 2 Length = 356

Iteration: 1
 Score = 55.8 bits (133), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 62/216 (28%), Positives = 96/216 (44%), Gaps = 28/216 (12%)
Query: 101 RRKAVIKITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGG 159
           R   V  I+TGS +LD  LG GG+  G I E +G   SGKT L   +    Q     R G
Sbjct: 37  RSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ-----REG 91
Query: 160 NGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSE 219
               A+ID E    P      A + G+D    +DN++ ++  T E    +   LA   + 
Sbjct: 92  K-TCAFIDAEHALDP----IYARKLGVD----IDNLLCSQPDTGEQALEICDALARSGAV 142
Query: 220 EPFRLLIVDSVIALF-RVDFTGRGELADRQQKLG-----QMLSRLTKISEEFNVAVYMTN 273
           +   +++VDSV AL  + +    GE+ D    L      Q + +L    ++ N  +   N
Sbjct: 143 D---VIVVDSVAALTPKAEI--EGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFIN 197
Query: 274 QVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRK 309
           Q+      GV   +P+   GG+ L    ++RL  R+
Sbjct: 198 QIRMKI--GVMFGNPETTTGGNALKFYASVRLDIRR 231

>pdb|1G18|A Chain A, Reca-Adp-Alf4 Complex Length = 350

Iteration: 1
 Score = 55.1 bits (131), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 66/243 (27%), Positives = 103/243 (42%), Gaps = 33/243 (13%)
Query: 78  EKICEAAEKIVNFGYITGSDALL---RRKAVIKITTGSQALDELLG-GGIETGAITEAFG 133
           EK  E A   +   Y  GS   L    R+ +  I TGS ALD  LG GG+  G + E +G
Sbjct: 8   EKALELAVAQIEKSYGKGSVMRLGDEARQPISVIPTGSIALDVALGIGGLPRGRVIEIYG 67
Query: 134 EFRSGKTQLA-HTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVL 192
              SGKT +A H +        N +   G  A+ID E    PD     A++ G+D     
Sbjct: 68  PESSGKTTVALHAVA-------NAQAAGGVAAFIDAEHALDPD----YAKKLGVD----T 112
Query: 193 DNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALF-RVDFTGRGELAD----- 246
           D+++ ++  T E    +   L   +      ++++DSV AL  R +    GE+ D     
Sbjct: 113 DSLLVSQPDTGEQALEIADML---IRSGALDIVVIDSVAALVPRAEL--EGEMGDSHVGL 167
Query: 247 RQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLM 306
           + + + Q L ++T             NQ+      GV    P+   GG  L    ++R+ 
Sbjct: 168 QARLMSQALRKMTGALNNSGTTAIFINQLRDKI--GVMFGSPETTTGGKALKFYASVRMD 225
Query: 307 FRK 309
            R+
Sbjct: 226 VRR 228

>pdb|1UBC|A Chain A, Structure Of Reca Protein Length = 349

Iteration: 1
 Score = 52.0 bits (123), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 57/216 (26%), Positives = 94/216 (43%), Gaps = 30/216 (13%)
Query: 102 RKAVIKITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLA-HTLCVCTQLPTNMRGG 159
           R+ +  I TGS +LD  LG GG+  G + E +G   SGKT +A H +        N +  
Sbjct: 36  RQPISVIPTGSISLDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVA-------NAQAA 88
Query: 160 NGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSE 219
            G  A+ID E    P+     A++ G+D     D+++ ++  T E    +   L   +  
Sbjct: 89  GGIAAFIDAEHALDPE----YAKKLGVD----TDSLLVSQPDTGEQALEIADML---VRS 137
Query: 220 EPFRLLIVDSVIALF-RVDFTGRGELAD-----RQQKLGQMLSRLTKISEEFNVAVYMTN 273
               ++++DSV AL  R +    GE+ D     + + + Q L ++T             N
Sbjct: 138 GALDIIVIDSVAALVPRAEI--EGEMGDSHVGLQARLMSQALRKMTGALNNSGTTAIFIN 195
Query: 274 QVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRK 309
           Q+      GV    P+   GG  L    ++RL  R+
Sbjct: 196 QLREKI--GVMFGSPETTTGGKALKFYASVRLDVRR 229

>pdb|2ZRC|A Chain A, Msreca Q196n Form Iv Length = 349

Iteration: 1
 Score = 52.0 bits (123), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 58/219 (26%), Positives = 100/219 (45%), Gaps = 36/219 (16%)
Query: 102 RKAVIKITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLA-HTLCVCTQLPTNMRGG 159
           R+ +  I TGS +LD  LG GG+  G + E +G   SGKT +A H +        N +  
Sbjct: 36  RQPISVIPTGSISLDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVA-------NAQAA 88
Query: 160 NGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSE 219
            G  A+ID E    P+     A++ G+D     D+++ ++  T E    +   L   +  
Sbjct: 89  GGIAAFIDAEHALDPE----YAKKLGVD----TDSLLVSQPDTGEQALEIADML---VRS 137
Query: 220 EPFRLLIVDSVIALF-RVDFTGRGELAD-----RQQKLGQMLSRLT-KISEEFNVAVYMT 272
               ++++DSV AL  R +    GE+ D     + + + Q L ++T  ++     A+++ 
Sbjct: 138 GALDIIVIDSVAALVPRAEI--EGEMGDSHVGLQARLMSQALRKMTGALNNSGTTAIFIN 195
Query: 273 N--QVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRK 309
           N  + I     GV    P+   GG  L    ++RL  R+
Sbjct: 196 NLREKI-----GVMFGSPETTTGGKALKFYASVRLDVRR 229

>pdb|2ZR0|A Chain A, Msreca-Q196e Mutant Length = 349

Iteration: 1
 Score = 50.4 bits (119), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 56/216 (25%), Positives = 94/216 (43%), Gaps = 30/216 (13%)
Query: 102 RKAVIKITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLA-HTLCVCTQLPTNMRGG 159
           R+ +  I TGS +LD  LG GG+  G + E +G   SGKT +A H +        N +  
Sbjct: 36  RQPISVIPTGSISLDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVA-------NAQAA 88
Query: 160 NGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSE 219
            G  A+ID E    P+     A++ G+D     D+++ ++  T E    +   L   +  
Sbjct: 89  GGIAAFIDAEHALDPE----YAKKLGVD----TDSLLVSQPDTGEQALEIADML---VRS 137
Query: 220 EPFRLLIVDSVIALF-RVDFTGRGELAD-----RQQKLGQMLSRLTKISEEFNVAVYMTN 273
               ++++DSV AL  R +    GE+ D     + + + Q L ++T             N
Sbjct: 138 GALDIIVIDSVAALVPRAEI--EGEMGDSHVGLQARLMSQALRKMTGALNNSGTTAIFIN 195
Query: 274 QVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRK 309
           ++      GV    P+   GG  L    ++RL  R+
Sbjct: 196 ELREKI--GVMFGSPETTTGGKALKFYASVRLDVRR 229

>pdb|3HR8|A Chain A, Crystal Structure Of Thermotoga Maritima Reca Length = 356

Iteration: 1
 Score = 50.4 bits (119), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 71/250 (28%), Positives = 111/250 (44%), Gaps = 34/250 (13%)
Query: 74  EAKVEKICEAAEKIVNFGYITGSDALLRRKAVIK----ITTGSQALDELLG-GGIETGAI 128
           E + + + E A K +   +  GS  +L  +  ++    I TGS A+D   G GG   G I
Sbjct: 4   EKQKKSVLEKALKRIEENFGKGSIMILGDETQVQPVEVIPTGSLAIDIATGVGGYPRGRI 63
Query: 129 TEAFGEFRSGKTQLA-HTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMD 187
            E FG+  SGKT LA H +    ++        G  A+ID E    P      A+  G+D
Sbjct: 64  VEIFGQESSGKTTLALHAIAEAQKM-------GGVAAFIDAEHALDP----VYAKNLGVD 112
Query: 188 PGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALF-RVDFTGRGELAD 246
               L +++ ++    E    ++  L   +      L++VDSV AL  R +    G + D
Sbjct: 113 ----LKSLLISQPDHGEQALEIVDEL---VRSGVVDLIVVDSVAALVPRAEI--EGAMGD 163
Query: 247 RQQKL-GQMLSR-LTKISEEFN---VAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAV 301
            Q  L  +++S+ L KI+   N     V  TNQ+      GV    P+   GG  L    
Sbjct: 164 MQVGLQARLMSQALRKIAGSVNKSKAVVIFTNQIRMKI--GVMFGSPETTTGGLALKFYA 221
Query: 302 TIRLMFRKGK 311
           T+R+  R+G+
Sbjct: 222 TMRMEVRRGE 231

>pdb|2ZRH|A Chain A, Msreca Q196a Form Iv Length = 349

Iteration: 1
 Score = 49.3 bits (116), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 56/216 (25%), Positives = 93/216 (43%), Gaps = 30/216 (13%)
Query: 102 RKAVIKITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLA-HTLCVCTQLPTNMRGG 159
           R+ +  I TGS +LD  LG GG+  G + E +G   SGKT +A H +        N +  
Sbjct: 36  RQPISVIPTGSISLDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVA-------NAQAA 88
Query: 160 NGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSE 219
            G  A+ID E    P+     A++ G+D     D+++ ++  T E    +   L   +  
Sbjct: 89  GGIAAFIDAEHALDPE----YAKKLGVD----TDSLLVSQPDTGEQALEIADML---VRS 137
Query: 220 EPFRLLIVDSVIALF-RVDFTGRGELAD-----RQQKLGQMLSRLTKISEEFNVAVYMTN 273
               ++++DSV AL  R +    GE+ D     + + + Q L ++T             N
Sbjct: 138 GALDIIVIDSVAALVPRAEI--EGEMGDSHVGLQARLMSQALRKMTGALNNSGTTAIFIN 195
Query: 274 QVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRK 309
            +      GV    P+   GG  L    ++RL  R+
Sbjct: 196 ALREKI--GVMFGSPETTTGGKALKFYASVRLDVRR 229

>pdb|1XP8|A Chain A, "deinococcus Radiodurans Reca In Complex With Atp-Gamma-S" Length = 366

Iteration: 1
 Score = 44.7 bits (104), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 61/218 (27%), Positives = 84/218 (38%), Gaps = 46/218 (21%)
Query: 108 ITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYI 166
           ++TGS +LD  LG GGI  G ITE +G    GKT LA  +    Q         G  A+I
Sbjct: 55  VSTGSLSLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQAQ------KAGGTCAFI 108
Query: 167 DTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLA--AKMSEEPFRL 224
           D E                +DP       +YARA        LL+      + + E   L
Sbjct: 109 DAE--------------HALDP-------VYARALGVNTD-ELLVSQPDNGEQALEIMEL 146
Query: 225 LIVDSVI----ALFRVDFTGR----GELAD-----RQQKLGQMLSRLTKISEEFNVAVYM 271
           L+    I           T R    G++ D     + + + Q L +LT I  +   A   
Sbjct: 147 LVRSGAIDVVVVDSVAALTPRAEIEGDMGDSLPGLQARLMSQALRKLTAILSKTGTAAIF 206
Query: 272 TNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRK 309
            NQV      GV   +P+   GG  L    ++RL  RK
Sbjct: 207 INQVREKI--GVMYGNPETTTGGRALKFYASVRLDVRK 242

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	352
2z43_A	324	DNA repair and recombination protein RADA; archaea	1e-150
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	1e-145
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	1e-137
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	1e-125
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	1e-118
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	1e-113
2cvh_A	220	DNA repair and recombination protein RADB; filamen	4e-95
1b22_A	114	DNA repair protein RAD51; DNA binding, riken struc	3e-33
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	1e-10
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	1e-07
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	1e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-08
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	1e-07
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	2e-07
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	9e-07
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	1e-06
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	2e-06
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	2e-06
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	4e-06
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	4e-06
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	1e-06
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	1e-06
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	4e-06
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	4e-06
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	4e-06
1u94_A	356	RECA protein, recombinase A; homologous recombinat	3e-06
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	3e-06
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	5e-06
1xp8_A	366	RECA protein, recombinase A; recombination, radior	6e-06
1vq8_Y	241	50S ribosomal protein L32E; ribosome 50S, protein-	4e-05
3io5_A	333	Recombination and repair protein; storage dimer, i	7e-04

>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* Length = 324

 Score =  426 bits (1096), Expect = e-150
 Identities = 132/335 (39%), Positives = 197/335 (58%), Gaps = 13/335 (3%)

Query: 19  EDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVE 78
            +  +++   + I+ L   GI+   + KL +AG  +   L + + + L+   G+  +  +
Sbjct: 2   SNEVEQKKNIKTINDL--PGISQTVINKLIEAGYSSLETLAVASPQDLSVAAGIPLSTAQ 59

Query: 79  KICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSG 138
           KI + A   ++  + T  +    R  V KI+TGSQALD LL GGIET  +TE FGEF SG
Sbjct: 60  KIIKEARDALDIRFKTALEVKKERMNVKKISTGSQALDGLLAGGIETRTMTEFFGEFGSG 119

Query: 139 KTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYA 198
           KTQL H L V  QLP    G +GK  YIDTEGTFR +RI  +A+  G+D   V++NI Y 
Sbjct: 120 KTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIENMAKALGLDIDNVMNNIYYI 179

Query: 199 RAYTYEHQYNLLLGLAAKMSEE-PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSR 257
           RA   +HQ  ++  L   +S++   +L++VDSV + FR ++ GR  LA RQQKL + L +
Sbjct: 180 RAINTDHQIAIVDDLQELVSKDPSIKLIVVDSVTSHFRAEYPGRENLAVRQQKLNKHLHQ 239

Query: 258 LTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVC 317
           LT+++E +++AV +TNQV+A P   +F  DP    GGH L H   IR+  +K +G +R+ 
Sbjct: 240 LTRLAEVYDIAVIITNQVMARP--DMFYGDPTVAVGGHTLYHVPGIRIQLKKSRGNRRIA 297

Query: 318 KVFDAPNLPEAEAISFSYHIILIKITPGGIADAKD 352
           +V DAP+LPE E +          +T  GI DA++
Sbjct: 298 RVVDAPHLPEGEVV--------FALTEEGIRDAEE 324

>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 Length = 343

 Score =  412 bits (1060), Expect = e-145
 Identities = 200/350 (57%), Positives = 250/350 (71%), Gaps = 11/350 (3%)

Query: 6   KAEEQSQLQLVEREDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKH 65
              ++ Q+   E    D+EE LF+ ID L   GIN  D+KKL+  GI T  G+ M T++ 
Sbjct: 2   SHMKEDQVVAEEPGFQDEEESLFQDIDLLQKHGINVADIKKLKSVGICTIKGIQMTTRRA 61

Query: 66  LTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIET 125
           L  +KGLSEAKV+KI EAA K++  G++T  +   +RK V  ITTGSQ  D+LLGGGIE+
Sbjct: 62  LCNVKGLSEAKVDKIKEAANKLIEPGFLTAFEYSEKRKMVFHITTGSQEFDKLLGGGIES 121

Query: 126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFG 185
            AITEAFGEFR+GKTQL+HTLCV  QLP       GK+ +IDTE TFRPDR+  IA+RF 
Sbjct: 122 MAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRDIADRFN 181

Query: 186 MDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEE--PFRLLIVDSVIALFRVDFTGRGE 243
           +D  AVLDN++YARAYT EHQ  LL  +AAK  EE   F+LLI+DS++ALFRVDF+GRGE
Sbjct: 182 VDHDAVLDNVLYARAYTSEHQMELLDYVAAKFHEEAGIFKLLIIDSIMALFRVDFSGRGE 241

Query: 244 LADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGG-VFISDPKKPAGGHVLAHAVT 302
           LA+RQQKL QMLSRL KISEE+NVAV++TNQ+ ADPG    F +DPKKP GGH+LAHA T
Sbjct: 242 LAERQQKLAQMLSRLQKISEEYNVAVFVTNQMTADPGATMTFQADPKKPIGGHILAHAST 301

Query: 303 IRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADAKD 352
            R+  RKG+GE R+ K++D+P +PE EA           IT GGI DAK+
Sbjct: 302 TRISLRKGRGELRIAKIYDSPEMPENEAT--------FAITAGGIGDAKE 343

>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* Length = 400

 Score =  395 bits (1015), Expect = e-137
 Identities = 166/351 (47%), Positives = 234/351 (66%), Gaps = 9/351 (2%)

Query: 3   ATLKAEEQSQLQLVEREDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHT 62
             L+ + ++Q ++ +    +     F  I+KL   GI   DVKKL+++G++T   +    
Sbjct: 55  GGLQEQAEAQGEMEDEAYDEAALGSFVPIEKLQVNGITMADVKKLRESGLHTAEAVAYAP 114

Query: 63  KKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGG 122
           +K L  IKG+SEAK +K+   A ++V  G++T +D  +RR  +I +TTGS+ LD LLGGG
Sbjct: 115 RKDLLEIKGISEAKADKLLNEAARLVPMGFVTAADFHMRRSELICLTTGSKNLDTLLGGG 174

Query: 123 IETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAE 182
           +ETG+ITE FGEFR+GK+QL HTL V  Q+P ++ GG GK  YIDTEGTFRP R+V IA+
Sbjct: 175 VETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRLVSIAQ 234

Query: 183 RFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRG 242
           RFG+DP   L+N+ YARAY  +HQ  LL   A  MSE  F L++VDSV+AL+R DF+GRG
Sbjct: 235 RFGLDPDDALNNVAYARAYNADHQLRLLDAAAQMMSESRFSLIVVDSVMALYRTDFSGRG 294

Query: 243 ELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGG-VFISDPKKPAGGHVLAHAV 301
           EL+ RQ  L + +  L +++++F VAV +TNQV+A   GG  F  DPKKP GG+++A++ 
Sbjct: 295 ELSARQMHLAKFMRALQRLADQFGVAVVVTNQVVAQVDGGMAFNPDPKKPIGGNIMAYSS 354

Query: 302 TIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIADAKD 352
           T RL F+KGKG QR+CKV D+P LPEAE +          I   G+ D ++
Sbjct: 355 TTRLGFKKGKGCQRLCKVVDSPCLPEAECV--------FAIYEDGVGDPRE 397

>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 Length = 349

 Score =  362 bits (930), Expect = e-125
 Identities = 150/348 (43%), Positives = 208/348 (59%), Gaps = 18/348 (5%)

Query: 8   EEQSQLQLVEREDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLT 67
           E   +    E      +E +  +I+ L   G+     +KL++AG  T   + + +   L 
Sbjct: 14  ELGFEPATEETPKKKKKEKIIRSIEDL--PGVGPATAEKLREAGYDTLEAIAVASPIELK 71

Query: 68  GIKGLSEAKVEKICEAAEKIVNFGYI-TGSDALLRRKAVIKITTGSQALDELLGGGIETG 126
            + G+SE    KI +AA K  N G      + L +R  + +I+TGS++LD+LLGGGIET 
Sbjct: 72  EVAGISEGTALKIIQAARKAANLGTFMRADEYLKKRATIGRISTGSKSLDKLLGGGIETQ 131

Query: 127 AITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGM 186
           AITE FGEF SGKTQLAHTL V  QLP    G NG V +IDTE TFRP+RI  IA+  G+
Sbjct: 132 AITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERIREIAQNRGL 191

Query: 187 DPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSE-----EPFRLLIVDSVIALFRVDFTGR 241
           DP  VL +I  ARA+   HQ  L+     K+ E      P +LLIVDS+ + FR ++ GR
Sbjct: 192 DPDEVLKHIYVARAFNSNHQMLLVQQAEDKIKELLNTDRPVKLLIVDSLTSHFRSEYIGR 251

Query: 242 GELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAV 301
           G LA+RQQKL + L+ L +++  +++AV++TNQV A P    F  DP +P GGH+LAH+ 
Sbjct: 252 GALAERQQKLAKHLADLHRLANLYDIAVFVTNQVQARP--DAFFGDPTRPIGGHILAHSA 309

Query: 302 TIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGGIAD 349
           T+R+  RKGKG +R+ ++ DAP+LPE EA+          IT  GI D
Sbjct: 310 TLRVYLRKGKGGKRIARLIDAPHLPEGEAV--------FSITEKGIED 349

>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* Length = 322

 Score =  343 bits (881), Expect = e-118
 Identities = 128/324 (39%), Positives = 185/324 (57%), Gaps = 21/324 (6%)

Query: 37  QGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGS 96
            G+     +KL +AG      +   T   LT I+G+SE    K+   A  + + G+ +G 
Sbjct: 9   PGVGPSTAEKLVEAGYIDFMKIATATVGELTDIEGISEKAAAKMIMGARDLCDLGFKSGI 68

Query: 97  DALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNM 156
           D L +R  V K++T S  LD +LGGG+E+ ++TE  G F SGKTQ+ H  CV  Q P  +
Sbjct: 69  DLLKQRSTVWKLSTSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFL 128

Query: 157 R----------GGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQ 206
                          K  YIDTEGTFRP+RI+ +AE  G+D   VLDN   ARAY  + Q
Sbjct: 129 FYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQMAEHAGIDGQTVLDNTFVARAYNSDMQ 188

Query: 207 YNLLLGLAAKMSE-EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEF 265
                 +   + E    +L+++DS+ + FR ++TGRG+LA+RQQKLG+ ++ L K+++ F
Sbjct: 189 MLFAEKIEDLIQEGNNIKLVVIDSLTSTFRNEYTGRGKLAERQQKLGRHMATLNKLADLF 248

Query: 266 NVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNL 325
           N  V +TNQV A P    F    ++  GGH++ HA T R   RKGKG++RV K++D+P+L
Sbjct: 249 NCVVLVTNQVSAKP--DAFFGMAEQAIGGHIVGHAATFRFFVRKGKGDKRVAKLYDSPHL 306

Query: 326 PEAEAISFSYHIILIKITPGGIAD 349
           P+AEAI         +IT  GI D
Sbjct: 307 PDAEAI--------FRITEKGIQD 322

>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 Length = 243

 Score =  328 bits (842), Expect = e-113
 Identities = 137/249 (55%), Positives = 178/249 (71%), Gaps = 9/249 (3%)

Query: 105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVA 164
           +I+ITTGS+ LD+LL GGIETG+ITE FGEFR+GKTQ+ HTL V  QLP +  GG GK  
Sbjct: 3   IIQITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAM 62

Query: 165 YIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRL 224
           YIDTEGTFRP+R++ +AER+G+    VLDN+ YARA+  +HQ  LL   +A M E  + L
Sbjct: 63  YIDTEGTFRPERLLAVAERYGLSGSDVLDNVAYARAFNTDHQTQLLYQASAMMVESRYAL 122

Query: 225 LIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGG-V 283
           LIVDS  AL+R D++GRGEL+ RQ  L + L  L ++++EF VAV +TNQV+A   G  +
Sbjct: 123 LIVDSATALYRTDYSGRGELSARQMHLARFLRMLLRLADEFGVAVVITNQVVAQVDGAAM 182

Query: 284 FISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKIT 343
           F +DPKKP GG+++AHA T RL  RKG+GE R+CK++D+P LPEAEA  F        I 
Sbjct: 183 FAADPKKPIGGNIIAHASTTRLYLRKGRGETRICKIYDSPCLPEAEA-MF-------AIN 234

Query: 344 PGGIADAKD 352
             G+ DAKD
Sbjct: 235 ADGVGDAKD 243

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A* Length = 220

 Score =  281 bits (721), Expect = 4e-95
 Identities = 74/245 (30%), Positives = 112/245 (45%), Gaps = 27/245 (11%)

Query: 108 ITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYID 167
           ++TG+++LD LLGGG   G +T+ +G + SGKT LA    + +           KVAY+D
Sbjct: 2   LSTGTKSLDSLLGGGFAPGVLTQVYGPYASGKTTLALQTGLLSG---------KKVAYVD 52

Query: 168 TEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIV 227
           TEG F P+R+V +AE  G++P   L   I      ++ Q   ++G   K  +  F L++V
Sbjct: 53  TEGGFSPERLVQMAETRGLNPEEALSRFILFTPSDFKEQR-RVIGSLKKTVDSNFALVVV 111

Query: 228 DSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISD 287
           DS+ A +R +    G +A    +L + L  L  I+ + N+ V + NQV  D        +
Sbjct: 112 DSITAHYRAEENRSGLIA----ELSRQLQVLLWIARKHNIPVIVINQVHFDSRT-----E 162

Query: 288 PKKPAGGHVLAHAVTIRLMFRK-GKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGG 346
             KP     L +     L   K  K   RV  +      PE     F        IT  G
Sbjct: 163 MTKPVAEQTLGYRCKDILRLDKLPKPGLRVAVLERHRFRPEGLMAYFR-------ITERG 215

Query: 347 IADAK 351
           I D +
Sbjct: 216 IEDVE 220

>1b22_A DNA repair protein RAD51; DNA binding, riken structural genomics/proteomics initiative, RSGI, structural genomics, DNA binding protein; HET: DNA; NMR {Homo sapiens} SCOP: a.60.4.1 Length = 114

 Score =  118 bits (298), Expect = 3e-33
 Identities = 47/110 (42%), Positives = 67/110 (60%)

Query: 10  QSQLQLVEREDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGI 69
           Q QL+      +++E    + I +L   GINA DVKKL++AG +T   +    KK L  I
Sbjct: 4   QMQLEANADTSVEEESFGPQPISRLEQCGINANDVKKLEEAGFHTVEAVAYAPKKELINI 63

Query: 70  KGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELL 119
           KG+SEAK +KI   A K+V  G+ T ++   RR  +I+ITTGS+ LD+LL
Sbjct: 64  KGISEAKADKILAEAAKLVPMGFTTATEFHQRRSEIIQITTGSKELDKLL 113

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A* Length = 525

 Score = 61.5 bits (149), Expect = 1e-10
 Identities = 42/246 (17%), Positives = 81/246 (32%), Gaps = 39/246 (15%)

Query: 109 TTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDT 168
           ++G   LDE+ GGG    +I  A G   +GKT L       ++   N      +      
Sbjct: 264 SSGVVRLDEMCGGGFFKDSIILATGATGTGKTLLV------SRFVENACANKERAILFAY 317

Query: 169 EGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNL---LLGLAAKMSEEPFRLL 225
           E +    +++  A  +GMD   +    +      Y     L   L  + +++++     +
Sbjct: 318 EES--RAQLLRNAYSWGMDFEEMERQNLLKIVCAYPESAGLEDHLQIIKSEINDFKPARI 375

Query: 226 IVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFI 285
            +DS+ AL R                 Q +  +T  +++  +    TN      G     
Sbjct: 376 AIDSLSALAR---------GVSNNAFRQFVIGVTGYAKQEEITGLFTNTSDQFMGAHSI- 425

Query: 286 SDPKKPAGGHVLAHAVTIRLMFRKGKGEQ----RVCKVFDAPNLPEAEAISFSYHIILIK 341
                 +    +   + I L + + +GE      V K+  +              I    
Sbjct: 426 ----TDSHISTITDTI-ILLQYVEIRGEMSRAINVFKMRGSW---------HDKAIREFM 471

Query: 342 ITPGGI 347
           I+  G 
Sbjct: 472 ISDKGP 477

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A* Length = 525

 Score = 52.2 bits (125), Expect = 1e-07
 Identities = 41/239 (17%), Positives = 84/239 (35%), Gaps = 34/239 (14%)

Query: 93  ITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQL 152
           +T  +     +A+ K+ T  +  D++  GG+  G  T   G   +GKT  +         
Sbjct: 6   MTSPNNNSEHQAIAKMRTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLY---- 61

Query: 153 PTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDN--IIYARAYTYEHQY--- 207
              +   +    ++  E T  P  I+  A  FG D   ++D   +    A          
Sbjct: 62  -NGIIEFDEPGVFVTFEET--PQDIIKNARSFGWDLAKLVDEGKLFILDASPDPEGQEVV 118

Query: 208 ------NLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKI 261
                  L+  +   + +   R + +DSV ++F        +  D    + + L RL   
Sbjct: 119 GGFDLSALIERINYAIQKYRARRVSIDSVTSVF--------QQYDASSVVRRELFRLVAR 170

Query: 262 SEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRL-MFRKGKGEQRVCKV 319
            ++      MT + I + G         +      ++  V + L    +G+  +R  ++
Sbjct: 171 LKQIGATTVMTTERIEEYG------PIARYGVEEFVSDNV-VILRNVLEGERRRRTLEI 222

>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 = 52.9 bits (126), Expect = 9e-08
 Identities = 49/360 (13%), Positives = 109/360 (30%), Gaps = 93/360 (25%)

Query: 9   EQSQLQLVEREDIDD-------EEDLFEAIDKLISQGINA-----GDVKK-----LQDAG 51
           +     ++ +E+ID                  L+S+          +V +     L    
Sbjct: 39  QDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPI 98

Query: 52  IYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTG 111
                   M T+ +          + +++    +    +  ++      R +  +K+   
Sbjct: 99  KTEQRQPSMMTRMY--------IEQRDRLYNDNQVFAKY-NVS------RLQPYLKLR-- 141

Query: 112 SQALDEL-LGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG 170
            QAL EL     +    I    G   SGKT +A  +C+  ++   M   + K+ +++ + 
Sbjct: 142 -QALLELRPAKNV---LI---DGVLGSGKTWVALDVCLSYKVQCKM---DFKIFWLNLKN 191

Query: 171 TFRPDRIVPIAERF--GMDP-GAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFR--LL 225
              P+ ++ + ++    +DP      +               L  L   +  +P+   LL
Sbjct: 192 CNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRL---LKSKPYENCLL 248

Query: 226 IVDSV-----IALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPG 280
           ++ +V        F  +           + L  + +R           V  T+ + A   
Sbjct: 249 VLLNVQNAKAWNAF--NL--------SCKIL--LTTR--------FKQV--TDFLSAATT 286

Query: 281 GGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILI 340
             + +           L       L   K       C+  D P   E    +    + +I
Sbjct: 287 THISLDHHSMT-----LTPDEVKSL-LLKYLD----CRPQDLP--REVLTTN-PRRLSII 333

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii} Length = 247

 Score = 51.2 bits (123), Expect = 1e-07
 Identities = 48/265 (18%), Positives = 79/265 (29%), Gaps = 61/265 (23%)

Query: 107 KITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYI 166
           ++ TG   +DE+L GGI    +    G   +GKT  +       Q   N         Y+
Sbjct: 4   RVKTGIPGVDEILHGGIPERNVVLLSGGPGTGKTIFS------QQFLWNGLKMGEPGIYV 57

Query: 167 DTEGTFRPDRIVPIAERFGMDPGAVLDN--IIYARAYTYEHQY----------------N 208
             E    P ++     +FG D     +        A+T                      
Sbjct: 58  ALEEH--PVQVRQNMAQFGWDVKPYEEKGMFAMVDAFTAGIGKSKEYEKYIVHDLTDIRE 115

Query: 209 LLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVA 268
            +  L   + +   + ++VDSV  L+            R       + +L ++       
Sbjct: 116 FIEVLRQAIRDINAKRVVVDSVTTLYINK-----PAMARSI-----ILQLKRVLAGTGCT 165

Query: 269 VYMTNQVIADPGGGVFISDPKKPAGGHVLAHAV--TIRLMFRKGKGEQ----RVCKVFDA 322
               +QV          S  ++  GG  + H V   IRL   +  GE      V K+   
Sbjct: 166 SIFVSQV----------SVGERGFGGPGVEHGVDGIIRLDLDEIDGELKRSLIVWKMRGT 215

Query: 323 PNLPEAEAISFSYHIILIKITPGGI 347
            +                 IT  GI
Sbjct: 216 SHSMR---------RHPFDITDKGI 231

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2} Length = 235

 Score = 50.8 bits (122), Expect = 2e-07
 Identities = 44/208 (21%), Positives = 76/208 (36%), Gaps = 41/208 (19%)

Query: 107 KITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYI 166
           +++TG    D+L+ GGI  G      GE  +GKT  +                     Y+
Sbjct: 4   RLSTGILDFDKLIQGGIPQGFFIALTGEPGTGKTIFS------LHFIAKGLRDGDPCIYV 57

Query: 167 DTEGTFRPDRIVPIAERFGMDPGAVLDN---IIYARAYTYEHQYNLL----------LGL 213
            TE +   D I+  A++F  D    ++    II A     E Q++L+          +  
Sbjct: 58  TTEES--RDSIIRQAKQFNWDFEEYIEKKLIIIDALMKEKEDQWSLVNLTPEELVNKVIE 115

Query: 214 AAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTN 273
           A +        L++DSV ALF           D+     ++   L ++  ++N  +Y T+
Sbjct: 116 AKQKLGYGKARLVIDSVSALFL----------DKPAMARKISYYLKRVLNKWNFTIYATS 165

Query: 274 QVIADPGGGVFISDPKKPAGGHVLAHAV 301
           Q           +     A G  + H  
Sbjct: 166 QY----------AITTSQAFGFGVEHVA 183

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli} Length = 2050

 Score = 49.7 bits (119), Expect = 9e-07
 Identities = 72/313 (23%), Positives = 120/313 (38%), Gaps = 63/313 (20%)

Query: 18  REDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKV 77
              + D  +  + I+K + + + +         G                  +    A +
Sbjct: 630 TAWLKDNPETAKEIEKKVRELLLSNPNSTTGSTGSMGHT--TGAMSAIDENKQKALAAAL 687

Query: 78  EKICEAAEKIVNFGYITGSDALLRRKAVIK---ITTGSQALDELLG-GGIETGAITEAFG 133
            +I    EK   FG   GS   L     +    I+TGS +LD  LG GG+  G I E +G
Sbjct: 688 GQI----EK--QFG--KGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYG 739

Query: 134 EFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLD 193
              SGKT L        Q+    +      A+ID E    P      A + G+D    +D
Sbjct: 740 PESSGKTTLT------LQVIAAAQREGKTCAFIDAEHALDPI----YARKLGVD----ID 785

Query: 194 NIIYARAYTYEHQYNLLLGLAAKMSEEPFR-----LLIVDSVIALFRVDFTGR----GEL 244
           N++ ++  T E         A ++ +   R     +++VDSV AL     T +    GE+
Sbjct: 786 NLLCSQPDTGEQ--------ALEICDALARSGAVDVIVVDSVAAL-----TPKAEIEGEI 832

Query: 245 ADR----QQKL-GQMLSRLTKISEEFNVAVYMTNQV---IADPGGGVFISDPKKPAGGHV 296
            D       ++  Q + +L    ++ N  +   NQ+   I     GV   +P+   GG+ 
Sbjct: 833 GDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKI-----GVMFGNPETTTGGNA 887

Query: 297 LAHAVTIRLMFRK 309
           L    ++RL  R+
Sbjct: 888 LKFYASVRLDIRR 900

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli} Length = 2050

 Score = 49.3 bits (118), Expect = 1e-06
 Identities = 59/220 (26%), Positives = 95/220 (43%), Gaps = 50/220 (22%)

Query: 108 ITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYI 166
           I+TGS +LD  LG GG+  G I E +G   SGKT L        Q+    +      A+I
Sbjct: 15  ISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLT------LQVIAAAQREGKTCAFI 68

Query: 167 DTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFR--- 223
           D E    P      A + G+D    +DN++ ++  T E         A ++ +   R   
Sbjct: 69  DAEHALDPI----YARKLGVD----IDNLLCSQPDTGEQ--------ALEICDALARSGA 112

Query: 224 --LLIVDSVIALFRVDFTGR----GELADR----QQKL-GQMLSRLTKISEEFNVAVYMT 272
             +++VDSV AL     T +    GE+ D       ++  Q + +L    ++ N  +   
Sbjct: 113 VDVIVVDSVAAL-----TPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFI 167

Query: 273 NQV---IADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRK 309
           NQ+   I     GV   +P+   GG+ L    ++RL  R+
Sbjct: 168 NQIRMKI-----GVMFGNPETTTGGNALKFYASVRLDIRR 202

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli} Length = 2050

 Score = 48.9 bits (117), Expect = 2e-06
 Identities = 72/313 (23%), Positives = 120/313 (38%), Gaps = 63/313 (20%)

Query: 18   REDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKV 77
               + D  +  + I+K + + + +         G                  +    A +
Sbjct: 979  TAWLKDNPETAKEIEKKVRELLLSNPNSTTGSTGSM--ASTGSTGSAIDENKQKALAAAL 1036

Query: 78   EKICEAAEKIVNFGYITGSDALLRRKAVIK---ITTGSQALDELLG-GGIETGAITEAFG 133
             +I    EK   FG   GS   L     +    I+TGS +LD  LG GG+  G I E +G
Sbjct: 1037 GQI----EK--QFG--KGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYG 1088

Query: 134  EFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLD 193
               SGKT L        Q+    +      A+ID E    P      A + G+D    +D
Sbjct: 1089 PESSGKTTLT------LQVIAAAQREGKTCAFIDAEHALDPI----YARKLGVD----ID 1134

Query: 194  NIIYARAYTYEHQYNLLLGLAAKMSEEPFR-----LLIVDSVIALFRVDFTGR----GEL 244
            N++ ++  T E         A ++ +   R     +++VDSV AL     T +    GE+
Sbjct: 1135 NLLCSQPDTGEQ--------ALEICDALARSGAVDVIVVDSVAAL-----TPKAEIEGEI 1181

Query: 245  ADR----QQKL-GQMLSRLTKISEEFNVAVYMTNQV---IADPGGGVFISDPKKPAGGHV 296
             D       ++  Q + +L    ++ N  +   NQ+   I     GV   +P+   GG+ 
Sbjct: 1182 GDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKI-----GVMFGNPETTTGGNA 1236

Query: 297  LAHAVTIRLMFRK 309
            L    ++RL  R+
Sbjct: 1237 LKFYASVRLDIRR 1249

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli} Length = 2050

 Score = 48.5 bits (116), Expect = 2e-06
 Identities = 72/313 (23%), Positives = 123/313 (39%), Gaps = 64/313 (20%)

Query: 18   REDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKV 77
               + D  +  + I+K + + + +         G  +  G M    ++       +  ++
Sbjct: 1674 TAWLKDNPETAKEIEKKVRELLLSNPNSTTGSTGSGSSTGSMSAIDENKQKALAAALGQI 1733

Query: 78   EKICEAAEKIVNFGYITGSDALLRRKAVIK---ITTGSQALDELLG-GGIETGAITEAFG 133
            EK          FG   GS   L     +    I+TGS +LD  LG GG+  G I E +G
Sbjct: 1734 EK---------QFG--KGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYG 1782

Query: 134  EFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLD 193
               SGKT L        Q+    +      A+ID E    P      A + G+D    +D
Sbjct: 1783 PESSGKTTLT------LQVIAAAQREGKTCAFIDAEHALDPI----YARKLGVD----ID 1828

Query: 194  NIIYARAYTYEHQYNLLLGLAAKMSEEPFR-----LLIVDSVIALFRVDFTGR----GEL 244
            N++ ++  T E         A ++ +   R     +++VDSV AL     T +    GE+
Sbjct: 1829 NLLCSQPDTGEQ--------ALEICDALARSGAVDVIVVDSVAAL-----TPKAEIEGEI 1875

Query: 245  ADR----QQKL-GQMLSRLTKISEEFNVAVYMTNQV---IADPGGGVFISDPKKPAGGHV 296
             D       ++  Q + +L    ++ N  +   NQ+   I     GV   +P+   GG+ 
Sbjct: 1876 GDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKI-----GVMFGNPETTTGGNA 1930

Query: 297  LAHAVTIRLMFRK 309
            L    ++RL  R+
Sbjct: 1931 LKFYASVRLDIRR 1943

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli} Length = 2050

 Score = 48.1 bits (115), Expect = 4e-06
 Identities = 72/313 (23%), Positives = 121/313 (38%), Gaps = 63/313 (20%)

Query: 18  REDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKV 77
              + D  +  + I+K + + + +         G          +       +    A +
Sbjct: 281 TAWLKDNPETAKEIEKKVRELLLSNPNSTTGSTGSG--TTGSTGSMAIDENKQKALAAAL 338

Query: 78  EKICEAAEKIVNFGYITGSDALLRRKAVIK---ITTGSQALDELLG-GGIETGAITEAFG 133
            +I    EK   FG   GS   L     +    I+TGS +LD  LG GG+  G I E +G
Sbjct: 339 GQI----EK--QFG--KGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYG 390

Query: 134 EFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLD 193
              SGKT L        Q+    +      A+ID E    P      A + G+D    +D
Sbjct: 391 PESSGKTTLT------LQVIAAAQREGKTCAFIDAEHALDPI----YARKLGVD----ID 436

Query: 194 NIIYARAYTYEHQYNLLLGLAAKMSEEPFR-----LLIVDSVIALFRVDFTGR----GEL 244
           N++ ++  T E         A ++ +   R     +++VDSV AL     T +    GE+
Sbjct: 437 NLLCSQPDTGEQ--------ALEICDALARSGAVDVIVVDSVAAL-----TPKAEIEGEI 483

Query: 245 ADR----QQKL-GQMLSRLTKISEEFNVAVYMTNQV---IADPGGGVFISDPKKPAGGHV 296
            D       ++  Q + +L    ++ N  +   NQ+   I     GV   +P+   GG+ 
Sbjct: 484 GDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKI-----GVMFGNPETTTGGNA 538

Query: 297 LAHAVTIRLMFRK 309
           L    ++RL  R+
Sbjct: 539 LKFYASVRLDIRR 551

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli} Length = 2050

 Score = 48.1 bits (115), Expect = 4e-06
 Identities = 59/220 (26%), Positives = 95/220 (43%), Gaps = 50/220 (22%)

Query: 108  ITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYI 166
            I+TGS +LD  LG GG+  G I E +G   SGKT L        Q+    +      A+I
Sbjct: 1408 ISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLT------LQVIAAAQREGKTCAFI 1461

Query: 167  DTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFR--- 223
            D E    P      A + G+D    +DN++ ++  T E         A ++ +   R   
Sbjct: 1462 DAEHALDPI----YARKLGVD----IDNLLCSQPDTGEQ--------ALEICDALARSGA 1505

Query: 224  --LLIVDSVIALFRVDFTGR----GELADR----QQKL-GQMLSRLTKISEEFNVAVYMT 272
              +++VDSV AL     T +    GE+ D       ++  Q + +L    ++ N  +   
Sbjct: 1506 VDVIVVDSVAAL-----TPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFI 1560

Query: 273  NQV---IADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRK 309
            NQ+   I     GV   +P+   GG+ L    ++RL  R+
Sbjct: 1561 NQIRMKI-----GVMFGNPETTTGGNALKFYASVRLDIRR 1595

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A* Length = 1706

 Score = 49.7 bits (119), Expect = 1e-06
 Identities = 59/220 (26%), Positives = 95/220 (43%), Gaps = 50/220 (22%)

Query: 108 ITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYI 166
           I+TGS +LD  LG GG+  G I E +G   SGKT L        Q+    +      A+I
Sbjct: 15  ISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLT------LQVIAAAQREGKTCAFI 68

Query: 167 DTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFR--- 223
           D E    P      A + G+D    +DN++ ++  T E         A ++ +   R   
Sbjct: 69  DAEHALDPI----YARKLGVD----IDNLLCSQPDTGEQ--------ALEICDALARSGA 112

Query: 224 --LLIVDSVIALFRVDFTGR----GELADR----QQKL-GQMLSRLTKISEEFNVAVYMT 272
             +++VDSV AL     T +    GE+ D       ++  Q + +L    ++ N  +   
Sbjct: 113 VDVIVVDSVAAL-----TPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFI 167

Query: 273 NQV---IADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRK 309
           NQ+   I     GV   +P+   GG+ L    ++RL  R+
Sbjct: 168 NQIRMKI-----GVMFGNPETTTGGNALKFYASVRLDIRR 202

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A* Length = 1706

 Score = 49.3 bits (118), Expect = 1e-06
 Identities = 71/313 (22%), Positives = 120/313 (38%), Gaps = 63/313 (20%)

Query: 18  REDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKV 77
              + D  +  + I+K + + + +            +               +    A +
Sbjct: 630 TAWLKDNPETAKEIEKKVRELLLSNPNSTTGS--TGSMGHTTGSMSAIDENKQKALAAAL 687

Query: 78  EKICEAAEKIVNFGYITGSDALLRRKAVIK---ITTGSQALDELLG-GGIETGAITEAFG 133
            +I    EK   FG   GS   L     +    I+TGS +LD  LG GG+  G I E +G
Sbjct: 688 GQI----EK--QFG--KGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYG 739

Query: 134 EFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLD 193
              SGKT L        Q+    +      A+ID E    P      A + G+D    +D
Sbjct: 740 PESSGKTTLT------LQVIAAAQREGKTCAFIDAEHALDPI----YARKLGVD----ID 785

Query: 194 NIIYARAYTYEHQYNLLLGLAAKMSEEPFR-----LLIVDSVIALFRVDFTGR----GEL 244
           N++ ++  T E         A ++ +   R     +++VDSV AL     T +    GE+
Sbjct: 786 NLLCSQPDTGEQ--------ALEICDALARSGAVDVIVVDSVAAL-----TPKAEIEGEI 832

Query: 245 ADR----QQKL-GQMLSRLTKISEEFNVAVYMTNQV---IADPGGGVFISDPKKPAGGHV 296
            D       ++  Q + +L    ++ N  +   NQ+   I     GV   +P+   GG+ 
Sbjct: 833 GDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKI-----GVMFGNPETTTGGNA 887

Query: 297 LAHAVTIRLMFRK 309
           L    ++RL  R+
Sbjct: 888 LKFYASVRLDIRR 900

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A* Length = 1706

 Score = 47.8 bits (114), Expect = 4e-06
 Identities = 72/313 (23%), Positives = 121/313 (38%), Gaps = 63/313 (20%)

Query: 18  REDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKV 77
              + D  +  + I+K + + + +         G          +       +    A +
Sbjct: 281 TAWLKDNPETAKEIEKKVRELLLSNPNSTTGSTGSG--TTGSTGSMAIDENKQKALAAAL 338

Query: 78  EKICEAAEKIVNFGYITGSDALLRRKAVIK---ITTGSQALDELLG-GGIETGAITEAFG 133
            +I    EK   FG   GS   L     +    I+TGS +LD  LG GG+  G I E +G
Sbjct: 339 GQI----EK--QFG--KGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYG 390

Query: 134 EFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLD 193
              SGKT L        Q+    +      A+ID E    P      A + G+D    +D
Sbjct: 391 PESSGKTTLT------LQVIAAAQREGKTCAFIDAEHALDPI----YARKLGVD----ID 436

Query: 194 NIIYARAYTYEHQYNLLLGLAAKMSEEPFR-----LLIVDSVIALFRVDFTGR----GEL 244
           N++ ++  T E         A ++ +   R     +++VDSV AL     T +    GE+
Sbjct: 437 NLLCSQPDTGEQ--------ALEICDALARSGAVDVIVVDSVAAL-----TPKAEIEGEI 483

Query: 245 ADR----QQKL-GQMLSRLTKISEEFNVAVYMTNQV---IADPGGGVFISDPKKPAGGHV 296
            D       ++  Q + +L    ++ N  +   NQ+   I     GV   +P+   GG+ 
Sbjct: 484 GDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKI-----GVMFGNPETTTGGNA 538

Query: 297 LAHAVTIRLMFRK 309
           L    ++RL  R+
Sbjct: 539 LKFYASVRLDIRR 551

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A* Length = 1706

 Score = 47.8 bits (114), Expect = 4e-06
 Identities = 59/220 (26%), Positives = 95/220 (43%), Gaps = 50/220 (22%)

Query: 108  ITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYI 166
            I+TGS +LD  LG GG+  G I E +G   SGKT L        Q+    +      A+I
Sbjct: 1412 ISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLT------LQVIAAAQREGKTCAFI 1465

Query: 167  DTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFR--- 223
            D E    P      A + G+D    +DN++ ++  T E         A ++ +   R   
Sbjct: 1466 DAEHALDPI----YARKLGVD----IDNLLCSQPDTGEQ--------ALEICDALARSGA 1509

Query: 224  --LLIVDSVIALFRVDFTGR----GELADR----QQKL-GQMLSRLTKISEEFNVAVYMT 272
              +++VDSV AL     T +    GE+ D       ++  Q + +L    ++ N  +   
Sbjct: 1510 VDVIVVDSVAAL-----TPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFI 1564

Query: 273  NQV---IADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRK 309
            NQ+   I     GV   +P+   GG+ L    ++RL  R+
Sbjct: 1565 NQIRMKI-----GVMFGNPETTTGGNALKFYASVRLDIRR 1599

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A* Length = 1706

 Score = 47.8 bits (114), Expect = 4e-06
 Identities = 59/220 (26%), Positives = 95/220 (43%), Gaps = 50/220 (22%)

Query: 108  ITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYI 166
            I+TGS +LD  LG GG+  G I E +G   SGKT L        Q+    +      A+I
Sbjct: 1063 ISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLT------LQVIAAAQREGKTCAFI 1116

Query: 167  DTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFR--- 223
            D E    P      A + G+D    +DN++ ++  T E         A ++ +   R   
Sbjct: 1117 DAEHALDPI----YARKLGVD----IDNLLCSQPDTGEQ--------ALEICDALARSGA 1160

Query: 224  --LLIVDSVIALFRVDFTGR----GELADR----QQKL-GQMLSRLTKISEEFNVAVYMT 272
              +++VDSV AL     T +    GE+ D       ++  Q + +L    ++ N  +   
Sbjct: 1161 VDVIVVDSVAAL-----TPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFI 1215

Query: 273  NQV---IADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRK 309
            NQ+   I     GV   +P+   GG+ L    ++RL  R+
Sbjct: 1216 NQIRMKI-----GVMFGNPETTTGGNALKFYASVRLDIRR 1250

>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 Length = 356

 Score = 47.3 bits (113), Expect = 3e-06
 Identities = 59/220 (26%), Positives = 95/220 (43%), Gaps = 50/220 (22%)

Query: 108 ITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYI 166
           I+TGS +LD  LG GG+  G I E +G   SGKT L        Q+    +      A+I
Sbjct: 44  ISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLT------LQVIAAAQREGKTCAFI 97

Query: 167 DTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFR--- 223
           D E    P      A + G+D    +DN++ ++  T E         A ++ +   R   
Sbjct: 98  DAEHALDPI----YARKLGVD----IDNLLCSQPDTGEQ--------ALEICDALARSGA 141

Query: 224 --LLIVDSVIALFRVDFTGR----GELADR----QQKL-GQMLSRLTKISEEFNVAVYMT 272
             +++VDSV AL     T +    GE+ D       ++  Q + +L    ++ N  +   
Sbjct: 142 VDVIVVDSVAAL-----TPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFI 196

Query: 273 NQV---IADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRK 309
           NQ+   I     GV   +P+   GG+ L    ++RL  R+
Sbjct: 197 NQIRMKI-----GVMFGNPETTTGGNALKFYASVRLDIRR 231

>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* ... Length = 349

 Score = 47.3 bits (113), Expect = 3e-06
 Identities = 58/220 (26%), Positives = 92/220 (41%), Gaps = 50/220 (22%)

Query: 108 ITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYI 166
           I TGS +LD  LG GG+  G + E +G   SGKT +A           N +   G  A+I
Sbjct: 42  IPTGSISLDVALGIGGLPRGRVIEIYGPESSGKTTVA------LHAVANAQAAGGIAAFI 95

Query: 167 DTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFR--- 223
           D E    P+     A++ G+D     D+++ ++  T E         A ++++   R   
Sbjct: 96  DAEHALDPE----YAKKLGVD----TDSLLVSQPDTGEQ--------ALEIADMLVRSGA 139

Query: 224 --LLIVDSVIALFRVDFTGR----GELADR----QQKL-GQMLSRLTKISEEFNVAVYMT 272
             ++++DSV AL       R    GE+ D     Q +L  Q L ++T             
Sbjct: 140 LDIIVIDSVAAL-----VPRAEIEGEMGDSHVGLQARLMSQALRKMTGALNNSGTTAIFI 194

Query: 273 NQV---IADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRK 309
           N++   I     GV    P+   GG  L    ++RL  R+
Sbjct: 195 NELREKI-----GVMFGSPETTTGGKALKFYASVRLDVRR 229

>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} Length = 356

 Score = 47.0 bits (112), Expect = 5e-06
 Identities = 62/220 (28%), Positives = 88/220 (40%), Gaps = 50/220 (22%)

Query: 108 ITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYI 166
           I TGS A+D   G GG   G I E FG+  SGKT LA             +   G  A+I
Sbjct: 42  IPTGSLAIDIATGVGGYPRGRIVEIFGQESSGKTTLA------LHAIAEAQKMGGVAAFI 95

Query: 167 DTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFR--- 223
           D E    P      A+  G+D    L +++ ++    E         A ++ +E  R   
Sbjct: 96  DAEHALDPV----YAKNLGVD----LKSLLISQPDHGEQ--------ALEIVDELVRSGV 139

Query: 224 --LLIVDSVIALFRVDFTGR----GELADR----QQKL-GQMLSRLTKISEEFNVAVYMT 272
             L++VDSV AL       R    G + D     Q +L  Q L ++     +    V  T
Sbjct: 140 VDLIVVDSVAAL-----VPRAEIEGAMGDMQVGLQARLMSQALRKIAGSVNKSKAVVIFT 194

Query: 273 NQV---IADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRK 309
           NQ+   I     GV    P+   GG  L    T+R+  R+
Sbjct: 195 NQIRMKI-----GVMFGSPETTTGGLALKFYATMRMEVRR 229

>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 Length = 366

 Score = 46.6 bits (111), Expect = 6e-06
 Identities = 65/220 (29%), Positives = 92/220 (41%), Gaps = 50/220 (22%)

Query: 108 ITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYI 166
           ++TGS +LD  LG GGI  G ITE +G    GKT LA        +    +   G  A+I
Sbjct: 55  VSTGSLSLDLALGVGGIPRGRITEIYGPESGGKTTLA------LAIVAQAQKAGGTCAFI 108

Query: 167 DTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFR--- 223
           D E    P      A   G++     D ++ ++    E         A ++ E   R   
Sbjct: 109 DAEHALDPV----YARALGVN----TDELLVSQPDNGEQ--------ALEIMELLVRSGA 152

Query: 224 --LLIVDSVIALFRVDFTGR----GELADR----QQKL-GQMLSRLTKISEEFNVAVYMT 272
             +++VDSV AL     T R    G++ D     Q +L  Q L +LT I  +   A    
Sbjct: 153 IDVVVVDSVAAL-----TPRAEIEGDMGDSLPGLQARLMSQALRKLTAILSKTGTAAIFI 207

Query: 273 NQV---IADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRK 309
           NQV   I     GV   +P+   GG  L    ++RL  RK
Sbjct: 208 NQVREKI-----GVMYGNPETTTGGRALKFYASVRLDVRK 242

>1vq8_Y 50S ribosomal protein L32E; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: c.9.2.1 PDB: 1vq4_Y* 1vq5_Y* 1vq6_Y* 1vq7_Y* 1s72_Y* 1vq9_Y* 1vqk_Y* 1vql_Y* 1vqm_Y* 1vqn_Y* 1vqo_Y* 1vqp_Y* 1yhq_Y* 1yi2_Y* 1yij_Y* 1yit_Y* 1yj9_Y* 1yjn_Y* 1yjw_Y* 2otj_Y* ... Length = 241

 Score = 43.7 bits (102), Expect = 4e-05
 Identities = 18/117 (15%), Positives = 45/117 (38%), Gaps = 11/117 (9%)

Query: 15  LVEREDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSE 74
           + + E+  + E+ +  +  +   G+     + L++AG  +   +    +  L  + G+  
Sbjct: 1   MADNEEDVEAEEEYTELTDI--SGVGPSKAESLREAGFESVEDVRGADQSALADVSGIGN 58

Query: 75  AKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEA 131
           A   +I              G +     +A ++   G +A DE +   ++   +TE 
Sbjct: 59  ALAARIKADVG---------GLEVESETEAEVEEEGGEEAPDEDVETELQARGLTEK 106

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4} Length = 333

 Score = 40.2 bits (94), Expect = 7e-04
 Identities = 30/217 (13%), Positives = 64/217 (29%), Gaps = 38/217 (17%)

Query: 108 ITTGSQALDELLG----GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKV 163
           + T    ++  L     GG+++G +    G  +S K+    T+          +  +   
Sbjct: 7   VRTKIPMMNIALSGEITGGMQSGLLI-LAGPSKSFKSNFGLTMVSSYM----RQYPDAVC 61

Query: 164 AYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFR 223
            + D+E    P          G+DP    + +I+    + E     ++     +      
Sbjct: 62  LFYDSEFGITPA----YLRSMGVDP----ERVIHTPVQSLEQLRIDMVNQLDAIERGEKV 113

Query: 224 LLIVDSVIALFRVDFTGRGELAD-----------RQQKLGQMLSRLTKISEEFNVAVYMT 272
           ++ +DS+  L       + E  D           R + +  +   +T      N+     
Sbjct: 114 VVFIDSLGNL-----ASKKETEDALNEKVVSDMTRAKTMKSLFRIVTPYFSTKNIPCIAI 168

Query: 273 NQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRK 309
           N         +F    K   GG          +    
Sbjct: 169 NHTYET--QEMF---SKTVMGGGTGPMYSADTVFIIG 200

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	352
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	100.0
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	100.0
2z43_A	324	DNA repair and recombination protein RADA; archaea	100.0
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	100.0
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	100.0
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	100.0
4a74_A	231	DNA repair and recombination protein RADA; hydrola	100.0
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	100.0
2cvh_A	220	DNA repair and recombination protein RADB; filamen	100.0
3io5_A	333	Recombination and repair protein; storage dimer, i	100.0
1u94_A	356	RECA protein, recombinase A; homologous recombinat	99.98
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	99.97
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	99.97
1xp8_A	366	RECA protein, recombinase A; recombination, radior	99.97
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	99.97
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	99.96
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	99.95
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	99.95
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	99.95
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	99.95
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	99.94
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	99.94
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	99.93
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	99.93
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	99.93
2r6a_A	454	DNAB helicase, replicative helicase; replication,	99.92
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	99.9
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	99.88
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	99.87
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	99.84
3bs4_A	260	Uncharacterized protein PH0321; structural genomic	99.82
1b22_A	114	DNA repair protein RAD51; DNA binding, riken struc	99.74
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	99.73
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	99.52
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	98.96
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	98.92
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	98.91
1g6h_A	257	High-affinity branched-chain amino acid transport	98.87
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	98.86
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	98.84
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	98.81
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	98.8
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	98.77
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	98.75
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	98.72
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	98.71
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	98.71
1b0u_A	262	Histidine permease; ABC transporter, transport pro	98.71
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	98.7
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	98.7
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	98.69
1ji0_A	240	ABC transporter; ATP binding protein, structural g	98.68
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	98.65
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	98.64
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	98.64
1sgw_A	214	Putative ABC transporter; structural genomics, P p	98.61
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	98.61
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	98.6
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	98.59
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	98.58
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	98.56
2kz3_A	83	Putative uncharacterized protein RAD51L3; RAD51D,	98.55
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	98.55
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	98.49
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	98.49
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	98.49
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	98.49
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	98.48
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.48
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	98.45
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	98.44
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	98.42
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	98.38
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	98.36
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	98.34
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	98.33
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	98.33
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	98.32
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	98.31
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	98.31
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	98.29
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	98.28
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	98.27
2ghi_A	260	Transport protein; multidrug resistance protein, M	98.26
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	98.25
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	98.25
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	98.24
1u9l_A	70	Transcription elongation protein NUSA; escherichia	98.23
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	98.21
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	98.21
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	98.21
4a8j_A	361	Elongator complex protein 4; transcription; 2.10A	98.2
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	98.19
1wcn_A	70	Transcription elongation protein NUSA; RNA-binding	98.19
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.19
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	98.19
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	98.19
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	98.19
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	98.19
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	98.17
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	98.16
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	98.15
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	98.14
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	98.14
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	98.13
2og2_A	359	Putative signal recognition particle receptor; nuc	98.13
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	98.12
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	98.09
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	98.07
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	97.98
2eyu_A	261	Twitching motility protein PILT; pilus retraction	97.98
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	97.97
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	97.97
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	97.97
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	97.94
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	97.94
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	97.93
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	97.9
3bos_A	242	Putative DNA replication factor; P-loop containing	97.9
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	97.89
3thx_B	918	DNA mismatch repair protein MSH3; ABC family ATPas	97.88
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.86
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	97.86
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	97.83
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	97.82
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	97.82
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	97.81
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	97.8
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	97.79
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	97.79
1w4r_A	195	Thymidine kinase; type II, human, cytosolic, phosp	97.78
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	97.78
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	97.78
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	97.77
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.74
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	97.72
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	97.72
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	97.72
4aby_A	415	DNA repair protein RECN; hydrolase, double strand	97.72
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	97.71
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	97.71
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	97.7
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	97.7
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	97.69
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	97.68
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	97.68
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	97.65
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	97.65
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	97.65
3ice_A	422	Transcription termination factor RHO; transcriptio	97.64
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	97.63
3e2i_A	219	Thymidine kinase; Zn-binding, ATP-binding, DNA syn	97.61
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.61
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	97.59
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	97.59
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.59
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	97.57
2ewv_A	372	Twitching motility protein PILT; pilus retraction	97.57
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	97.57
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	97.56
3pih_A	916	Uvrabc system protein A; hydrolase, ABC ATPase, DN	97.54
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	97.54
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	97.53
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	97.52
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	97.51
2r6f_A	972	Excinuclease ABC subunit A; UVRA, nucleotide excis	97.51
1e69_A	322	Chromosome segregation SMC protein; structural mai	97.5
2o8b_B	1022	DNA mismatch repair protein MSH6; DNA damage respo	97.5
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	97.49
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	97.49
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	97.48
1wb9_A	800	DNA mismatch repair protein MUTS; DNA-binding, ATP	97.48
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	97.48
2vf7_A	842	UVRA2, excinuclease ABC, subunit A.; DNA-binding p	97.47
2ygr_A	993	Uvrabc system protein A; hydrolase, nucleotide exc	97.44
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	97.44
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	97.43
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	97.4
2xxa_A	433	Signal recognition particle protein; protein trans	97.39
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	97.36
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	97.36
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	97.33
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	97.33
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	97.31
2chg_A	226	Replication factor C small subunit; DNA-binding pr	97.31
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	97.3
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	97.28
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	97.28
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	97.27
3vr4_A	600	V-type sodium ATPase catalytic subunit A; V-ATPase	97.27
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	97.25
2ius_A	512	DNA translocase FTSK; nucleotide-binding, chromoso	97.23
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	97.23
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	97.23
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	97.22
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	97.2
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	97.2
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	97.2
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	97.19
1ewq_A	765	DNA mismatch repair protein MUTS; multiple domains	97.16
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.13
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	97.12
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	97.12
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	97.12
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	97.11
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	97.11
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	97.11
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	97.09
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	97.09
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	97.08
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	97.08
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	97.06
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	97.06
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	97.01
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	97.01
3gqb_A	578	V-type ATP synthase alpha chain; A3B3, V-ATPase, A	97.01
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.0
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	96.99
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	96.99
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	96.97
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	96.96
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.94
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.93
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	96.93
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	96.93
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.93
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.89
3l0o_A	427	Transcription termination factor RHO; helicase, RH	96.88
1tue_A	212	Replication protein E1; helicase, replication, E1E	96.88
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	96.87
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.86
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.84
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	96.81
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.81
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.81
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	96.8
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	96.79
3zq6_A	324	Putative arsenical pump-driving ATPase; tail-ancho	96.78
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.78
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.77
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	96.76
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	96.75
1p9r_A	418	General secretion pathway protein E; bacterial typ	96.73
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	96.73
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	96.73
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	96.72
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	96.71
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	96.71
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.7
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.68
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	96.68
3cio_A	299	ETK, tyrosine-protein kinase ETK; WZC, escherichia	96.67
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.67
3gfk_B	79	DNA-directed RNA polymerase subunit alpha; protein	96.67
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	96.66
3pvs_A	447	Replication-associated recombination protein A; ma	96.65
2iut_A	574	DNA translocase FTSK; nucleotide-binding, chromoso	96.64
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.63
1z3e_B	73	DNA-directed RNA polymerase alpha chain; bacterial	96.57
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.54
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	96.51
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	96.51
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.5
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	96.5
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	96.47
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.46
3ug7_A	349	Arsenical pump-driving ATPase; tail-anchored, memb	96.46
1hyq_A	263	MIND, cell division inhibitor (MIND-1); MINC, FTSZ	96.46
3k4g_A	86	DNA-directed RNA polymerase subunit alpha; bacteri	96.46
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	96.45
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	96.43
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	96.42
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	96.4
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.4
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	96.38
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.38
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.38
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.36
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.36
1oft_A	161	SULA, hypothetical protein PA3008; bacterial cell	96.35
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.34
3kta_A	182	Chromosome segregation protein SMC; structural mai	96.33
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.3
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	96.29
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	96.29
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.28
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.28
2qgz_A	308	Helicase loader, putative primosome component; str	96.26
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	96.26
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.24
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.24
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	96.21
2ph1_A	262	Nucleotide-binding protein; alpha-beta protein, st	96.2
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.18
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	96.15
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.14
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	96.14
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	96.12
1g3q_A	237	MIND ATPase, cell division inhibitor; alpha-beta-a	96.09
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	96.07
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.06
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.05
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.05
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	96.05
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.04
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	96.02
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.01
3q9l_A	260	Septum site-determining protein MIND; ATPase, bact	95.99
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	95.98
1coo_A	98	RNA polymerase alpha subunit; transcription regula	95.98
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	95.97
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	95.96
1wcv_1	257	SOJ, segregation protein; ATPase, bacterial, chrom	95.96
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	95.95
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	95.91
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	95.9
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	95.88
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	95.88
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	95.88
2vli_A	183	Antibiotic resistance protein; transferase, tunica	95.88
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	95.87
3igf_A	374	ALL4481 protein; two-domained protein consisting o	95.87
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	95.87
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	95.85
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	95.84
4ag6_A	392	VIRB4 ATPase, type IV secretory pathway VIRB4 comp	95.83
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	95.83
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	95.82
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	95.81
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	95.8
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	95.78
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	95.78
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	95.77
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	95.77
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	95.77
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	95.76
3la6_A	286	Tyrosine-protein kinase WZC; P-loop protein, nucle	95.7
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	95.69
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	95.68
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	95.67
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	95.66
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	95.66
2va8_A	715	SSO2462, SKI2-type helicase; hydrolase, DNA repair	95.66
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	95.62
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.61
1via_A	175	Shikimate kinase; structural genomics, transferase	95.61
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	95.61
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	95.61
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	95.61
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	95.61
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	95.59
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	95.55
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	95.54
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	95.53
3end_A	307	Light-independent protochlorophyllide reductase ir	95.52
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	95.52
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	95.5
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	95.48
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	95.47
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	95.47
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	95.44
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	95.44
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	95.4
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	95.4
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	95.38
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	95.38
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	95.37
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	95.35
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	95.35
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	95.31
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	95.3
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	95.29
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	95.27
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	95.26
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	95.24
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	95.22
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	95.22
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	95.22
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	95.19
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	95.19
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	95.19
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	95.18
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	95.17
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	95.17
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	95.17
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	95.16
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	95.14
2woj_A	354	ATPase GET3; tail-anchored, membrane protein, targ	95.13
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	95.12
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	95.12
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	95.12
2fna_A	357	Conserved hypothetical protein; structural genomic	95.1
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	95.1
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	95.08
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	95.08
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	95.06
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	95.05
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	95.05
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	95.01
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	95.0
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	95.0
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	95.0
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	94.96
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	94.94
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	94.93
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	94.89
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	94.89
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	94.88
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	94.87
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	94.86
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	94.86
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	94.84
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	94.84
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	94.84
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	94.83
2zj8_A	720	DNA helicase, putative SKI2-type helicase; RECA fo	94.83
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	94.76
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	94.75
1w1w_A	430	Structural maintenance of chromosome 1; cohesin, c	94.75
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	94.74
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	94.74
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	94.69
2o5v_A	359	DNA replication and repair protein RECF; ABC ATPas	94.66
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	94.65
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	94.63
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	94.63
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	94.62
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	94.61
2v6i_A	431	RNA helicase; membrane, hydrolase, transmembrane,	94.59
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	94.58
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	94.58
3fwy_A	314	Light-independent protochlorophyllide reductase I	94.54
4f92_B	1724	U5 small nuclear ribonucleoprotein 200 kDa helica;	94.54
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	94.5
2p6r_A	702	Afuhel308 helicase; protein-DNA complex, SF2 helic	94.46
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	94.45
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	94.45
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	94.45
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	94.44
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	94.44
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	94.43
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	94.43
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	94.37
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	94.36
1qhl_A	227	Protein (cell division protein MUKB); SMC, chromos	94.35
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	94.33
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	94.3
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	94.28
2r44_A	331	Uncharacterized protein; putative ATPase, structur	94.27
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	94.26
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	94.2
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	94.1
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	94.08
3co5_A	143	Putative two-component system transcriptional RES	94.06
2woo_A	329	ATPase GET3; tail-anchored, membrane protein, targ	94.01
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	93.99
2wji_A	165	Ferrous iron transport protein B homolog; membrane	93.97
2chq_A	319	Replication factor C small subunit; DNA-binding pr	93.96
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	93.94
3cwq_A	209	Para family chromosome partitioning protein; alpha	93.92
1e9r_A	437	Conjugal transfer protein TRWB; coupling protein,	93.92
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	93.92
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	93.9
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	93.89
2oze_A	298	ORF delta'; para, walker type atpases, DNA segrega	93.88
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	93.81
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	93.78
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	93.78
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	93.76
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	93.74
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	93.6
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	93.57
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	93.55
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	93.48
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	93.47
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	93.45
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	93.39
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	93.33
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	93.32
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	93.29
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	93.29
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	93.26
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	93.22
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	93.08
2hf9_A	226	Probable hydrogenase nickel incorporation protein	93.08
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	93.07
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	93.06
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	93.05
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	93.0
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	92.99
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	92.94
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	92.9
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	92.9
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	92.9
2ged_A	193	SR-beta, signal recognition particle receptor beta	92.89
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	92.87
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	92.84
3qkt_A	339	DNA double-strand break repair RAD50 ATPase; RECA-	92.83
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	92.82
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	92.82

>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=100.00  E-value=6.7e-57  Score=430.59  Aligned_cols=325  Identities=50%  Similarity=0.849  Sum_probs=278.0

Q ss_pred             cccccchhhhcHHHHHhCCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHHHHhhcCCCchhhhH
Q 047388           20 DIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSDAL   99 (352)
Q Consensus        20 ~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   99 (352)
                      .+|++...+.++++|+.+||++.++++|+++||+|+++++..++.+|++++|+++.++.++++.+++.++.+|.+|.+++
T Consensus        72 ~~~~~~~~~~~~~~l~~~gi~~~~~~~L~~ag~~tv~~~~~~~~~~L~~~~gis~~~~~~i~~~a~~~~~~~~~ta~~l~  151 (400)
T 3lda_A           72 YDEAALGSFVPIEKLQVNGITMADVKKLRESGLHTAEAVAYAPRKDLLEIKGISEAKADKLLNEAARLVPMGFVTAADFH  151 (400)
T ss_dssp             ------CCSCBGGGGCCTTCCHHHHHHHHHTTCCBHHHHHHSCHHHHHTSTTCCHHHHHHHHHHHHHHSCCSCCCHHHHH
T ss_pred             cccccccCccCHHHHHhCCCCHHHHHHHHHcCCCcHHHHHhCCHHHHHHHhCCCHHHHHHHHHHHHHhccccCCCHHHHH
Confidence            34555566789999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhcccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHH
Q 047388          100 LRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVP  179 (352)
Q Consensus       100 ~~~~~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~  179 (352)
                      +.+....+++||++.||++|+|||++|++++|+|+||+||||||++++.+++.|+..|+.+++++||++|+.+.+.++++
T Consensus       152 ~~~~~~~~i~TG~~~LD~lLgGGI~~Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl~~  231 (400)
T 3lda_A          152 MRRSELICLTTGSKNLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRLVS  231 (400)
T ss_dssp             HHHHTSCEECCSCHHHHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHHH
T ss_pred             hhhccCCccccCChhHHHHhcCCcCCCcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHHHH
Confidence            88888899999999999999999999999999999999999999999999999988888899999999999999999999


Q ss_pred             HHHHcCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHH
Q 047388          180 IAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLT  259 (352)
Q Consensus       180 ~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~  259 (352)
                      ++++++++++.+++|+.+.+..+..++.+.+..+...+...++++||||+++.+++.++++++++.+|++.+.++++.|+
T Consensus       232 ~a~~~gl~~~~vleni~~~~~~~~~~~~~~l~~~~~~l~~~~~~llVIDs~t~~~~~~~sg~g~l~~Rq~~l~~il~~L~  311 (400)
T 3lda_A          232 IAQRFGLDPDDALNNVAYARAYNADHQLRLLDAAAQMMSESRFSLIVVDSVMALYRTDFSGRGELSARQMHLAKFMRALQ  311 (400)
T ss_dssp             HHHHTTCCHHHHHHTEEEEECCSHHHHHHHHHHHHHHHHHSCEEEEEEETGGGGCC------CCHHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCChHhHhhcEEEeccCChHHHHHHHHHHHHHHHhcCCceEEecchhhhCchhhcCccchHHHHHHHHHHHHHHH
Confidence            99999999988889999999988888887777777777778999999999999999888877788999988899999999


Q ss_pred             HHHHHhCcEEEEEcccccCCCCC-cccCCCCCCCcchhhhhccceEEEEEeecCCeEEEEEEeCCCCCcccccccceeee
Q 047388          260 KISEEFNVAVYMTNQVIADPGGG-VFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHII  338 (352)
Q Consensus       260 ~la~~~~~~viv~~h~~~~~~~~-~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~~~R~~~i~Ks~~~~~~~~~~~~~~~~  338 (352)
                      ++++++|++||++||+...+++. +|.+++.+|+||..|+|++|++|+|++.+++.|+++++|+|+.|++++.       
T Consensus       312 ~lake~gitVIlv~Hv~~~~~g~~~~~g~~~~p~gg~~l~~~ad~vl~L~~~~g~~R~l~v~K~R~~p~~e~~-------  384 (400)
T 3lda_A          312 RLADQFGVAVVVTNQVVAQVDGGMAFNPDPKKPIGGNIMAYSSTTRLGFKKGKGCQRLCKVVDSPCLPEAECV-------  384 (400)
T ss_dssp             HHHHHHCCEEEEEEEC--------------------CHHHHHCSEEEEEEECSTTEEEEEEEECSSSCSCEEE-------
T ss_pred             HHHHHcCCEEEEEEeecccCCccccccCCCccCCchhHHHHhcceEEEEEecCCCcEEEEEEcCCCCCCCceE-------
Confidence            99999999999999997766654 5667778899999999999999999998888899999999999999876       


Q ss_pred             eEEEeCCCccCCCC
Q 047388          339 LIKITPGGIADAKD  352 (352)
Q Consensus       339 ~f~I~~~Gi~~~~~  352 (352)
                       |.|+++||++++|
T Consensus       385 -F~It~~Gi~~~~~  397 (400)
T 3lda_A          385 -FAIYEDGVGDPRE  397 (400)
T ss_dssp             -EEEETTEEECCC-
T ss_pred             -EEEeCCccccccc
Confidence             9999999999875

>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=100.00  E-value=1.1e-55  Score=416.60  Aligned_cols=334  Identities=60%  Similarity=0.913  Sum_probs=219.1

Q ss_pred             hhhhhhhcccccccchhhhcHHHHHhCCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHHHHhhc
Q 047388           11 SQLQLVEREDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNF   90 (352)
Q Consensus        11 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~   90 (352)
                      -+...++++..|++...+.+|..|+.+||++.++++|+++||+|+++++..++.+|++++|+++.++.++++.+.+..+.
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~is~~~~~~~~~~a~~~~~~   86 (343)
T 1v5w_A            7 DQVVAEEPGFQDEEESLFQDIDLLQKHGINVADIKKLKSVGICTIKGIQMTTRRALCNVKGLSEAKVDKIKEAANKLIEP   86 (343)
T ss_dssp             -------------------------------------------------------------------------------C
T ss_pred             hhhcccchhhhcccccccCcHHHHhhCCCCHHHHHHHHHcCCCcHHHHHhCCHHHHHHhhCCCHHHHHHHHHHHHhhccc
Confidence            34445555545555444459999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCchhhhHHhhhcccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388           91 GYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus        91 ~~~~~~~~~~~~~~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      +|.++.++++.+.+..+++||++.||.+|+||+++|++++|+|+||+|||+||++++.+++.+..+||.+++|+||++|+
T Consensus        87 ~~~~~~~~~~~~~~~~~i~TG~~~LD~~LgGGl~~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~  166 (343)
T 1v5w_A           87 GFLTAFEYSEKRKMVFHITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTEN  166 (343)
T ss_dssp             CSEEHHHHHHHGGGCCCBCCSCHHHHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSS
T ss_pred             CCCcHHHHHhhhcccceeecCChhHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCC
Confidence            99999999887777899999999999999999999999999999999999999999999988888888899999999999


Q ss_pred             CCChhhHHHHHHHcCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhc--CCceEEEEcccccchhcccCCCcchHHHH
Q 047388          171 TFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSE--EPFRLLIVDSVIALFRVDFTGRGELADRQ  248 (352)
Q Consensus       171 ~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~--~~~~lvvIDsl~~l~~~~~~~~g~~~~r~  248 (352)
                      .|++.++.+++++++++++.+++|+.+.+..+.+++.+++..+...+.+  .++++|||||++.+++.++.+++++.+|+
T Consensus       167 ~~~~~~l~~~~~~~g~~~~~~l~~l~~~~~~~~e~~~~ll~~l~~~i~~~~~~~~lvVIDsl~~l~~~~~~~~g~~~~r~  246 (343)
T 1v5w_A          167 TFRPDRLRDIADRFNVDHDAVLDNVLYARAYTSEHQMELLDYVAAKFHEEAGIFKLLIIDSIMALFRVDFSGRGELAERQ  246 (343)
T ss_dssp             CCCHHHHHHHHHHTTCCHHHHHHTEEEEECCSTTHHHHHHHHHHHHHHHSCSSEEEEEEETSGGGHHHHCCGGGCHHHHH
T ss_pred             CCCHHHHHHHHHHcCCCHHHHHhceeEeecCCHHHHHHHHHHHHHHHHhcCCCccEEEEechHHHHHHHhcccccHHHHH
Confidence            9999999999999999998888999999988888888887777777777  78999999999999987776556778888


Q ss_pred             HHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCC-cccCCCCCCCcchhhhhccceEEEEEeecCCeEEEEEEeCCCCCc
Q 047388          249 QKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGG-VFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPE  327 (352)
Q Consensus       249 ~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~-~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~~~R~~~i~Ks~~~~~  327 (352)
                      ..+.++++.|+++++++|++||++||+++..+.. +|.+++..|+||..|+|.+|++|+|++.++..|+++|.|+|+.|.
T Consensus       247 ~~l~~~l~~L~~la~~~~~~Vi~~nq~~~~~~~~~~~~g~~~~~~gg~~i~~~ad~~l~l~r~~~~~r~~~v~K~r~~p~  326 (343)
T 1v5w_A          247 QKLAQMLSRLQKISEEYNVAVFVTNQMTADPGATMTFQADPKKPIGGHILAHASTTRISLRKGRGELRIAKIYDSPEMPE  326 (343)
T ss_dssp             HHHHHHHHHHHHHHHHHTCEEEEEECC-------------------CCTTTTSSSEEEEEEESSTTEEEEEEEECTTCCS
T ss_pred             HHHHHHHHHHHHHHHHhCCEEEEEeeceecCCCccccCCCCCcCCchHHHHHhCCEEEEEEEcCCCEEEEEEEECCCCCC
Confidence            7889999999999999999999999999876543 454566789999999999999999999878889999999999998


Q ss_pred             ccccccceeeeeEEEeCCCccCCCC
Q 047388          328 AEAISFSYHIILIKITPGGIADAKD  352 (352)
Q Consensus       328 ~~~~~~~~~~~~f~I~~~Gi~~~~~  352 (352)
                      +++.        |.|+++||++++|
T Consensus       327 ~~~~--------f~I~~~Gi~~~~~  343 (343)
T 1v5w_A          327 NEAT--------FAITAGGIGDAKE  343 (343)
T ss_dssp             SCEE--------EEEETTEEEECCC
T ss_pred             eeEE--------EEEeCCCccCCCC
Confidence            8777        9999999999876

>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=100.00  E-value=5.4e-53  Score=395.62  Aligned_cols=313  Identities=42%  Similarity=0.668  Sum_probs=208.9

Q ss_pred             hhcHHHHHhCCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHHHHhhcCCCchhhhHHhhhcccc
Q 047388           28 FEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIK  107 (352)
Q Consensus        28 ~~~~~~l~~~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  107 (352)
                      +.+|..|.  |+++.++++|+++||+|+++++..++.+|++.+|+++.++.++++.+.+.++.+|.++.++++.+....+
T Consensus        11 ~~~~~~l~--g~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~g~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (324)
T 2z43_A           11 IKTINDLP--GISQTVINKLIEAGYSSLETLAVASPQDLSVAAGIPLSTAQKIIKEARDALDIRFKTALEVKKERMNVKK   88 (324)
T ss_dssp             ---------------------------------------------------------------CCCCHHHHHHHHCSCCE
T ss_pred             CccHHHcC--CCCHHHHHHHHHcCCCcHHHHHcCCHHHHHHhhCCCHHHHHHHHHHHHhhcccCccchhhhhhhhccCCc
Confidence            45788884  8999999999999999999999999999999999999999999999999999999999999877777889


Q ss_pred             cccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCC
Q 047388          108 ITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMD  187 (352)
Q Consensus       108 i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~  187 (352)
                      ++||++.||.+|+||+++|++++|+|+||+|||+||++++.+++.+..+||.+++|+||++|++|++.++.+++++++++
T Consensus        89 i~TG~~~LD~~L~GGl~~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~~~~~~~g~~  168 (324)
T 2z43_A           89 ISTGSQALDGLLAGGIETRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIENMAKALGLD  168 (324)
T ss_dssp             ECCSCHHHHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHHHHHHTTCC
T ss_pred             ccCCchhHHHhcCCCCCCCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHHHHHHhCCC
Confidence            99999999999999999999999999999999999999999988887778788999999999999999999999999999


Q ss_pred             cccccccEEEEecCCHHHHHHHHHHHHHHhhc-CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhC
Q 047388          188 PGAVLDNIIYARAYTYEHQYNLLLGLAAKMSE-EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFN  266 (352)
Q Consensus       188 ~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~-~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~  266 (352)
                      ++.+++|+.+.+..+.+++.+++..+...+.+ .++++|||||++.+++.++.+++++.+|+..+.++++.|+++++++|
T Consensus       169 ~~~~~~~l~~~~~~~~~~~~~~l~~l~~~~~~~~~~~lvVIDsl~~l~~~~~~~~g~~~~r~~~~~~~l~~L~~la~~~~  248 (324)
T 2z43_A          169 IDNVMNNIYYIRAINTDHQIAIVDDLQELVSKDPSIKLIVVDSVTSHFRAEYPGRENLAVRQQKLNKHLHQLTRLAEVYD  248 (324)
T ss_dssp             HHHHHHTEEEEECCSHHHHHHHHHHHHHHHHHCTTEEEEEETTTTHHHHHHSCTTTSHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHhccEEEEeCCCHHHHHHHHHHHHHHHHhccCCCEEEEeCcHHHhhhhhcCcccHHHHHHHHHHHHHHHHHHHHHhC
Confidence            98888899999999888888888888888877 78999999999999987776656777887788999999999999999


Q ss_pred             cEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeecCCeEEEEEEeCCCCCcccccccceeeeeEEEeCCC
Q 047388          267 VAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPGG  346 (352)
Q Consensus       267 ~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~~~R~~~i~Ks~~~~~~~~~~~~~~~~~f~I~~~G  346 (352)
                      ++||++||+++.+++ +| +++..|++|..|+|.+|++|.|++.++..|++++.|+|+.|.+++.        |.|+++|
T Consensus       249 ~~Vi~~nq~~~~~~~-~~-~~~~~~~gg~~l~~~~d~~l~l~r~~~~~r~~~v~k~~~~p~~~~~--------f~I~~~G  318 (324)
T 2z43_A          249 IAVIITNQVMARPDM-FY-GDPTVAVGGHTLYHVPGIRIQLKKSRGNRRIARVVDAPHLPEGEVV--------FALTEEG  318 (324)
T ss_dssp             CEEEEEEEC--------------------------CEEEEEEECSTTEEEEEEEECSSSCCEEEE--------EEEETTE
T ss_pred             CEEEEEcceeecCCC-cC-CCCCCCCchHHHHhhCcEEEEEEEcCCCeEEEEEEECCCCCceEEE--------EEEeCCC
Confidence            999999999986543 34 5667899999999999999999998888899999999999988776        9999999


Q ss_pred             ccCCCC
Q 047388          347 IADAKD  352 (352)
Q Consensus       347 i~~~~~  352 (352)
                      |++++|
T Consensus       319 i~~~~~  324 (324)
T 2z43_A          319 IRDAEE  324 (324)
T ss_dssp             EECCC-
T ss_pred             cccCCC
Confidence            999876

>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=100.00  E-value=2.3e-51  Score=384.46  Aligned_cols=307  Identities=42%  Similarity=0.696  Sum_probs=272.8

Q ss_pred             HHHHHhCCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHHHHhhcCCCchhhhHHhhhccccccc
Q 047388           31 IDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLRRKAVIKITT  110 (352)
Q Consensus        31 ~~~l~~~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~T  110 (352)
                      |..|  +|+++.++++|+++||+|+++++..++.+|++++|++++++.+++..+++.++.+|.++.++++.+....+++|
T Consensus         5 ~~~l--~gi~~~~~~kL~~~gi~t~~~~~~~~~~~L~~~~gis~~~a~~~i~~a~~~~~~~~~~~~~~~~~~~~~~~i~T   82 (322)
T 2i1q_A            5 LTDL--PGVGPSTAEKLVEAGYIDFMKIATATVGELTDIEGISEKAAAKMIMGARDLCDLGFKSGIDLLKQRSTVWKLST   82 (322)
T ss_dssp             CTTS--TTCCHHHHHHHHHHTCCSHHHHHTCCHHHHHTSTTCCHHHHHHHHHHHHHHTTCSCCCTHHHHHHHTTCCEECC
T ss_pred             Hhhc--CCCCHHHHHHHHHcCCCcHHHHHhCCHHHHHHhhCcCHHHHHHHHHHHHHhhhhcCCcHHHHHHHhccCCeecC
Confidence            4445  48999999999999999999999999999999999999999999999999999999999999877777889999


Q ss_pred             CChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCC---------ccCCCC-CeEEEEeCCCCCChhhHHHH
Q 047388          111 GSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPT---------NMRGGN-GKVAYIDTEGTFRPDRIVPI  180 (352)
Q Consensus       111 G~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~---------~~gg~~-~~vl~i~~e~~~~~~rl~~~  180 (352)
                      |++.||.+|+||+++|++++|+|+||+|||+||++++.+++.+.         ..||.+ ++|+||++|++|+++++.++
T Consensus        83 G~~~LD~~l~GGl~~g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~~  162 (322)
T 2i1q_A           83 SSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQM  162 (322)
T ss_dssp             SCHHHHHHTTSSEETTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHHH
T ss_pred             CChhHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCCCCHHHHHHH
Confidence            99999999999999999999999999999999999999877653         334443 79999999999999999999


Q ss_pred             HHHcCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhc-CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHH
Q 047388          181 AERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSE-EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLT  259 (352)
Q Consensus       181 ~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~-~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~  259 (352)
                      +++++++++.+++++++.+.++.+++.+++..+...+.+ .++++|||||++.+++.++.+++++.+|+..+.++++.|+
T Consensus       163 ~~~~g~~~~~~~~~l~~~~~~~~~~~~~~l~~l~~~~~~~~~~~lvVIDsl~~l~~~~~~~~~~~~~r~~~~~~~~~~L~  242 (322)
T 2i1q_A          163 AEHAGIDGQTVLDNTFVARAYNSDMQMLFAEKIEDLIQEGNNIKLVVIDSLTSTFRNEYTGRGKLAERQQKLGRHMATLN  242 (322)
T ss_dssp             HHHHTCCHHHHHHTEEEEECSSHHHHHHHHHTHHHHHHTTCEEEEEEEECSSHHHHHHCCCTTSHHHHHHHHHHHHHHHH
T ss_pred             HHHcCCCHHHHhcCEEEEeCCCHHHHHHHHHHHHHHHhhccCccEEEEECcHHHHHHHhcCCccHHHHHHHHHHHHHHHH
Confidence            999999988888899999999988888888888888877 6899999999999998777655667788878899999999


Q ss_pred             HHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeecCCeEEEEEEeCCCCCcccccccceeeee
Q 047388          260 KISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIIL  339 (352)
Q Consensus       260 ~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~~~R~~~i~Ks~~~~~~~~~~~~~~~~~  339 (352)
                      .+++++|++||++||+++.+++ +| +++..|++|..|+|.+|++|.|++.++..|++++.|+|+.|.+++.        
T Consensus       243 ~la~~~~~~vi~~nq~~~~~~~-~~-g~~~~~~g~~~~~~~~d~~i~l~~~~~~~r~~~v~k~~~~p~~~~~--------  312 (322)
T 2i1q_A          243 KLADLFNCVVLVTNQVSAKPDA-FF-GMAEQAIGGHIVGHAATFRFFVRKGKGDKRVAKLYDSPHLPDAEAI--------  312 (322)
T ss_dssp             HHHHHTTCEEEEEECEECC---------CCEESSHHHHHHHCSEEEEEEECSTTEEEEEEEECSSSCCEEEE--------
T ss_pred             HHHHHhCCEEEEECceeecCCC-CC-CCCcCCCCcHHHHhcCcEEEEEEecCCCeEEEEEEECCCCCCeEEE--------
Confidence            9999999999999999986543 34 5667899999999999999999998888899999999999988777        


Q ss_pred             EEEeCCCccC
Q 047388          340 IKITPGGIAD  349 (352)
Q Consensus       340 f~I~~~Gi~~  349 (352)
                      |.|+++||+|
T Consensus       313 f~I~~~Gi~~  322 (322)
T 2i1q_A          313 FRITEKGIQD  322 (322)
T ss_dssp             EEEETTEEEC
T ss_pred             EEEeCCCcCC
Confidence            9999999986

>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=100.00  E-value=2.5e-50  Score=380.55  Aligned_cols=312  Identities=47%  Similarity=0.781  Sum_probs=269.0

Q ss_pred             hhhhcHHHHHhCCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHHHHhhc-CCCchhhhHHhhhc
Q 047388           26 DLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNF-GYITGSDALLRRKA  104 (352)
Q Consensus        26 ~~~~~~~~l~~~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~  104 (352)
                      ..+.++..|  +|+++.++++|+++||+|+++++..++.+|++++|+++.++.++++.+.+.+.. +|.++.++++.+..
T Consensus        32 ~~~~~l~~l--~Gi~~~~~~kL~~ag~~t~~~~~~~~~~~L~~~~~~s~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~  109 (349)
T 1pzn_A           32 KIIRSIEDL--PGVGPATAEKLREAGYDTLEAIAVASPIELKEVAGISEGTALKIIQAARKAANLGTFMRADEYLKKRAT  109 (349)
T ss_dssp             ---CCSSCC--TTCCHHHHHHHHTTTCCSHHHHHTCCHHHHHHHHCCCHHHHHHHHHHHHHHCSTTSCEEHHHHHHHHHT
T ss_pred             cccccHHHc--CCCCHHHHHHHHHcCCCcHHHHHhCCHHHHHhhcCCCHHHHHHHHHHHhhhccccCCccHHHHHhhhcc
Confidence            345567776  699999999999999999999999999999999999999999999999999887 99999999987778


Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHc
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERF  184 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~  184 (352)
                      ..+++||++.||.+|+||+++|++++|+|+||+||||||++++..++.++..|+.+++|+||++++.+.+.++..+++++
T Consensus       110 ~~~isTG~~~LD~lL~ggi~~G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~~~~~~~i~~i~q~~  189 (349)
T 1pzn_A          110 IGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERIREIAQNR  189 (349)
T ss_dssp             CCEECCSCHHHHHHHTSSEESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHHHHHHHTT
T ss_pred             CCeecCCCHHHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCCCCCHHHHHHHHHHc
Confidence            89999999999999999999999999999999999999999999988777777777899999999988888999999999


Q ss_pred             CCCcccccccEEEEecCCHHHHHHHHHHHHHHhhc-----CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHH
Q 047388          185 GMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSE-----EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLT  259 (352)
Q Consensus       185 ~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~-----~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~  259 (352)
                      ++++..+++|+.+.+.++...+.+++..+...+..     .++++|||||+++++..++.+++++.+|+..+.++++.|+
T Consensus       190 ~~~~~~v~~ni~~~~~~~~~~~~~~l~~~~~~~~~lS~G~~~~~llIlDs~ta~ld~~~~~~~~~~~r~~~~~~~l~~L~  269 (349)
T 1pzn_A          190 GLDPDEVLKHIYVARAFNSNHQMLLVQQAEDKIKELLNTDRPVKLLIVDSLTSHFRSEYIGRGALAERQQKLAKHLADLH  269 (349)
T ss_dssp             TCCHHHHGGGEEEEECCSHHHHHHHHHHHHHHHHHSSSSSSCEEEEEEETSSTTHHHHCCSTTTHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHhhCEEEEecCChHHHHHHHHHHHHHHHHhccccCCCCEEEEeCchHhhhhhhcccccHHHHHHHHHHHHHHHH
Confidence            99988899999998887777777777766666666     6899999999999998877666778888888899999999


Q ss_pred             HHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeecCCeEEEEEEeCCCCCcccccccceeeee
Q 047388          260 KISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIIL  339 (352)
Q Consensus       260 ~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~~~R~~~i~Ks~~~~~~~~~~~~~~~~~  339 (352)
                      ++++++|++||++||+...++.  +.+++..|++|..|+|.++++|++++..+..|+++++|+|+.|.+++.        
T Consensus       270 ~la~~~~~tvii~~h~~~~~~~--~~~~~~~~~~G~~l~~~~~~rL~l~~~~~~~Ri~k~~ks~~~~~~~~~--------  339 (349)
T 1pzn_A          270 RLANLYDIAVFVTNQVQARPDA--FFGDPTRPIGGHILAHSATLRVYLRKGKGGKRIARLIDAPHLPEGEAV--------  339 (349)
T ss_dssp             HHHHHTTCEEEEEEECC-----------------CCCCCTTCSEEEEEEECTTSEEEEEESCSSSSCCSEEE--------
T ss_pred             HHHHHcCcEEEEEccccccccc--ccCCccccCCcceEeecCcEEEEEEEcCCCeEEEEEEeCCCCCCeEEE--------
Confidence            9999999999999999875432  235567799999999999999999998888999999999999988776        


Q ss_pred             EEEeCCCccC
Q 047388          340 IKITPGGIAD  349 (352)
Q Consensus       340 f~I~~~Gi~~  349 (352)
                      |+|+++||+|
T Consensus       340 f~It~~Gi~d  349 (349)
T 1pzn_A          340 FSITEKGIED  349 (349)
T ss_dssp             EEEETTEEEC
T ss_pred             EEEcCCCCCC
Confidence            9999999986

>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=100.00  E-value=3.8e-38  Score=282.10  Aligned_cols=241  Identities=56%  Similarity=0.965  Sum_probs=187.8

Q ss_pred             cccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHH
Q 047388          104 AVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAER  183 (352)
Q Consensus       104 ~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~  183 (352)
                      +..+++||++.||++|+||+++|++++|+||||+|||||+.+++.+++.++..|+.+.+++|+++++.+.+.++.+++++
T Consensus         2 ~~~~i~tG~~~LD~~l~ggi~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~   81 (243)
T 1n0w_A            2 EIIQITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLLAVAER   81 (243)
T ss_dssp             CCCEECCSCHHHHHHTTTSEETTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHHHHHHH
T ss_pred             CceEecCCChHHHHhhcCCCcCCeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHHHHHHHH
Confidence            35679999999999999999999999999999999999999999988777777777889999999998888888889999


Q ss_pred             cCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHH
Q 047388          184 FGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISE  263 (352)
Q Consensus       184 ~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~  263 (352)
                      ++++++++++++.+....+..+....+..+...+...++++||||+++.++...+++.++..+|++.+.+++..|+++++
T Consensus        82 ~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiD~~~~~~~~~~~~~~~~~~r~~~~~~~~~~l~~~~~  161 (243)
T 1n0w_A           82 YGLSGSDVLDNVAYARAFNTDHQTQLLYQASAMMVESRYALLIVDSATALYRTDYSGRGELSARQMHLARFLRMLLRLAD  161 (243)
T ss_dssp             TTCCHHHHHHTEEEEECCSHHHHHHHHHHHHHHHHHSCEEEEEEETSSGGGC-------CHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCCCHHHHhhCeEEEecCCHHHHHHHHHHHHHHHhcCCceEEEEeCchHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHH
Confidence            99998888889988888887777777777777777778999999999999877665545556776667899999999999


Q ss_pred             HhCcEEEEEcccccCCCCC-cccCCCCCCCcchhhhhccceEEEEEeecCCeEEEEEEeCCCCCcccccccceeeeeEEE
Q 047388          264 EFNVAVYMTNQVIADPGGG-VFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKI  342 (352)
Q Consensus       264 ~~~~~viv~~h~~~~~~~~-~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~~~R~~~i~Ks~~~~~~~~~~~~~~~~~f~I  342 (352)
                      ++|++||+++|..+..+.. +|.+++..|++|..|.+.+|.++.|++.++..|.+++.|+|+.|.+++.        |+|
T Consensus       162 ~~~~tvi~~~h~~~~~~~~~~~~~~~~~~~g~~~~~~~~d~vi~l~~~~~~~r~l~v~K~r~~~~~~~~--------f~I  233 (243)
T 1n0w_A          162 EFGVAVVITNQVVAQVDGAAMFAADPKKPIGGNIIAHASTTRLYLRKGRGETRICKIYDSPCLPEAEAM--------FAI  233 (243)
T ss_dssp             HHCCEEEEEC-------------------------CCTTCEEEEEEECSTTEEEEEECCBTTBSCEEEE--------EEE
T ss_pred             HcCCEEEEEeeeeecCCCccccCCCcccCCccChhhhcCcEEEEEEEcCCCeEEEEEEECCCCCCCeEE--------EEE
Confidence            9999999999998755431 2434556789999999999999999997778899999999999877665        999


Q ss_pred             eCCCccCCCC
Q 047388          343 TPGGIADAKD  352 (352)
Q Consensus       343 ~~~Gi~~~~~  352 (352)
                      +++||+.++|
T Consensus       234 ~~~Gi~~~~~  243 (243)
T 1n0w_A          234 NADGVGDAKD  243 (243)
T ss_dssp             ETTEEECCCC
T ss_pred             eCCccccCCC
Confidence            9999999876

>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=100.00  E-value=4e-34  Score=253.79  Aligned_cols=224  Identities=54%  Similarity=0.872  Sum_probs=188.3

Q ss_pred             cccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHH
Q 047388          104 AVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAER  183 (352)
Q Consensus       104 ~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~  183 (352)
                      +.++++||++.||++|+||+++|++++|+||||||||||+.+++.....++..|+.+++++|++++..+...++..+++.
T Consensus         3 ~~~~i~tG~~~LD~~l~ggi~~G~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~~~~~~~i~~~~~~   82 (231)
T 4a74_A            3 TIGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERIREIAQN   82 (231)
T ss_dssp             CCCEECCSCHHHHHHTTSSEESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHHHHHH
T ss_pred             cCCccCCCChhHHhHhcCCCCCCcEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            45689999999999999999999999999999999999999999888887777777889999999988788889999999


Q ss_pred             cCCCcccccccEEEEecCCHHHHHHHHHHHHHHhh-----cCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHH
Q 047388          184 FGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMS-----EEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRL  258 (352)
Q Consensus       184 ~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~-----~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L  258 (352)
                      +++.++++.+|+.+............+..+...+.     ..+++++++|+++..+..++++.++..+|++.+.+++..|
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~llilDe~~~~l~~~~~~~~~~~~r~~~~~~~~~~l  162 (231)
T 4a74_A           83 RGLDPDEVLKHIYVARAFNSNHQMLLVQQAEDKIKELLNTDRPVKLLIVDSLTSHFRSEYIGRGALAERQQKLAKHLADL  162 (231)
T ss_dssp             TTSCHHHHHHTEEEEECCSHHHHHHHHHHHHHHHHHHTTSSSCEEEEEEETSSHHHHHHSCSTTHHHHHHHHHHHHHHHH
T ss_pred             cCCCHHHHhhcEEEEecCChHHHHHHHHHHHHHHHHhcccCCceeEEEECChHHHhccccCCCcchhHHHHHHHHHHHHH
Confidence            99998888899999888777666555555555555     5689999999999999888776666778877778999999


Q ss_pred             HHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeecCCeEEEEEEeCCCCCcccccccceeee
Q 047388          259 TKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHII  338 (352)
Q Consensus       259 ~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~~~R~~~i~Ks~~~~~~~~~~~~~~~~  338 (352)
                      +++++++|++||+++|..+.              +|..|.+.+|.++.|++++...|++++.|+|+.|.++..       
T Consensus       163 ~~~~~~~g~tvi~vtH~~~~--------------~g~~~~~~~d~~l~l~~~~~~~r~l~~~K~r~~~~~~~~-------  221 (231)
T 4a74_A          163 HRLANLYDIAVFVTNQVQAN--------------GGHILAHSATLRVYLRKGKGGKRIARLIDAPHLPEGEAV-------  221 (231)
T ss_dssp             HHHHHHHTCEEEEEEECC-----------------------CCSEEEEEEECTTSCEEEEEESCC--CCSCEE-------
T ss_pred             HHHHHHCCCeEEEEeecccC--------------cchhhHhhceEEEEEEecCCCeEEEEEEeCCCCCCceEE-------
Confidence            99999999999999998863              467899999999999997778899999999999988776       


Q ss_pred             eEEEeCCCccC
Q 047388          339 LIKITPGGIAD  349 (352)
Q Consensus       339 ~f~I~~~Gi~~  349 (352)
                       |+|+++||+|
T Consensus       222 -f~i~~~Gl~~  231 (231)
T 4a74_A          222 -FSITEKGIED  231 (231)
T ss_dssp             -EEEETTEEEC
T ss_pred             -EEEecccccC
Confidence             9999999986

>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=100.00  E-value=3.5e-33  Score=262.19  Aligned_cols=219  Identities=29%  Similarity=0.411  Sum_probs=179.6

Q ss_pred             ccccccCChhhHHhhc-CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHH
Q 047388          105 VIKITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAER  183 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~-GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~  183 (352)
                      ..+++||++.||.+|+ ||+++|++++|+||||+||||||++++..++.      .+++|+||++|+.+.+.    ++++
T Consensus        39 ~~~i~TG~~~LD~~Lg~GGi~~G~i~~I~GppGsGKSTLal~la~~~~~------~gg~VlyId~E~s~~~~----ra~r  108 (356)
T 3hr8_A           39 VEVIPTGSLAIDIATGVGGYPRGRIVEIFGQESSGKTTLALHAIAEAQK------MGGVAAFIDAEHALDPV----YAKN  108 (356)
T ss_dssp             CCEECCSCHHHHHHTSSSSEETTEEEEEEESTTSSHHHHHHHHHHHHHH------TTCCEEEEESSCCCCHH----HHHH
T ss_pred             CceecCCCHHHHHHhccCCccCCcEEEEECCCCCCHHHHHHHHHHHHHh------cCCeEEEEecccccchH----HHHH
Confidence            6789999999999999 99999999999999999999999999998876      57889999999987765    6778


Q ss_pred             cCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchh-cccCCC-cc--hHHHHHHHHHHHHHHH
Q 047388          184 FGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFR-VDFTGR-GE--LADRQQKLGQMLSRLT  259 (352)
Q Consensus       184 ~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~-~~~~~~-g~--~~~r~~~l~~i~~~L~  259 (352)
                      +++++    +++.+....+.++....+.   ..+...+++++||||++.+++ .++.++ ++  ...+.+.+.++++.|+
T Consensus       109 lgv~~----~~l~i~~~~~~e~~l~~~~---~l~~~~~~dlvVIDSi~~l~~~~el~g~~G~~q~~~qar~la~~L~~L~  181 (356)
T 3hr8_A          109 LGVDL----KSLLISQPDHGEQALEIVD---ELVRSGVVDLIVVDSVAALVPRAEIEGAMGDMQVGLQARLMSQALRKIA  181 (356)
T ss_dssp             HTCCG----GGCEEECCSSHHHHHHHHH---HHHHTSCCSEEEEECTTTCCCHHHHTTCCCSSCSSHHHHHHHHHHHHHH
T ss_pred             cCCch----hhhhhhhccCHHHHHHHHH---HHhhhcCCCeEEehHhhhhcChhhhcccchhhHHHHHHHHHHHHHHHHH
Confidence            88887    6778888777776655443   344456899999999999986 555542 11  1123456788999999


Q ss_pred             HHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeec---------CCeEEEEEEeCCCCCcccc
Q 047388          260 KISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGK---------GEQRVCKVFDAPNLPEAEA  330 (352)
Q Consensus       260 ~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~---------~~~R~~~i~Ks~~~~~~~~  330 (352)
                      .++++++++||++||+...+ +.+| +++..++||+.|+|++++||.|++..         +..|.++++|||..|+.+.
T Consensus       182 ~lak~~~~tVI~inqv~~k~-g~~f-g~p~~~~GG~~l~h~~~~rl~l~k~~~~k~g~~~~g~~~~vkvvKnr~~~~~~~  259 (356)
T 3hr8_A          182 GSVNKSKAVVIFTNQIRMKI-GVMF-GSPETTTGGLALKFYATMRMEVRRGEPIKEGKDVIGNVISVKIVKNKVAPPFKT  259 (356)
T ss_dssp             HHHHTSSCEEEEEEESSSCS-SSSS-CSCSSCTHHHHHHHHCSEEEEEEEEEEEEETTEEEEEEEEEEEEEESSSCCCCE
T ss_pred             HHHHhcCCEEEEEeeeeecc-cccc-CCcccCCCcchhhhhCcEEEEEEeccccccCCcccccEEEEEEEeCCCCCCCce
Confidence            99999999999999997654 3456 67889999999999999999999742         3468999999999987654


Q ss_pred             cccceeeeeEEE-eCCCccC
Q 047388          331 ISFSYHIILIKI-TPGGIAD  349 (352)
Q Consensus       331 ~~~~~~~~~f~I-~~~Gi~~  349 (352)
                      .       .|+| .+.||..
T Consensus       260 ~-------~f~i~~~~Gi~~  272 (356)
T 3hr8_A          260 A-------QTYIIYGKGIDR  272 (356)
T ss_dssp             E-------EEEEETTTBSCH
T ss_pred             E-------EEEEeeCCCcCh
Confidence            3       5999 6999874

>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=100.00  E-value=4.5e-32  Score=238.91  Aligned_cols=219  Identities=32%  Similarity=0.483  Sum_probs=179.2

Q ss_pred             ccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCC
Q 047388          107 KITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGM  186 (352)
Q Consensus       107 ~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~  186 (352)
                      +++||++.||++++||+++|++++|+|+||+|||||+.+++.   .      .+++++|++++..++..++..+++.+++
T Consensus         1 ri~tG~~~LD~~l~Ggi~~G~~~~i~G~~GsGKTtl~~~l~~---~------~~~~v~~i~~~~~~~~~~~~~~~~~~~~   71 (220)
T 2cvh_A            1 MLSTGTKSLDSLLGGGFAPGVLTQVYGPYASGKTTLALQTGL---L------SGKKVAYVDTEGGFSPERLVQMAETRGL   71 (220)
T ss_dssp             CBCCSCHHHHHHTTSSBCTTSEEEEECSTTSSHHHHHHHHHH---H------HCSEEEEEESSCCCCHHHHHHHHHTTTC
T ss_pred             CcccCcHHHHHhhcCCCcCCEEEEEECCCCCCHHHHHHHHHH---H------cCCcEEEEECCCCCCHHHHHHHHHhcCC
Confidence            489999999999999999999999999999999999999987   2      4679999999987778888888888888


Q ss_pred             CcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhC
Q 047388          187 DPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFN  266 (352)
Q Consensus       187 ~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~  266 (352)
                      +++.+.+++.+....+..++...+..+...+.. ++++||||+++.++.....    ...++..+.++++.|++++++++
T Consensus        72 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~lliiD~~~~~l~~~~~----~~~~~~~~~~~~~~L~~l~~~~~  146 (220)
T 2cvh_A           72 NPEEALSRFILFTPSDFKEQRRVIGSLKKTVDS-NFALVVVDSITAHYRAEEN----RSGLIAELSRQLQVLLWIARKHN  146 (220)
T ss_dssp             CHHHHHHHEEEECCTTTSHHHHHHHHHHHHCCT-TEEEEEEECCCCCTTGGGG----SSTTHHHHHHHHHHHHHHHHHHT
T ss_pred             ChHHHhhcEEEEecCCHHHHHHHHHHHHHHhhc-CCCEEEEcCcHHHhhhcCc----hHHHHHHHHHHHHHHHHHHHHcC
Confidence            877777888888776666655566666556544 7999999999998654211    11233456788999999999999


Q ss_pred             cEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEee-cCCeEEEEEEeCCCCCcccccccceeeeeEEEeCC
Q 047388          267 VAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKG-KGEQRVCKVFDAPNLPEAEAISFSYHIILIKITPG  345 (352)
Q Consensus       267 ~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~-~~~~R~~~i~Ks~~~~~~~~~~~~~~~~~f~I~~~  345 (352)
                      ++||+++|..+..+.     ....|+++..|.+.+|.++.|++. .+..|.+.|.|+|+.+.+..       .+|+|+++
T Consensus       147 ~~vi~~~h~~~~~~~-----~~~~p~~~~~~~~~~d~vi~l~~~~~~~~r~l~v~K~r~~~~~~~-------~~f~I~~~  214 (220)
T 2cvh_A          147 IPVIVINQVHFDSRT-----EMTKPVAEQTLGYRCKDILRLDKLPKPGLRVAVLERHRFRPEGLM-------AYFRITER  214 (220)
T ss_dssp             CCEEEEECSSSSCTT-----SSCCSCCCHHHHHTSSEEEEEEECSSTTEEEEEEEECSSSCTTCE-------EEEEEETT
T ss_pred             CEEEEEeeEEEcCCC-----CccccCCCcceeecCcEEEEEEEecCCCEEEEEEEeCCCCCCCce-------EEEEEeCC
Confidence            999999999875432     234689999999999999999986 34679999999999988653       35999999


Q ss_pred             CccCCC
Q 047388          346 GIADAK  351 (352)
Q Consensus       346 Gi~~~~  351 (352)
                      ||+.|+
T Consensus       215 Gi~~~~  220 (220)
T 2cvh_A          215 GIEDVE  220 (220)
T ss_dssp             EEEECC
T ss_pred             ceecCC
Confidence            998763

>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=100.00  E-value=1.9e-31  Score=243.32  Aligned_cols=220  Identities=18%  Similarity=0.236  Sum_probs=157.0

Q ss_pred             cccccccCChhhHHhhc----CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHH
Q 047388          104 AVIKITTGSQALDELLG----GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVP  179 (352)
Q Consensus       104 ~~~~i~TG~~~LD~~L~----GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~  179 (352)
                      ...+++||+++||.+|+    ||+++| +++|+||||+||||||+|++.+++..    +.+++|+|||+|+++++.    
T Consensus         3 ~~~risTGi~~LD~~LGg~~~GGl~~G-iteI~G~pGsGKTtL~Lq~~~~~~~~----g~g~~vlyId~E~s~~~~----   73 (333)
T 3io5_A            3 HMDVVRTKIPMMNIALSGEITGGMQSG-LLILAGPSKSFKSNFGLTMVSSYMRQ----YPDAVCLFYDSEFGITPA----   73 (333)
T ss_dssp             ---CBCCSCHHHHHHHHSSTTCCBCSE-EEEEEESSSSSHHHHHHHHHHHHHHH----CTTCEEEEEESSCCCCHH----
T ss_pred             CCCEecCCCHHHHHHhCCCCCCCCcCC-eEEEECCCCCCHHHHHHHHHHHHHhc----CCCceEEEEeccchhhHH----
Confidence            35689999999999999    999999 99999999999999999999988751    136899999999998875    


Q ss_pred             HHHHcCCCcccccccEEEEecCCHHHH-HHHHHHHHHHhhcCCceEEEEcccccchh-cccCCC-cc--hH--HHHHHHH
Q 047388          180 IAERFGMDPGAVLDNIIYARAYTYEHQ-YNLLLGLAAKMSEEPFRLLIVDSVIALFR-VDFTGR-GE--LA--DRQQKLG  252 (352)
Q Consensus       180 ~~~~~~~~~~~~~~~i~~~~~~~~~~~-~~~l~~l~~~l~~~~~~lvvIDsl~~l~~-~~~~~~-g~--~~--~r~~~l~  252 (352)
                      +++++|++.    +++.+.++.+.+++ .+++..+. .+.+..+++|||||++++++ .++.+. ++  .+  .+++.+.
T Consensus        74 ra~~lGvd~----d~llv~~~~~~E~~~l~i~~~l~-~i~~~~~~lvVIDSI~aL~~~~eieg~~gd~~~gsv~qaR~~s  148 (333)
T 3io5_A           74 YLRSMGVDP----ERVIHTPVQSLEQLRIDMVNQLD-AIERGEKVVVFIDSLGNLASKKETEDALNEKVVSDMTRAKTMK  148 (333)
T ss_dssp             HHHHTTCCG----GGEEEEECSBHHHHHHHHHHHHH-TCCTTCCEEEEEECSTTCBCC--------------CTHHHHHH
T ss_pred             HHHHhCCCH----HHeEEEcCCCHHHHHHHHHHHHH-HhhccCceEEEEecccccccchhccCccccccccHHHHHHHHH
Confidence            478899987    68888888888877 65554332 24566899999999999985 455432 11  11  2446678


Q ss_pred             HHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeec---------CCeEEEEEEeCC
Q 047388          253 QMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGK---------GEQRVCKVFDAP  323 (352)
Q Consensus       253 ~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~---------~~~R~~~i~Ks~  323 (352)
                      +.++.|..+|+++|++||+|||+++ + +.+| +++. +.||+.+ |.+.+||.++|..         |....+++.|++
T Consensus       149 ~~LrkL~~~ak~~~i~vi~tNQV~k-~-G~~f-g~p~-~~GG~~l-~~ss~Rl~lrk~~~ik~~~~~~G~~~~v~~~k~k  223 (333)
T 3io5_A          149 SLFRIVTPYFSTKNIPCIAINHTYE-T-QEMF-SKTV-MGGGTGP-MYSADTVFIIGKRQIKDGSDLQGYQFVLNVEKSR  223 (333)
T ss_dssp             HHHHHHHHHHHHTTCEEEEEEEC-------------------CCG-GGGSSEEEEEEEC----------CEEEEEEEECS
T ss_pred             HHHHHHHHHHHHhCCEEEEECCeee-c-Cccc-CCCC-CCCccee-eeeeEEEEEEeccccccCCccEEeEEEEeEEEEE
Confidence            8889999999999999999999987 4 5567 6665 4899999 9999999999753         345567888888


Q ss_pred             CCCcccccccceeeeeEEEe-CCCccC
Q 047388          324 NLPEAEAISFSYHIILIKIT-PGGIAD  349 (352)
Q Consensus       324 ~~~~~~~~~~~~~~~~f~I~-~~Gi~~  349 (352)
                      ..++....       +|.|. .+||..
T Consensus       224 v~k~k~~~-------~~~i~~~~Gi~~  243 (333)
T 3io5_A          224 TVKEKSKF-------FIDVKFDGGIDP  243 (333)
T ss_dssp             SBCTTCEE-------EEEBCTTSCBCT
T ss_pred             EccCCcCC-------cEEEEecCCCCh
Confidence            87765444       35554 356654

>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=99.98  E-value=2.6e-31  Score=250.43  Aligned_cols=219  Identities=29%  Similarity=0.421  Sum_probs=165.4

Q ss_pred             hcccccccCChhhHHhhc-CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHH
Q 047388          103 KAVIKITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIA  181 (352)
Q Consensus       103 ~~~~~i~TG~~~LD~~L~-GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~  181 (352)
                      ....+++||++.||.+|+ |||++|.+++|+|+||+|||+||++++.+++.      .+.+|+||++|+++++.    ++
T Consensus        39 ~~~~~i~TG~~~LD~~Lg~GGl~~G~ii~I~G~pGsGKTtLal~la~~~~~------~g~~vlyid~E~s~~~~----~a  108 (356)
T 1u94_A           39 MDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQR------EGKTCAFIDAEHALDPI----YA  108 (356)
T ss_dssp             CCCCEECCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHH------TTCCEEEEESSCCCCHH----HH
T ss_pred             ccCCcccCCCHHHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHHHHH------CCCeEEEEeCCCCccHH----HH
Confidence            457789999999999999 99999999999999999999999999998876      56799999999988764    36


Q ss_pred             HHcCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchh-cccCCC-cc--hHHHHHHHHHHHHH
Q 047388          182 ERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFR-VDFTGR-GE--LADRQQKLGQMLSR  257 (352)
Q Consensus       182 ~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~-~~~~~~-g~--~~~r~~~l~~i~~~  257 (352)
                      ++++++.    +++.+.+..+.++..+.+.   ..+...++++|||||++.++. .++.+. ++  ...+.+.+.++++.
T Consensus       109 ~~~g~~~----~~l~i~~~~~~e~~~~~~~---~l~~~~~~~lVVIDsl~~l~~~~e~~~~~g~~~~~~q~r~~~~~l~~  181 (356)
T 1u94_A          109 RKLGVDI----DNLLCSQPDTGEQALEICD---ALARSGAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRK  181 (356)
T ss_dssp             HHTTCCG----GGCEEECCSSHHHHHHHHH---HHHHHTCCSEEEEECGGGCCCHHHHTTC------CHHHHHHHHHHHH
T ss_pred             HHcCCCh----hheeeeCCCCHHHHHHHHH---HHHhccCCCEEEEcCHHHhcchhhhccccccchhHHHHHHHHHHHHH
Confidence            7788876    6777777766665555443   334456899999999999984 333321 11  00222456889999


Q ss_pred             HHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeec---------CCeEEEEEEeCCCCCc-
Q 047388          258 LTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGK---------GEQRVCKVFDAPNLPE-  327 (352)
Q Consensus       258 L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~---------~~~R~~~i~Ks~~~~~-  327 (352)
                      |+.++++++++||++||+++.++. +| +++..|.+|..|.|.+++|+.++|.+         +..|.++|.|+|..|+ 
T Consensus       182 L~~~a~~~~~~VI~~nq~~~~~~~-~f-g~~~~~~gG~~l~~~advrl~l~r~~~~k~g~~~~g~~~~~~i~K~r~~p~~  259 (356)
T 1u94_A          182 LAGNLKQSNTLLIFINQIRMKIGV-MF-GNPETTTGGNALKFYASVRLDIRRIGAVKEGENVVGSETRVKVVKNKIAAPF  259 (356)
T ss_dssp             HHHHHHHHTCEEEEEEC----------------CTTCSHHHHHCSEEEEEEEEEEEESSSSEEEEEEEEEEEEESSBCSC
T ss_pred             HHHHHHHhCCEEEEEeccccccCc-cc-CCCcccCCCcceeeeccEEEEEEEeeeeccCccccCcEEEEEECCCccCCCC
Confidence            999999999999999999986543 45 46678999999999999999999853         2468899999999985 


Q ss_pred             ccccccceeeeeEEE-eCCCcc
Q 047388          328 AEAISFSYHIILIKI-TPGGIA  348 (352)
Q Consensus       328 ~~~~~~~~~~~~f~I-~~~Gi~  348 (352)
                      +.+.        |.| .++||.
T Consensus       260 ~~~~--------f~i~~~~Gi~  273 (356)
T 1u94_A          260 KQAE--------FQILYGEGIN  273 (356)
T ss_dssp             CEEE--------EEEETTTEEC
T ss_pred             CcEE--------EEEEcCCCcC
Confidence            4454        999 688886

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=99.97  E-value=1.5e-31  Score=291.83  Aligned_cols=265  Identities=29%  Similarity=0.369  Sum_probs=205.4

Q ss_pred             hhhhcCChhhHHhhhC----CCHHHHHHHHHHHHHHhhcCCCchhhh--HH-hhhcccccccCChhhHHhhc-CCCCCCc
Q 047388           56 NGLMMHTKKHLTGIKG----LSEAKVEKICEAAEKIVNFGYITGSDA--LL-RRKAVIKITTGSQALDELLG-GGIETGA  127 (352)
Q Consensus        56 ~~~~~~~~~~l~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~-~~~~~~~i~TG~~~LD~~L~-GGl~~G~  127 (352)
                      ..+...++.+|.+.++    ++.+ ..+++..+.+.+..+|.++..+  .+ ......+++||+++||++++ ||+++|+
T Consensus       655 ~a~~~~~ps~L~e~~~~~~~v~~~-~~~~i~~a~~~i~~~f~~~~~~~l~~~~~~~~~~i~TG~~eLD~llggGGl~~G~  733 (2050)
T 3cmu_A          655 PNSTTGSTGSMGHTTGAMSAIDEN-KQKALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGR  733 (2050)
T ss_dssp             CCC----------------CCSTT-HHHHHHHHHHHHHHHHCTTSEEEGGGCTTTSCCEECCSCHHHHHHHSSSSEETTS
T ss_pred             hhcccCCHHHHHhhhccccCCcHH-HHHHHHHHHHHHHHhhccccccchhhhhhcccceeecCChHHHHHhccCCcCCCc
Confidence            6777888888877776    8865 6677777887776666665442  11 12467899999999999997 7999999


Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCCHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQY  207 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~  207 (352)
                      +++|+|+||+|||+||+++|.+++.      .+++|+||++|+++.+..    ++++|++.    +++++.+..+..++.
T Consensus       734 lilIaG~PG~GKTtLalqlA~~~a~------~g~~VlyiS~Ees~~ql~----A~rlG~~~----~~l~i~~~~~i~~i~  799 (2050)
T 3cmu_A          734 IVEIYGPESSGKTTLTLQVIAAAQR------EGKTCAFIDAEHALDPIY----ARKLGVDI----DNLLCSQPDTGEQAL  799 (2050)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHT------TTCCEEEECTTSCCCHHH----HHHTTCCT----TTCEEECCSSHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHh------cCCcEEEEECCCcHHHHH----HHHcCCCc----cceEEecCCCHHHHH
Confidence            9999999999999999999999887      467899999999977652    67888876    788888887777766


Q ss_pred             HHHHHHHHHhhcCCceEEEEcccccchh-cccCCC-c----chHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCC
Q 047388          208 NLLLGLAAKMSEEPFRLLIVDSVIALFR-VDFTGR-G----ELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGG  281 (352)
Q Consensus       208 ~~l~~l~~~l~~~~~~lvvIDsl~~l~~-~~~~~~-g----~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~  281 (352)
                      ..+.+   ...+.++++|||||++.+++ .++.++ +    ++..|  .+.++++.|+.+|+++|++||++||+++.++.
T Consensus       800 ~~~r~---l~~~~~~~LVIIDsLq~i~~~~~~~~~~Gs~~q~La~R--eis~ilr~Lk~lAke~~v~VI~l~Qv~r~~e~  874 (2050)
T 3cmu_A          800 EICDA---LARSGAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAAR--MMSQAMRKLAGNLKQSNTLLIFINQIRMKIGV  874 (2050)
T ss_dssp             HHHHH---HHHHTCCSEEEESCGGGCCCHHHHHSCTTCCCTTHHHH--HHHHHHHHHHHHHHTTTCEEEEEECCEECTTC
T ss_pred             HHHHH---HhhccCCCEEEEcchhhhcccccccCCCCchhhHHHHH--HHHHHHHHHHHHHHHhCCEEEEeccccccchh
Confidence            65544   33446899999999999987 443221 2    23444  37899999999999999999999999998765


Q ss_pred             CcccCCCCCCCcchhhhhccceEEEEEee----cC------CeEEEEEEeCCCCCcccccccceeeeeEEE-eCCCccCC
Q 047388          282 GVFISDPKKPAGGHVLAHAVTIRLMFRKG----KG------EQRVCKVFDAPNLPEAEAISFSYHIILIKI-TPGGIADA  350 (352)
Q Consensus       282 ~~~~~~~~~~~gg~~~~~~~~~~i~L~~~----~~------~~R~~~i~Ks~~~~~~~~~~~~~~~~~f~I-~~~Gi~~~  350 (352)
                       +| +++.+|+||+.|+|.+++|++|+|.    ++      +.|++++.++|..|..++.        |+| +++||.++
T Consensus       875 -~f-gdp~~p~GG~~l~h~a~~Rl~Lrr~~~~~~g~~~~G~~~Rv~~v~~sp~lp~~e~~--------f~I~~~~Gi~~~  944 (2050)
T 3cmu_A          875 -MF-GNPETTTGGNALKFYASVRLDIRRIGAVKEGENVVGSETRVKVVKNKIAAPFKQAE--------FQILYGEGINFY  944 (2050)
T ss_dssp             -CS-SCCEECSSHHHHHHHEEEEEEEEEEEEEEETTEEEEEEEEEEEEEESSSCSCCEEE--------EEEETTTEECHH
T ss_pred             -hc-CCCccccCCceeeeeeeEEEEEEeeccccccccccCCcceEEEEecCCCCCCceEE--------EEEEcCCCcccH
Confidence             45 7889999999999999999999986    45      5799999999999999998        999 99999853

>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=99.97  E-value=1e-30  Score=246.17  Aligned_cols=220  Identities=27%  Similarity=0.444  Sum_probs=167.9

Q ss_pred             hcccccccCChhhHHhhc-CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHH
Q 047388          103 KAVIKITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIA  181 (352)
Q Consensus       103 ~~~~~i~TG~~~LD~~L~-GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~  181 (352)
                      ....+++||++.||.+|+ ||+++|++++|+|+||+||||||++++.+++.      .+++|+|+++|+++++.    ++
T Consensus        37 ~~~~~i~TG~~~LD~~Lg~GGl~~G~iv~I~G~pGsGKTtLal~la~~~~~------~g~~vlyi~~E~~~~~~----~a  106 (349)
T 2zr9_A           37 QPISVIPTGSISLDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQA------AGGIAAFIDAEHALDPE----YA  106 (349)
T ss_dssp             CCCCEECCSCHHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHH------TTCCEEEEESSCCCCHH----HH
T ss_pred             ccCCccccCCHHHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHHHHh------CCCeEEEEECCCCcCHH----HH
Confidence            456789999999999999 99999999999999999999999999998876      57899999999987764    46


Q ss_pred             HHcCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchh-cccCCC-cch--HHHHHHHHHHHHH
Q 047388          182 ERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFR-VDFTGR-GEL--ADRQQKLGQMLSR  257 (352)
Q Consensus       182 ~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~-~~~~~~-g~~--~~r~~~l~~i~~~  257 (352)
                      +++|++.    +++.+.+..+.++..+++   ...+...++++|||||++.+++ .++.+. ++.  ..+.+.+.++++.
T Consensus       107 ~~lG~~~----~~l~i~~~~~~e~~l~~~---~~l~~~~~~~lIVIDsl~~l~~~~e~~~~~gd~~~~~q~r~~~~~l~~  179 (349)
T 2zr9_A          107 KKLGVDT----DSLLVSQPDTGEQALEIA---DMLVRSGALDIIVIDSVAALVPRAEIEGEMGDSHVGLQARLMSQALRK  179 (349)
T ss_dssp             HHTTCCG----GGCEEECCSSHHHHHHHH---HHHHTTTCCSEEEEECGGGCCCHHHHTTC----CCCHHHHHHHHHHHH
T ss_pred             HHcCCCH----HHeEEecCCCHHHHHHHH---HHHHhcCCCCEEEEcChHhhcchhhhccccccchhhHHHHHHHHHHHH
Confidence            7788887    677777777766655443   3344556899999999999984 333321 111  1223456788899


Q ss_pred             HHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeec---------CCeEEEEEEeCCCCCcc
Q 047388          258 LTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGK---------GEQRVCKVFDAPNLPEA  328 (352)
Q Consensus       258 L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~---------~~~R~~~i~Ks~~~~~~  328 (352)
                      |+.+++++|++||++||+++.++. +| +++..|.||..|.|.+++++.+++.+         +..|.++|.|+|..|+.
T Consensus       180 L~~~a~~~~~tVI~inh~~~~~~~-~~-~~p~~~~gg~~l~~~ad~~l~lrr~~~~k~g~~~~g~~~~~~i~K~~~~p~~  257 (349)
T 2zr9_A          180 MTGALNNSGTTAIFINELREKIGV-MF-GSPETTTGGKALKFYASVRLDVRRIETLKDGTDAVGNRTRVKVVKNKVSPPF  257 (349)
T ss_dssp             HHHHHHHHTCEEEEEEECC-------------CCSSHHHHHHHCSEEEEEEEEEEECSSSSCCEEEEEEEEEEESSSCCC
T ss_pred             HHHHHHHhCCEEEEEeccccccCc-cc-CCCcccCCchHhhhccceEEEEEEeeeeecCccccCCEEEEEeCCCccCCCC
Confidence            999999999999999999876532 34 45678999999999999999999852         24689999999999854


Q ss_pred             -cccccceeeeeEEE-eCCCccC
Q 047388          329 -EAISFSYHIILIKI-TPGGIAD  349 (352)
Q Consensus       329 -~~~~~~~~~~~f~I-~~~Gi~~  349 (352)
                       .+        .|.| .++||..
T Consensus       258 ~~~--------~fdi~~~~Gi~~  272 (349)
T 2zr9_A          258 KQA--------EFDILYGQGISR  272 (349)
T ss_dssp             CEE--------EEEEETTSCBCH
T ss_pred             ceE--------EEEEEeCCCcCc
Confidence             44        4999 6889863

>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=99.97  E-value=8.6e-31  Score=247.55  Aligned_cols=220  Identities=27%  Similarity=0.408  Sum_probs=164.9

Q ss_pred             hcccccccCChhhHHhhc-CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHH
Q 047388          103 KAVIKITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIA  181 (352)
Q Consensus       103 ~~~~~i~TG~~~LD~~L~-GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~  181 (352)
                      ....+++||++.||.+|+ |||++|++++|+|+||+|||+||++++.+++.      .+++|+||++|+++.+.    ++
T Consensus        50 ~~~~~i~TG~~~LD~~Lg~GGl~~G~li~I~G~pGsGKTtlal~la~~~~~------~g~~vlyi~~E~s~~~~----~a  119 (366)
T 1xp8_A           50 LDVQVVSTGSLSLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQAQK------AGGTCAFIDAEHALDPV----YA  119 (366)
T ss_dssp             CCCCEECCSCHHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHH------TTCCEEEEESSCCCCHH----HH
T ss_pred             ccCceecCCCHHHHHHhCCCCccCCcEEEEEcCCCCChHHHHHHHHHHHHH------CCCeEEEEECCCChhHH----HH
Confidence            456789999999999999 99999999999999999999999999999876      56799999999987764    46


Q ss_pred             HHcCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchh-cccCCC-cc--hHHHHHHHHHHHHH
Q 047388          182 ERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFR-VDFTGR-GE--LADRQQKLGQMLSR  257 (352)
Q Consensus       182 ~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~-~~~~~~-g~--~~~r~~~l~~i~~~  257 (352)
                      ++++++.    +++.+.+..+.++..+.+   ...+...++++|||||++.+++ .++.+. ++  ...+.+.+.++++.
T Consensus       120 ~~~g~d~----~~l~i~~~~~~e~~l~~l---~~l~~~~~~~lVVIDsl~~l~~~~e~~g~~gd~~~~~~~r~~~~~lr~  192 (366)
T 1xp8_A          120 RALGVNT----DELLVSQPDNGEQALEIM---ELLVRSGAIDVVVVDSVAALTPRAEIEGDMGDSLPGLQARLMSQALRK  192 (366)
T ss_dssp             HHTTCCG----GGCEEECCSSHHHHHHHH---HHHHTTTCCSEEEEECTTTCCCSTTC--------CCHHHHHHHHHHHH
T ss_pred             HHcCCCH----HHceeecCCcHHHHHHHH---HHHHhcCCCCEEEEeChHHhccccccccccccchhhHHHHHHHHHHHH
Confidence            7788886    677787777766655444   3444556899999999999984 444321 11  01233467889999


Q ss_pred             HHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeecC----------CeEEEEEEeCCCCCc
Q 047388          258 LTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKG----------EQRVCKVFDAPNLPE  327 (352)
Q Consensus       258 L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~----------~~R~~~i~Ks~~~~~  327 (352)
                      |+.++++++++||++||+++.++. +| +++..|.+|..|++.++++++|++...          ..|.++|.|+|..|+
T Consensus       193 L~~~a~~~~~~VI~~nq~~~~~~~-~f-g~p~~~~gg~al~~~a~~rl~L~r~~~~~k~~~~~~g~~~~v~v~Knr~~p~  270 (366)
T 1xp8_A          193 LTAILSKTGTAAIFINQVREKIGV-MY-GNPETTTGGRALKFYASVRLDVRKIGQPTKVGNDAVANTVKIKTVKNKVAAP  270 (366)
T ss_dssp             HHHHHTTTCCEEEEEEEC-----------------CHHHHHHHCSEEEEEEEESCCC------CEEEEEEEEEEESSSCC
T ss_pred             HHHHHHHcCCEEEEEEecccccCc-cc-CCccccCCcchhhheeeEEEEEEecchhcccCccccCCEEEEEEEcCCCCCC
Confidence            999999999999999999986543 34 566789999999999999999998652          468999999999986


Q ss_pred             ccccccceeeeeEEEe-CCCcc
Q 047388          328 AEAISFSYHIILIKIT-PGGIA  348 (352)
Q Consensus       328 ~~~~~~~~~~~~f~I~-~~Gi~  348 (352)
                      ....       .|.|. ++||.
T Consensus       271 ~~~~-------~f~i~~~~Gi~  285 (366)
T 1xp8_A          271 FKEV-------ELALVYGKGFD  285 (366)
T ss_dssp             CCEE-------EEEEETTTEEC
T ss_pred             CceE-------EEEEEeCCCcc
Confidence            4322       49997 77875

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=99.97  E-value=7.9e-31  Score=235.27  Aligned_cols=217  Identities=17%  Similarity=0.160  Sum_probs=160.6

Q ss_pred             hcccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHH
Q 047388          103 KAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAE  182 (352)
Q Consensus       103 ~~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~  182 (352)
                      .+.++++||++.||++|+|||++|++++|+|+||+|||+||+|+|.+.+..     .+.+|+|+++|++  +.++.+.+.
T Consensus         7 ~~i~ri~TGi~~LD~~l~GGl~~G~l~~i~G~pG~GKT~l~l~~~~~~~~~-----~~~~v~~~s~E~~--~~~~~~~~~   79 (251)
T 2zts_A            7 QPVRRVKSGIPGFDELIEGGFPEGTTVLLTGGTGTGKTTFAAQFIYKGAEE-----YGEPGVFVTLEER--ARDLRREMA   79 (251)
T ss_dssp             -CCCEECCSCTTTGGGTTTSEETTCEEEEECCTTSSHHHHHHHHHHHHHHH-----HCCCEEEEESSSC--HHHHHHHHH
T ss_pred             CCCCeecCCcHHHHHhhcCCCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHh-----cCCCceeecccCC--HHHHHHHHH
Confidence            467899999999999999999999999999999999999999999886542     4678999999986  777888888


Q ss_pred             HcCCCccccc--ccEEEEecC---------------CHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchH
Q 047388          183 RFGMDPGAVL--DNIIYARAY---------------TYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELA  245 (352)
Q Consensus       183 ~~~~~~~~~~--~~i~~~~~~---------------~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~  245 (352)
                      +++.+.+...  .++.+.+..               .......++..+...+...+++++|||+++.+......      
T Consensus        80 ~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vviD~~~~l~~~~~~------  153 (251)
T 2zts_A           80 SFGWDFEKYEKEGKIAIVDGVSSVVGLPSEEKFVLEDRFNVDNFLRYIYRVVKAINAKRLVIDSIPSIALRLEE------  153 (251)
T ss_dssp             TTTCCHHHHHHTTSEEEEC-------------------CCHHHHHHHHHHHHHHTTCSEEEEECHHHHHHHSSS------
T ss_pred             HcCCChHHHHhcCcchhhhhHHHHhhcccchhccccccccHHHHHHHHHHHHHhcCCcEEEEEcHHHHhhhccC------
Confidence            8777653221  122222111               01112234555666677789999999999988653211      


Q ss_pred             HHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeecC---CeEEEEEEeC
Q 047388          246 DRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKG---EQRVCKVFDA  322 (352)
Q Consensus       246 ~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~---~~R~~~i~Ks  322 (352)
                        ...+.+++..|+.+|+++|+++++++|+.....+.        ..+...+++.+|.++.|++...   ..|.+.|.|+
T Consensus       154 --~~~~~~~~~~L~~~a~~~~i~vi~~~q~~~~~~~~--------~~~~~~~~~~aD~vi~l~~~~~~~~~~R~l~I~K~  223 (251)
T 2zts_A          154 --ERKIREVLLKLNTILLEMGVTTILTTEAPDPQHGK--------LSRYGIEEFIARGVIVLDLQEKNIELKRYVLIRKM  223 (251)
T ss_dssp             --GGGHHHHHHHHHHHHHHHCCEEEEEECCC----CC--------SSSSSCGGGGCSEEEEEEEEECSSSEEEEEEEEEE
T ss_pred             --hHHHHHHHHHHHHHHHHcCCCeEEEEEEecccccc--------cccCCceeEEeeEEEEEEEEecCCeEEEEEEEEEc
Confidence              12345788999999999999999999997643322        3455678899999999987532   3689999999


Q ss_pred             CCCCcccccccceeeeeEEEeCCCcc
Q 047388          323 PNLPEAEAISFSYHIILIKITPGGIA  348 (352)
Q Consensus       323 ~~~~~~~~~~~~~~~~~f~I~~~Gi~  348 (352)
                      |+.|.....      .+|+|+++||+
T Consensus       224 R~~~~~~~~------~~f~It~~Gi~  243 (251)
T 2zts_A          224 RETRHSMKK------YPFEIGPNGIV  243 (251)
T ss_dssp             TTCCCCCBE------EEEEEETTEEE
T ss_pred             CCCCCCCEE------EEEEEeCCcEE
Confidence            998865432      56999999997

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=99.96  E-value=5.9e-28  Score=216.15  Aligned_cols=211  Identities=19%  Similarity=0.205  Sum_probs=156.4

Q ss_pred             cccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcC
Q 047388          106 IKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFG  185 (352)
Q Consensus       106 ~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~  185 (352)
                      .+++||++.||++|+||+++|++++|+|+||+|||||+++++.+.+.      .+++|+|+++|.+  ...+.+.+.+++
T Consensus         3 ~~i~tG~~~LD~~l~gGl~~G~~~~i~G~~GsGKTtl~~~~~~~~~~------~~~~v~~~~~e~~--~~~~~~~~~~~g   74 (247)
T 2dr3_A            3 RRVKTGIPGVDEILHGGIPERNVVLLSGGPGTGKTIFSQQFLWNGLK------MGEPGIYVALEEH--PVQVRQNMAQFG   74 (247)
T ss_dssp             CEECCCCTTHHHHTTTSEETTCEEEEEECTTSSHHHHHHHHHHHHHH------TTCCEEEEESSSC--HHHHHHHHHTTT
T ss_pred             ccccCCchhHHHHcCCCCCCCcEEEEECCCCCCHHHHHHHHHHHHHh------cCCeEEEEEccCC--HHHHHHHHHHcC
Confidence            47999999999999999999999999999999999999999988775      5789999999986  667777777888


Q ss_pred             CCccccc--ccEEEEecC----------------CHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHH
Q 047388          186 MDPGAVL--DNIIYARAY----------------TYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADR  247 (352)
Q Consensus       186 ~~~~~~~--~~i~~~~~~----------------~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r  247 (352)
                      ++++.+.  .++.+....                ......++...+.+.+...++++||||+++.+...+      ..++
T Consensus        75 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~vviD~~~~l~~~~------~~~~  148 (247)
T 2dr3_A           75 WDVKPYEEKGMFAMVDAFTAGIGKSKEYEKYIVHDLTDIREFIEVLRQAIRDINAKRVVVDSVTTLYINK------PAMA  148 (247)
T ss_dssp             CCCHHHHHHTSEEEEECSTTTTCC--CCCSCBCSCCSSHHHHHHHHHHHHHHHTCCEEEEETSGGGTTTC------GGGH
T ss_pred             CCHHHHhhCCcEEEEecchhhcccccccccccccCccCHHHHHHHHHHHHHHhCCCEEEECCchHhhcCC------HHHH
Confidence            8765432  245554410                111233344455555555689999999999886321      1111


Q ss_pred             HHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeec--C-CeEEEEEEeCCC
Q 047388          248 QQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGK--G-EQRVCKVFDAPN  324 (352)
Q Consensus       248 ~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~--~-~~R~~~i~Ks~~  324 (352)
                          .+++..|.++++++|++||+++|..+..  .        ...+..|.+.+|.++.|++..  + ..|.++|.|+|+
T Consensus       149 ----~~~l~~l~~~~~~~~~~vi~~~h~~~~~--~--------~~~~~~~~~~~D~vi~L~~~~~~~~~~r~l~v~K~R~  214 (247)
T 2dr3_A          149 ----RSIILQLKRVLAGTGCTSIFVSQVSVGE--R--------GFGGPGVEHGVDGIIRLDLDEIDGELKRSLIVWKMRG  214 (247)
T ss_dssp             ----HHHHHHHHHHHHHTTCEEEEEEECC--------------CCC-CCHHHHSSEEEEEEEEEETTEEEEEEEEEEETT
T ss_pred             ----HHHHHHHHHHHHHCCCeEEEEecCCCCc--c--------cccccccceeEEEEEEEEEEccCCeeEEEEEEEECCC
Confidence                2566778888899999999999998732  1        112235889999999998753  2 368999999999


Q ss_pred             CCcccccccceeeeeEEEeCCCccCC
Q 047388          325 LPEAEAISFSYHIILIKITPGGIADA  350 (352)
Q Consensus       325 ~~~~~~~~~~~~~~~f~I~~~Gi~~~  350 (352)
                      .+....      +.+|+|+++||+..
T Consensus       215 ~~~~~~------~~~f~i~~~Gi~~~  234 (247)
T 2dr3_A          215 TSHSMR------RHPFDITDKGIIVY  234 (247)
T ss_dssp             SCCCCB------CEEEEEETTEEEEC
T ss_pred             CCCCCc------eEEEEEcCCCEEEe
Confidence            887532      35799999999853

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=99.95  E-value=1.1e-27  Score=261.81  Aligned_cols=280  Identities=26%  Similarity=0.375  Sum_probs=195.4

Q ss_pred             CCHHHHHHHHHcCCCchhhhhcCChhhHHhhhC---------CC-HHHHHHHHHHHHHHhhcCCCchhhh--HH-hhhcc
Q 047388           39 INAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKG---------LS-EAKVEKICEAAEKIVNFGYITGSDA--LL-RRKAV  105 (352)
Q Consensus        39 ~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~---------~~-~~~~~~~~~~~~~~~~~~~~~~~~~--~~-~~~~~  105 (352)
                      ..|...+.+.+    .+.+....++.+|...+|         ++ ..+..++++.+.......|.++.-+  .+ .....
T Consensus       286 ~~p~l~~eI~~----~Ire~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~l~~a~~~i~~~~g~~~~~~l~~~~~~~~  361 (2050)
T 3cmu_A          286 DNPETAKEIEK----KVRELLLSNPNSTTGSTGSGTTGSTGSMAIDENKQKALAAALGQIEKQFGKGSIMRLGEDRSMDV  361 (2050)
T ss_dssp             TCHHHHHHHHH----HHHHHHC---------------------CCSTTHHHHHHHHHHHHHHHHCTTSEEEGGGCTTTSC
T ss_pred             cChHHHHHHHH----HHHHHhccChhhhhccccccccccccccccchhHHHHHHHHHHHHHHhhCcCcceecccccccCC
Confidence            34555555543    355666666666766555         21 0122344444444443334333322  11 22456


Q ss_pred             cccccCChhhHHhhc-CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHc
Q 047388          106 IKITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERF  184 (352)
Q Consensus       106 ~~i~TG~~~LD~~L~-GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~  184 (352)
                      .+++||++.||.+|+ |||++|++++|+||||+|||+||++++.+++.      .+.+|+||++|+++++.    +++++
T Consensus       362 ~~I~TG~~~LD~lLG~GGl~~G~lilI~G~pGsGKTtLaLqia~~~a~------~G~~vlyis~E~s~~~~----~a~~l  431 (2050)
T 3cmu_A          362 ETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQR------EGKTCAFIDAEHALDPI----YARKL  431 (2050)
T ss_dssp             CEECCSCHHHHHHHSSSSEETTSEEEEECCTTSSHHHHHHHHHHHHHT------TTCCEEEECTTSCCCHH----HHHHT
T ss_pred             ceeeCCCHHHHHHhccCCccCCcEEEEEeCCCCCHHHHHHHHHHHHHh------cCCeEEEEEcCCCHHHH----HHHHc
Confidence            789999999999999 99999999999999999999999999999886      56799999999998765    37788


Q ss_pred             CCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchh-cccCCC-cc--hHHHHHHHHHHHHHHHH
Q 047388          185 GMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFR-VDFTGR-GE--LADRQQKLGQMLSRLTK  260 (352)
Q Consensus       185 ~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~-~~~~~~-g~--~~~r~~~l~~i~~~L~~  260 (352)
                      |++.    +++++.+..+.++..+.+   ...+...++++|||||++.+++ .++.+. ++  ...+.+.+.++++.|+.
T Consensus       432 Gvd~----~~L~I~~~~~~e~il~~~---~~lv~~~~~~lIVIDSL~al~~~~e~eg~~Gd~~~~~q~R~is~~Lr~L~~  504 (2050)
T 3cmu_A          432 GVDI----DNLLCSQPDTGEQALEIC---DALARSGAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAG  504 (2050)
T ss_dssp             TCCT----TTCEEECCSSHHHHHHHH---HHHHHHTCCSEEEESCGGGCCCHHHHHSCTTCCCTTHHHHHHHHHHHHHHH
T ss_pred             CCCH----HHeEEeCCCCHHHHHHHH---HHHHHhcCCcEEEECCHHHhhcccccccccccchhhHHHHHHHHHHHHHHH
Confidence            8887    678888877776655443   3445567899999999999984 433221 11  11233457788888999


Q ss_pred             HHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeec----C-----CeEEEEEEeCCCCCccccc
Q 047388          261 ISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGK----G-----EQRVCKVFDAPNLPEAEAI  331 (352)
Q Consensus       261 la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~----~-----~~R~~~i~Ks~~~~~~~~~  331 (352)
                      +++++|++||++||+++.++. +| +++..|+||..|+|.+|++++|+|..    +     ..+.+++.|+|..|++...
T Consensus       505 lake~~i~VIlinQl~~~vg~-~~-g~p~~psGg~ale~~ADv~l~L~R~~~~~~g~~~~g~~~~v~V~KnR~gp~g~~~  582 (2050)
T 3cmu_A          505 NLKQSNTLLIFINQIRMKIGV-MF-GNPETTTGGNALKFYASVRLDIRRIGAVKEGENVVGSETRVKVVKNKIAAPFKQA  582 (2050)
T ss_dssp             HHHTTTCEEEEEECCEECTTC-CS-SCCEECSSHHHHHHHEEEEEEEEEEEEEEETTEEEEEEEEEEEEEESSSCSCCEE
T ss_pred             HHHHcCCeEEEEeeccccccc-cc-CCCcCCCCcchhhhhCCEEEEEEecccccCCccccCcEEEEEEEecCCCCCCceE
Confidence            999999999999999987643 34 46678999999999999999999853    2     2467999999999987543


Q ss_pred             ccceeeeeEEE-eCCCcc
Q 047388          332 SFSYHIILIKI-TPGGIA  348 (352)
Q Consensus       332 ~~~~~~~~f~I-~~~Gi~  348 (352)
                             .|+| .+.||.
T Consensus       583 -------~f~I~~~~Gi~  593 (2050)
T 3cmu_A          583 -------EFQILYGEGIN  593 (2050)
T ss_dssp             -------EEEEETTTEEC
T ss_pred             -------EEEEEeCCCcc
Confidence                   4887 677775

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=99.95  E-value=1.6e-27  Score=258.13  Aligned_cols=220  Identities=28%  Similarity=0.412  Sum_probs=176.2

Q ss_pred             hcccccccCChhhHHhhc-CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHH
Q 047388          103 KAVIKITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIA  181 (352)
Q Consensus       103 ~~~~~i~TG~~~LD~~L~-GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~  181 (352)
                      ....+++||++.||.+|+ |||++|++++|+|+||+|||+||++++.+++.      .+++|+||++|+++++.    ++
T Consensus       359 ~~~~~isTGi~~LD~lLg~GGl~~G~lilI~G~pGsGKTtLaLq~a~~~~~------~G~~vlyis~E~s~~~~----~a  428 (1706)
T 3cmw_A          359 MDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQR------EGKTCAFIDAEHALDPI----YA  428 (1706)
T ss_dssp             GSCCEECCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHH------TTCCEEEECTTSCCCHH----HH
T ss_pred             ccCceeccCcHHHHHHhccCCcCCCcEEEEEeCCCCCHHHHHHHHHHHHHH------hCCCeEEEEccCchHHH----HH
Confidence            457799999999999999 99999999999999999999999999999887      57899999999997764    37


Q ss_pred             HHcCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchh-cccCCC-c--chHHHHHHHHHHHHH
Q 047388          182 ERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFR-VDFTGR-G--ELADRQQKLGQMLSR  257 (352)
Q Consensus       182 ~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~-~~~~~~-g--~~~~r~~~l~~i~~~  257 (352)
                      +++|++.    +++.+.+..+.++..+.+   ...+...++++|||||++.+++ .++.+. +  ....+.+.+.++++.
T Consensus       429 ~~lGvd~----~~L~i~~~~~~e~~l~~l---~~lv~~~~~~lVVIDSL~al~~~~e~e~~~g~~~~~~q~r~~s~~Lr~  501 (1706)
T 3cmw_A          429 RKLGVDI----DNLLCSQPDTGEQALEIC---DALARSGAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRK  501 (1706)
T ss_dssp             HHTTCCG----GGCEEECCSSHHHHHHHH---HHHHHHTCCSEEEESCSTTCCCHHHHHSCTTCCCTTHHHHHHHHHHHH
T ss_pred             HHcCCCH----HHeEEcCCCCHHHHHHHH---HHHHHhcCCCEEEECCHHHhhccccccccccccchhHHHHHHHHHHHH
Confidence            7889887    677787777766655443   3445567899999999999985 332211 1  112344567899999


Q ss_pred             HHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeec---------CCeEEEEEEeCCCCCcc
Q 047388          258 LTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGK---------GEQRVCKVFDAPNLPEA  328 (352)
Q Consensus       258 L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~---------~~~R~~~i~Ks~~~~~~  328 (352)
                      |+.+++++|++||++||+++.++. +| +++..|+||..|+|.+|++++|++.+         +..|.++|.|+|..|++
T Consensus       502 L~~~ak~~~v~VI~inQl~~~vg~-~f-g~~~~p~gg~ale~~ADv~L~L~R~~~~~~g~~~~~~~~~l~V~KnR~gp~~  579 (1706)
T 3cmw_A          502 LAGNLKQSNTLLIFINQIRMKIGV-MF-GNPETTTGGNALKFYASVRLDIRRIGAVKEGENVVGSETRVKVVKNKIAAPF  579 (1706)
T ss_dssp             HHHHHHHHTCEEEEEECEEECTTC-CS-SCCEEESSCSHHHHHEEEEEEEEEEEEEEETTEEEEEEEEEEEEEESSSCSC
T ss_pred             HHHHHHHcCCEEEEEeeccccccc-cc-CCCccCCCCcceeeeCCEEEEEEeccccccCccccCcEEEEEEEecCCCCCC
Confidence            999999999999999999987643 34 45678899999999999999999853         23578999999999987


Q ss_pred             cccccceeeeeEEE-eCCCcc
Q 047388          329 EAISFSYHIILIKI-TPGGIA  348 (352)
Q Consensus       329 ~~~~~~~~~~~f~I-~~~Gi~  348 (352)
                      ...       .|.| .+.||.
T Consensus       580 ~~~-------~F~I~~~~Gi~  593 (1706)
T 3cmw_A          580 KQA-------EFQILYGEGIN  593 (1706)
T ss_dssp             CEE-------EEEEETTTEEC
T ss_pred             CeE-------EEEEecCCCcc
Confidence            543       4775 566665

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=99.95  E-value=1.1e-26  Score=216.27  Aligned_cols=212  Identities=13%  Similarity=0.077  Sum_probs=153.6

Q ss_pred             cccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHH
Q 047388          104 AVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAER  183 (352)
Q Consensus       104 ~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~  183 (352)
                      ...+++||++.||+++ |||++|++++|+|+||+|||+|+++++.+++.      .+.+|+||++|++  ...+..++..
T Consensus        47 ~~~~i~TG~~~LD~~l-gGl~~G~l~li~G~pG~GKTtl~l~ia~~~a~------~g~~vl~~slE~s--~~~l~~R~~~  117 (315)
T 3bh0_A           47 NITGVPSGFTELDRMT-YGYKRRNFVLIAARPSMGKTAFALKQAKNMSD------NDDVVNLHSLEMG--KKENIKRLIV  117 (315)
T ss_dssp             SCCSBCCSCHHHHHHH-SSBCTTCEEEEECCTTSSHHHHHHHHHHHHHT------TTCEEEEEESSSC--HHHHHHHHHH
T ss_pred             CCCCccCChHHHHhhc-CCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHH------cCCeEEEEECCCC--HHHHHHHHHH
Confidence            3568999999999999 99999999999999999999999999999876      4589999999976  5555444432


Q ss_pred             --cCCCcccc-----------------------cccEEEEecCCHHHHHHHHHHHHHHhhcCCce--EEEEcccccchhc
Q 047388          184 --FGMDPGAV-----------------------LDNIIYARAYTYEHQYNLLLGLAAKMSEEPFR--LLIVDSVIALFRV  236 (352)
Q Consensus       184 --~~~~~~~~-----------------------~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~--lvvIDsl~~l~~~  236 (352)
                        .+++...+                       ..++++..... ....++...+.+...+++++  +|||||++.+...
T Consensus       118 ~~~~i~~~~l~~~~~~l~~~~~~~l~~a~~~l~~~~i~i~d~~~-~~~~~i~~~i~~l~~~~~~~~~lVVID~l~~l~~~  196 (315)
T 3bh0_A          118 TAGSINAQKIKAARRDFASEDWGKLSMAIGEISNSNINIFDKAG-QSVNYIWSKTRQTKRKNPGKRVIVMIDYLQLLEPA  196 (315)
T ss_dssp             HHTTCCHHHHHSCHHHHCSSCHHHHHHHHHHHHTSCEEEECCSC-CBHHHHHHHHHHHHHTSSSCCEEEEEECGGGSBCS
T ss_pred             HHcCCCHHHHhcCCCCCCHHHHHHHHHHHHHHhCCCEEEECCCC-CCHHHHHHHHHHHHHhcCCCCeEEEEeCchhcCCC
Confidence              24432111                       02455554422 12233444455555666888  9999999998642


Q ss_pred             ccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCC--CCCcchhhhhccceEEEEEeec---
Q 047388          237 DFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPK--KPAGGHVLAHAVTIRLMFRKGK---  311 (352)
Q Consensus       237 ~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~--~~~gg~~~~~~~~~~i~L~~~~---  311 (352)
                      .     ....|+..+.++++.|+.+|+++|++||+++|+++..+.. ....|.  ...++..+++.+|++++|++..   
T Consensus       197 ~-----~~~~r~~~i~~~~~~Lk~lAk~~~i~vi~lsql~r~~e~r-~~~~p~l~dlr~sg~ie~~aD~vi~L~r~~~~~  270 (315)
T 3bh0_A          197 K-----ANDSRTNQISQISRDLKKMARELDVVVIALSQLSRQVEQR-QDKRPMLSDLRESGQLEQDADIIEFLYRDDYYD  270 (315)
T ss_dssp             C-----TTSCHHHHHHHHHHHHHHHHHHHTCEEEEEECCCGGGTTS-SSCCCCGGGGTTTSHHHHHCSEEEEEEEHHHHC
T ss_pred             C-----CCCCHHHHHHHHHHHHHHHHHHhCCeEEEEeecCcccccC-CCCCCCHHHhhhhhhhHhhCCEEEEEecccccC
Confidence            1     1123445678999999999999999999999998755432 000110  1245567999999999999853   


Q ss_pred             -----CCeEEEEEEeCCCCCccccc
Q 047388          312 -----GEQRVCKVFDAPNLPEAEAI  331 (352)
Q Consensus       312 -----~~~R~~~i~Ks~~~~~~~~~  331 (352)
                           ...+.+.|.|+|+++.+.+.
T Consensus       271 ~~~~~~~~~~l~v~K~R~G~~g~~~  295 (315)
T 3bh0_A          271 KESESKNIVEVIIAKHRDGPVGTVS  295 (315)
T ss_dssp             TTCTTTTEEEEEEEEETTSCCEEEE
T ss_pred             ccccCCCcEEEEEECCcCCCCceEE
Confidence                 24678999999999988654

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=99.95  E-value=8.6e-27  Score=252.49  Aligned_cols=246  Identities=28%  Similarity=0.374  Sum_probs=186.3

Q ss_pred             HHHHHHHHHHHhhcCCCchhhh--HH-hhhcccccccCChhhHHhhc-CCCCCCcEEEEecCCCCChhHHHHHHHHHhcC
Q 047388           77 VEKICEAAEKIVNFGYITGSDA--LL-RRKAVIKITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLAHTLCVCTQL  152 (352)
Q Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~--~~-~~~~~~~i~TG~~~LD~~L~-GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~  152 (352)
                      ..+++..+.+.....|..+..+  .+ ......+++||+++||++|+ ||+++|++++|+|+||+|||+|+++++.+++.
T Consensus       679 ~~~~l~~~~~~ie~~~~~g~~~~l~~~~~~~~~~i~TG~~eLD~lLg~GGl~~G~lVlI~G~PG~GKTtLal~lA~~aa~  758 (1706)
T 3cmw_A          679 KQKALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQR  758 (1706)
T ss_dssp             HHHHHHHHHHHHHHHHCGGGSEEGGGCGGGSCCEECCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhccCCcccccccccccccccccCcHHHHHHhccCCcCCCceEEEECCCCCCcHHHHHHHHHHHHH
Confidence            3445555554444333332221  11 12356799999999999998 99999999999999999999999999999886


Q ss_pred             CCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEccccc
Q 047388          153 PTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIA  232 (352)
Q Consensus       153 ~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~  232 (352)
                            .+++|+||++|+++.+.    ++++++++.    +++++.+..+..+..+.   +.+.+...++++|||||++.
T Consensus       759 ------~g~~VlyiS~Ees~~ql----~A~~lGvd~----~~L~i~~~~~leei~~~---l~~lv~~~~~~lVVIDsLq~  821 (1706)
T 3cmw_A          759 ------EGKTCAFIDAEHALDPI----YARKLGVDI----DNLLCSQPDTGEQALEI---CDALARSGAVDVIVVDSVAA  821 (1706)
T ss_dssp             ------TTCCEEEECTTSCCCHH----HHHHTTCCG----GGCEEECCSSHHHHHHH---HHHHHHHTCCSEEEESCSTT
T ss_pred             ------cCCCeEEEeccchHHHH----HHHHcCCCh----hheEEecCCcHHHHHHH---HHHHHHccCCCEEEEechhh
Confidence                  56799999999997664    378888887    67788877766654443   44455567899999999999


Q ss_pred             chh-cccCCC-cc--hHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEE
Q 047388          233 LFR-VDFTGR-GE--LADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFR  308 (352)
Q Consensus       233 l~~-~~~~~~-g~--~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~  308 (352)
                      +++ .++.+. ++  +..+.+.+.++++.|+.+++++|++||++||+++.++. +| +++..|.++..|+|.+|++++|+
T Consensus       822 l~~~~e~~~~~G~~~~~~q~reis~~Lr~Lk~lAke~gi~VIlinql~r~~g~-~~-Gdp~~p~gs~~Leq~ADvvl~L~  899 (1706)
T 3cmw_A          822 LTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKIGV-MF-GNPETTTGGNALKFYASVRLDIR  899 (1706)
T ss_dssp             CCCHHHHHSCTTCCCTTHHHHHHHHHHHHHHHHHHHHTCEEEEEECEEECTTC-CS-SCCEEESSCSHHHHHEEEEEEEE
T ss_pred             hccccccccccCccchhHHHHHHHHHHHHHHHHHHHcCCEEEEEecCCCcccc-cc-CCccccCCcchhhheeeEEEEEE
Confidence            974 332221 12  12233467888999999999999999999999987643 34 46677899999999999999998


Q ss_pred             eec---------CCeEEEEEEeCCCCCcccccccceeeeeEEE-eCCCcc
Q 047388          309 KGK---------GEQRVCKVFDAPNLPEAEAISFSYHIILIKI-TPGGIA  348 (352)
Q Consensus       309 ~~~---------~~~R~~~i~Ks~~~~~~~~~~~~~~~~~f~I-~~~Gi~  348 (352)
                      |..         +..|.+++.|+|..|+++..       .|+| .+.||.
T Consensus       900 R~~~~~~g~~~~g~~r~l~V~KnR~gp~~~~~-------~F~I~~~~Gi~  942 (1706)
T 3cmw_A          900 RIGAVKEGENVVGSETRVKVVKNKIAAPFKQA-------EFQILYGEGIN  942 (1706)
T ss_dssp             EEEEEEETTEEEEEEEEEEEEEESSSCSCCEE-------EEEEETTTEEC
T ss_pred             ecccccccccccCcEEEEEEEecCCCCCCceE-------EEEEEcCCCcc
Confidence            753         23689999999999987543       5999 787875

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=99.94  E-value=5.8e-26  Score=224.45  Aligned_cols=228  Identities=11%  Similarity=0.088  Sum_probs=163.5

Q ss_pred             hcCCCchhhhHHhh------hccccccc-CChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCC
Q 047388           89 NFGYITGSDALLRR------KAVIKITT-GSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNG  161 (352)
Q Consensus        89 ~~~~~~~~~~~~~~------~~~~~i~T-G~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~  161 (352)
                      ..++.++.++.+..      ....+++| |++.||+++ ||+++|++++|+|+||+|||+|++++|.+++..     .+.
T Consensus       199 ~~~i~~~~~~~~~i~~~~~~~~~~~i~t~G~~~LD~~l-gGl~~G~l~li~G~pG~GKT~lal~~a~~~a~~-----~g~  272 (503)
T 1q57_A          199 PDGVVSALSLRERIREHLSSEESVGLLFSGCTGINDKT-LGARGGEVIMVTSGSGMVMSTFVRQQALQWGTA-----MGK  272 (503)
T ss_dssp             CSSEEEGGGGHHHHHHHHHHSCTTCSCCSSCTTHHHHH-CCCCTTCEEEEEESSCHHHHHHHHHHHHHHTTT-----SCC
T ss_pred             HHHhcChHHHHHHHHhhhcccccCCccccchhhhhHhh-cccCCCeEEEEeecCCCCchHHHHHHHHHHHHh-----cCC
Confidence            44555666665432      34678999 999999999 699999999999999999999999999998862     267


Q ss_pred             eEEEEeCCCCCChhhHHHH--HHHcCCCccc--------------------c--cccEEEEecCCHHHHHHHHHHHHHHh
Q 047388          162 KVAYIDTEGTFRPDRIVPI--AERFGMDPGA--------------------V--LDNIIYARAYTYEHQYNLLLGLAAKM  217 (352)
Q Consensus       162 ~vl~i~~e~~~~~~rl~~~--~~~~~~~~~~--------------------~--~~~i~~~~~~~~~~~~~~l~~l~~~l  217 (352)
                      +|+||++|++  ..++...  +...+++...                    +  ..++++.+........+++..+.+..
T Consensus       273 ~vl~~s~E~s--~~~l~~r~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~~~~l~i~~~~~~~~~~~i~~~i~~~~  350 (503)
T 1q57_A          273 KVGLAMLEES--VEETAEDLIGLHNRVRLRQSDSLKREIIENGKFDQWFDELFGNDTFHLYDSFAEAETDRLLAKLAYMR  350 (503)
T ss_dssp             CEEEEESSSC--HHHHHHHHHHHHTTSCCTTCHHHHHHHHHTSHHHHHHHHHHTTTCEEEECCC---CHHHHHHHHHHHH
T ss_pred             cEEEEeccCC--HHHHHHHHHHHHcCCChhhccccccCCCCHHHHHHHHHHHhccCCEEEECCCCCCCHHHHHHHHHHHH
Confidence            9999999987  5555443  3444554321                    0  13466665432233445555666666


Q ss_pred             hcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCc---ccCCC--CCCC
Q 047388          218 SEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGV---FISDP--KKPA  292 (352)
Q Consensus       218 ~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~---~~~~~--~~~~  292 (352)
                      .++++++|||||++.+....   .  ...|++.+.++++.|+.+|+++|++||+++|+++ .++..   -...+  ....
T Consensus       351 ~~~~~~lvVID~l~~l~~~~---~--~~~~~~~~~~~~~~Lk~lak~~~i~vi~~~q~~r-~~~~~~~~~~~~p~l~dlr  424 (503)
T 1q57_A          351 SGLGCDVIILDHISIVVSAS---G--ESDERKMIDNLMTKLKGFAKSTGVVLVVICHLKN-PDKGKAHEEGRPVSITDLR  424 (503)
T ss_dssp             HTTCCSEEEEECTTCCCSCC---S--CCCHHHHHHHHHHHHHHHHHHHTCEEEEEEECCC-CSSSSCSTTCCCCCSSSCS
T ss_pred             HhcCCCEEEEccchhcCCCC---C--CCCHHHHHHHHHHHHHHHHHHHCCeEEEEEcCCc-hhccCccccCCCCChhhhc
Confidence            67799999999999875321   1  1234456789999999999999999999999997 33210   00011  1235


Q ss_pred             cchhhhhccceEEEEEeecC----CeEEEEEEeCC-CCCcccc
Q 047388          293 GGHVLAHAVTIRLMFRKGKG----EQRVCKVFDAP-NLPEAEA  330 (352)
Q Consensus       293 gg~~~~~~~~~~i~L~~~~~----~~R~~~i~Ks~-~~~~~~~  330 (352)
                      ++..+++.+|++|+|++...    ..|.+.|.|+| +++.+..
T Consensus       425 ~s~~ie~~aD~vi~l~r~~~~~~~~~~~l~v~K~R~~G~~g~~  467 (503)
T 1q57_A          425 GSGALRQLSDTIIALERNQQGDMPNLVLVRILKCRFTGDTGIA  467 (503)
T ss_dssp             SSSHHHHHCSEEEEEEECSSSSCTTEEEEEEEEETTTCCCEEE
T ss_pred             cchHhhecCcEEEEEEeCCcCCCCCeEEEEEEeccCCCCCCce
Confidence            67789999999999998642    46899999999 7888765

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=99.94  E-value=9.1e-26  Score=219.60  Aligned_cols=212  Identities=17%  Similarity=0.181  Sum_probs=151.6

Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHH--HH
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPI--AE  182 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~--~~  182 (352)
                      ..+++||++.||+++ ||+++|++++|+|+||+|||+||++++.+++..     .+.+|+||++|++  ...+..+  +.
T Consensus       180 ~~~i~tG~~~LD~~l-gGl~~G~l~ii~G~pg~GKT~lal~ia~~~a~~-----~g~~vl~~slE~~--~~~l~~R~~~~  251 (444)
T 2q6t_A          180 VAGVRTGFKELDQLI-GTLGPGSLNIIAARPAMGKTAFALTIAQNAALK-----EGVGVGIYSLEMP--AAQLTLRMMCS  251 (444)
T ss_dssp             ---CCCSCHHHHHHH-CCCCTTCEEEEEECTTSCHHHHHHHHHHHHHHT-----TCCCEEEEESSSC--HHHHHHHHHHH
T ss_pred             CCcccCCCHhhhhhc-CCcCCCcEEEEEeCCCCCHHHHHHHHHHHHHHh-----CCCeEEEEECCCC--HHHHHHHHHHH
Confidence            468999999999999 999999999999999999999999999998762     3678999999987  5444443  34


Q ss_pred             HcCCCccccc---------------------ccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCC
Q 047388          183 RFGMDPGAVL---------------------DNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGR  241 (352)
Q Consensus       183 ~~~~~~~~~~---------------------~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~  241 (352)
                      ..+++...+.                     .++++.+... ....++...+.+...++++++||||+++.+.... .+.
T Consensus       252 ~~~i~~~~l~~g~l~~~~~~~~~~a~~~l~~~~l~i~d~~~-~s~~~l~~~~~~l~~~~~~~lIvID~l~~~~~~~-~~~  329 (444)
T 2q6t_A          252 EARIDMNRVRLGQLTDRDFSRLVDVASRLSEAPIYIDDTPD-LTLMEVRARARRLVSQNQVGLIIIDYLQLMSGPG-SGK  329 (444)
T ss_dssp             HTTCCTTTCCGGGCCHHHHHHHHHHHHHHHTSCEEEECCTT-CBHHHHHHHHHHHHHHSCCCEEEEECGGGCBCC-----
T ss_pred             HcCCCHHHHhCCCCCHHHHHHHHHHHHHHhcCCEEEECCCC-CCHHHHHHHHHHHHHHcCCCEEEEcChhhcCCCc-CCC
Confidence            4555443221                     1345544321 1123334445555556789999999999985421 011


Q ss_pred             cchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCC-----cchhhhhccceEEEEEeecC----
Q 047388          242 GELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPA-----GGHVLAHAVTIRLMFRKGKG----  312 (352)
Q Consensus       242 g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~-----gg~~~~~~~~~~i~L~~~~~----  312 (352)
                       ....|++.+.++++.|+.+|++++++||+++|+++..+..    ..+.|.     ++..+++.+|++++|.+...    
T Consensus       330 -~~~~r~~~i~~i~~~Lk~lAke~~v~vi~lsql~r~~e~r----~~~~p~l~dlr~Sg~ie~~aD~vi~L~r~~~~~~~  404 (444)
T 2q6t_A          330 -SGENRQQEIAAISRGLKALARELGIPIIALSQLSRAVEAR----PNKRPMLSDLRESGSIEQDADLVMFIYRDEYYNPH  404 (444)
T ss_dssp             ----CHHHHHHHHHHHHHHHHHHHTSCEEEEEECCGGGGSS----SSCSCCGGGGGGGCTTGGGCSEEEEEEEGGGTCSS
T ss_pred             -CCCCHHHHHHHHHHHHHHHHHHhCCeEEEEecCCcccccC----CCCCCChHHhcchhHHHHhCCEEEEEecccccCCc
Confidence             1124556788999999999999999999999998854432    112344     34478999999999998631    


Q ss_pred             ----CeEEEEEEeCCCCCccccc
Q 047388          313 ----EQRVCKVFDAPNLPEAEAI  331 (352)
Q Consensus       313 ----~~R~~~i~Ks~~~~~~~~~  331 (352)
                          ..|.+.|.|+|++|.+...
T Consensus       405 ~~~~~~~~l~i~K~R~g~~g~~~  427 (444)
T 2q6t_A          405 SEKAGIAEIIVGKQRNGPTGTVE  427 (444)
T ss_dssp             SSCCSEEEEEEEECSSSCCEEEE
T ss_pred             CCCCCeEEEEEEecCCCCceEEE
Confidence                4688999999999988654

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=99.93  E-value=3.9e-26  Score=212.84  Aligned_cols=210  Identities=16%  Similarity=0.204  Sum_probs=153.2

Q ss_pred             hcccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHH-
Q 047388          103 KAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIA-  181 (352)
Q Consensus       103 ~~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~-  181 (352)
                      ....+++||++.||+++ |||++|++++|+|+||+|||+|++++|.+++.      .+.+|+||+.|++  ...+..++ 
T Consensus        24 ~~~~gi~TG~~~LD~~~-gGl~~G~LiiIaG~pG~GKTt~al~ia~~~a~------~g~~Vl~fSlEms--~~ql~~Rll   94 (338)
T 4a1f_A           24 LEVTGIPTGFVQLDNYT-SGFNKGSLVIIGARPSMGKTSLMMNMVLSALN------DDRGVAVFSLEMS--AEQLALRAL   94 (338)
T ss_dssp             TCCCSBCCSCHHHHHHH-CSBCTTCEEEEEECTTSCHHHHHHHHHHHHHH------TTCEEEEEESSSC--HHHHHHHHH
T ss_pred             CCcCcccCCChHHHHHh-cCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHH------cCCeEEEEeCCCC--HHHHHHHHH
Confidence            35678999999999999 79999999999999999999999999999887      5789999999987  44444333 


Q ss_pred             -HHcCCCcccc---------------------cccEEEEecCCHHHHHHHHHHHHHHhhcC-CceEEEEcccccchhccc
Q 047388          182 -ERFGMDPGAV---------------------LDNIIYARAYTYEHQYNLLLGLAAKMSEE-PFRLLIVDSVIALFRVDF  238 (352)
Q Consensus       182 -~~~~~~~~~~---------------------~~~i~~~~~~~~~~~~~~l~~l~~~l~~~-~~~lvvIDsl~~l~~~~~  238 (352)
                       ...+++...+                     -.++++.+... ....++...+.+....+ ++++||||+++.+.....
T Consensus        95 s~~~~v~~~~l~~g~Ls~~e~~~l~~a~~~l~~~~l~I~d~~~-~si~~i~~~ir~l~~~~gg~~lIVIDyLqlm~~~~~  173 (338)
T 4a1f_A           95 SDLTSINMHDLESGRLDDDQWENLAKCFDHLSQKKLFFYDKSY-VRIEQIRLQLRKLKSQHKELGIAFIDYLQLMSGSKA  173 (338)
T ss_dssp             HHHHCCCHHHHHHTCCCHHHHHHHHHHHHHHHHSCEEEECCTT-CCHHHHHHHHHHHHHHCTTEEEEEEEEEECCCTHHH
T ss_pred             HHhhCCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCeEEeCCCC-CcHHHHHHHHHHHHHhcCCCCEEEEechHHhcCCCC
Confidence             2223332111                     02355554331 12334444455555666 899999999998854321


Q ss_pred             CCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCC-----CcchhhhhccceEEEEEeec--
Q 047388          239 TGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKP-----AGGHVLAHAVTIRLMFRKGK--  311 (352)
Q Consensus       239 ~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~-----~gg~~~~~~~~~~i~L~~~~--  311 (352)
                           ...|+..+.++++.|+.+|++++|+||+++|+++..+..    ..+.|     .++..+++.+|++++|.|..  
T Consensus       174 -----~~~r~~ei~~isr~LK~lAkel~vpVi~lsQl~R~~e~r----~dkrP~lsDLreSg~IeqdAD~Vl~l~R~~~y  244 (338)
T 4a1f_A          174 -----TKERHEQIAEISRELKTLARELEIPIIALVQLNRSLENR----DDKRPILSDIKDSGGIEQDADIVLFLYRGYIY  244 (338)
T ss_dssp             -----HHHCCCCHHHHHHHHHHHHHHHTSCEEEEEECCGGGGGS----SSCSCCGGGSEETTEECCCCSEEEEEECHHHH
T ss_pred             -----CCChHHHHHHHHHHHHHHHHHcCCeEEEEEecCcccccc----ccCCCChHhcccchhhhhhCcEEEEEecchhc
Confidence                 123445678999999999999999999999999865432    11223     45678999999999999752  


Q ss_pred             ---------------C-------------------------CeEEEEEEeCCCCCccccc
Q 047388          312 ---------------G-------------------------EQRVCKVFDAPNLPEAEAI  331 (352)
Q Consensus       312 ---------------~-------------------------~~R~~~i~Ks~~~~~~~~~  331 (352)
                                     .                         ...-+.|.|+|++|.+.+.
T Consensus       245 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eiiiaK~R~G~~g~v~  304 (338)
T 4a1f_A          245 QMRAEDNKIDKLKKEGKIEEAQELYLKVNEERRIHKQNGSIEEAEIIVAKNRNGATGTVY  304 (338)
T ss_dssp             HHHHHHHHHHHHHGGGCHHHHHHHHHHHHHHHHHHHHTTSEEEEEEEEEEETTSCCEEEE
T ss_pred             ccccccccccccccccccccccchhhhhhhhhcccccccCCCceEEEEEeccCCCCceEE
Confidence                           1                         1245788999999998765

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=99.93  E-value=3e-25  Score=215.33  Aligned_cols=211  Identities=14%  Similarity=0.100  Sum_probs=153.2

Q ss_pred             cccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHH
Q 047388          104 AVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAER  183 (352)
Q Consensus       104 ~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~  183 (352)
                      ...+++||++.||+++ ||+++|++++|+|+||+|||+|++++|.+++.      .+.+|+||++|++...-..+.++..
T Consensus       176 ~~~gi~TG~~~LD~~l-gGl~~G~liiIaG~pG~GKTtlal~ia~~~a~------~g~~vl~fSlEms~~ql~~R~~~~~  248 (444)
T 3bgw_A          176 NITGVPSGFTELDRMT-YGYKRRNFVLIAARPSMGKTAFALKQAKNMSD------NDDVVNLHSLEMGKKENIKRLIVTA  248 (444)
T ss_dssp             SCCSBCCSCHHHHHHH-SSBCSSCEEEEEECSSSSHHHHHHHHHHHHHH------TTCEEEEECSSSCTTHHHHHHHHHH
T ss_pred             CCCCcCCCcHHHHhhc-CCCCCCcEEEEEeCCCCChHHHHHHHHHHHHH------cCCEEEEEECCCCHHHHHHHHHHHH
Confidence            3568999999999999 79999999999999999999999999999887      4679999999988443322222333


Q ss_pred             cCCCcccc-----------------------cccEEEEecCCHHHHHHHHHHHHHHhhcCCce--EEEEcccccchhccc
Q 047388          184 FGMDPGAV-----------------------LDNIIYARAYTYEHQYNLLLGLAAKMSEEPFR--LLIVDSVIALFRVDF  238 (352)
Q Consensus       184 ~~~~~~~~-----------------------~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~--lvvIDsl~~l~~~~~  238 (352)
                      .+++...+                       ..++++.+... ....++...+++...+++++  +|||||++.+.....
T Consensus       249 ~~i~~~~l~~g~~~l~~~~~~~l~~a~~~l~~~~l~i~d~~~-~s~~~i~~~ir~l~~~~~~~~~lIVID~Lq~~~~~~~  327 (444)
T 3bgw_A          249 GSINAQKIKAARRDFASEDWGKLSMAIGEISNSNINIFDKAG-QSVNYIWSKTRQTKRKNPGKRVIVMIDYLQLLEPAKA  327 (444)
T ss_dssp             SCCCHHHHHHTGGGTCCSCHHHHHHHHHHHHTSCEEEECCSS-CBHHHHHHHHHHHHHHSCSSCEEEEEECSTTSBCSCS
T ss_pred             cCCCHHHHhcccCCCCHHHHHHHHHHHHHHhcCCEEEECCCC-CCHHHHHHHHHHHHHHhCCCCeEEEEecHHhccCCCC
Confidence            34432110                       12455544321 12233344455555667899  999999998864321


Q ss_pred             CCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCC-----CcchhhhhccceEEEEEeecC-
Q 047388          239 TGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKP-----AGGHVLAHAVTIRLMFRKGKG-  312 (352)
Q Consensus       239 ~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~-----~gg~~~~~~~~~~i~L~~~~~-  312 (352)
                           ...|.+.+.++++.|+.+|+++|++||+++|+++..+..    ..+.|     .++..+++.+|++++|++... 
T Consensus       328 -----~~~r~~~i~~i~~~Lk~lAke~~v~vi~lsql~r~~e~r----~~krp~lsdlr~Sg~ieq~aD~Vi~L~r~~~~  398 (444)
T 3bgw_A          328 -----NDSRTNQISQISRDLKKMARELDVVVIALSQLSRQVEQR----QDKRPMLSDLRESGQLEQDADIIEFLYRDDYY  398 (444)
T ss_dssp             -----SSCHHHHHHHHHHHHHHHHHHHTCEEEEEEECCGGGGGS----SCCCCCGGGCCSCSHHHHHCSEEEECCBGGGT
T ss_pred             -----CCCHHHHHHHHHHHHHHHHHHhCCeEEEEecCCcccccc----CCCCCchhhhhhhhhHHhhCCEEEEEeccccc
Confidence                 123556788999999999999999999999998754322    11223     345579999999999998531 


Q ss_pred             -------CeEEEEEEeCCCCCccccc
Q 047388          313 -------EQRVCKVFDAPNLPEAEAI  331 (352)
Q Consensus       313 -------~~R~~~i~Ks~~~~~~~~~  331 (352)
                             ..+.+.|.|+|++|.+...
T Consensus       399 ~~~~~~~~~~~l~i~K~R~G~~g~v~  424 (444)
T 3bgw_A          399 DKESESKNIVEVIIAKHRDGPVGTVS  424 (444)
T ss_dssp             CTTCSSTTEEEEEEEEESSSCCEEEE
T ss_pred             cccccCCCeEEEEEEcccCCCCeEEE
Confidence                   3578999999999988654

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=99.93  E-value=1.7e-24  Score=191.76  Aligned_cols=207  Identities=24%  Similarity=0.297  Sum_probs=148.3

Q ss_pred             cccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcC
Q 047388          106 IKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFG  185 (352)
Q Consensus       106 ~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~  185 (352)
                      .+++||++.||+++.||+++|+++.|+|+||+|||||+.+++.....      .+++++|++.+..  ...+...+..++
T Consensus         3 ~~i~tg~~~Ld~~~~ggi~~G~~~~i~G~~GsGKTtl~~~l~~~~~~------~~~~v~~~~~~~~--~~~~~~~~~~~~   74 (235)
T 2w0m_A            3 SRLSTGILDFDKLIQGGIPQGFFIALTGEPGTGKTIFSLHFIAKGLR------DGDPCIYVTTEES--RDSIIRQAKQFN   74 (235)
T ss_dssp             CEECCSCHHHHGGGTTSEETTCEEEEECSTTSSHHHHHHHHHHHHHH------HTCCEEEEESSSC--HHHHHHHHHHTT
T ss_pred             ccccCCchHHHHHhcCCCcCCCEEEEEcCCCCCHHHHHHHHHHHHHH------CCCeEEEEEcccC--HHHHHHHHHHhc
Confidence            46899999999999999999999999999999999999999977664      4678999999875  556666666777


Q ss_pred             CCcccccc-cEEEEecC-------------CHHHHHHHHHHHHHHhhcCCce--EEEEcccccchhcccCCCcchHHHHH
Q 047388          186 MDPGAVLD-NIIYARAY-------------TYEHQYNLLLGLAAKMSEEPFR--LLIVDSVIALFRVDFTGRGELADRQQ  249 (352)
Q Consensus       186 ~~~~~~~~-~i~~~~~~-------------~~~~~~~~l~~l~~~l~~~~~~--lvvIDsl~~l~~~~~~~~g~~~~r~~  249 (352)
                      ++.+.+.. ++.+....             +..+.   ...+.+.+...+++  +||+|+++.++..+.      ..   
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~llilDe~~~~~~~d~------~~---  142 (235)
T 2w0m_A           75 WDFEEYIEKKLIIIDALMKEKEDQWSLVNLTPEEL---VNKVIEAKQKLGYGKARLVIDSVSALFLDKP------AM---  142 (235)
T ss_dssp             CCCGGGBTTTEEEEECCC----CTTBCSSCCHHHH---HHHHHHHHHHHCSSCEEEEEETGGGGSSSCG------GG---
T ss_pred             chHHHHhhCCEEEEeccccccCceeeecCCCHHHH---HHHHHHHHHhhCCCceEEEEECchHhhcCCH------HH---
Confidence            76654322 33333221             22222   23333444445789  999999998853221      11   


Q ss_pred             HHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeec--C-CeEEEEEEeCCCCC
Q 047388          250 KLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGK--G-EQRVCKVFDAPNLP  326 (352)
Q Consensus       250 ~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~--~-~~R~~~i~Ks~~~~  326 (352)
                       ..++++.|++++++++++||+++|..+..++.        . . ..+.+.+|.++.|.+..  + ..|.++|.|+|..+
T Consensus       143 -~~~~~~~l~~~~~~~~~~vi~~~h~~~~~~~~--------~-~-~~~~~~~d~vi~l~~~~~~~~~~r~l~v~K~r~~~  211 (235)
T 2w0m_A          143 -ARKISYYLKRVLNKWNFTIYATSQYAITTSQA--------F-G-FGVEHVADGIIRFRRMIRNGELHRYILIEKMRQTD  211 (235)
T ss_dssp             -HHHHHHHHHHHHHHTTEEEEEEEC---------------------CHHHHCSEEEEEEEEEETTEEEEEEEEEEETTCC
T ss_pred             -HHHHHHHHHHHHHhCCCeEEEEeccCcccccc--------c-c-cchheeeeEEEEEEEEecCCcEEEEEEEEeccCCc
Confidence             23788889999999999999999998521111        1 1 46889999999999763  2 35899999999987


Q ss_pred             cccccccceeeeeEEEeCC-CccC
Q 047388          327 EAEAISFSYHIILIKITPG-GIAD  349 (352)
Q Consensus       327 ~~~~~~~~~~~~~f~I~~~-Gi~~  349 (352)
                      ....      +.+|+|+++ ||+-
T Consensus       212 ~~~~------~~~f~i~~~~Gi~~  229 (235)
T 2w0m_A          212 HDKH------VWEIDIVNGKGIVL  229 (235)
T ss_dssp             CCCS------CEEEEEETTTEEEE
T ss_pred             ccce------eEEEEEcCCCCeEE
Confidence            6532      357999999 9874

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=99.92  E-value=9.6e-25  Score=212.97  Aligned_cols=208  Identities=15%  Similarity=0.153  Sum_probs=151.2

Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHH--HH
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPI--AE  182 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~--~~  182 (352)
                      ..+++||++.||+++ ||+++|++++|+|+||+|||+|+++++.+++..     .+.+|+||+.|++  ...+..+  +.
T Consensus       183 ~~~i~tG~~~LD~~~-gGl~~G~liiI~G~pG~GKTtl~l~ia~~~~~~-----~g~~Vl~~s~E~s--~~~l~~r~~~~  254 (454)
T 2r6a_A          183 ITGIPTGFTELDRMT-SGFQRSDLIIVAARPSVGKTAFALNIAQNVATK-----TNENVAIFSLEMS--AQQLVMRMLCA  254 (454)
T ss_dssp             CCSBCCSCHHHHHHH-SSBCTTCEEEEECCTTSCHHHHHHHHHHHHHHH-----SSCCEEEEESSSC--HHHHHHHHHHH
T ss_pred             CCCCCCCcHHHHhhc-CCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHh-----CCCcEEEEECCCC--HHHHHHHHHHH
Confidence            468999999999999 899999999999999999999999999988752     3568999999987  4444444  33


Q ss_pred             HcCCCcccc---------------------cccEEEEecC--CHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccC
Q 047388          183 RFGMDPGAV---------------------LDNIIYARAY--TYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFT  239 (352)
Q Consensus       183 ~~~~~~~~~---------------------~~~i~~~~~~--~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~  239 (352)
                      ..+++.+.+                     ..++++....  +..++   ...+.+....+++++||||+++.+......
T Consensus       255 ~~~~~~~~l~~g~l~~~~~~~~~~a~~~l~~~~l~i~d~~~~s~~~i---~~~~~~l~~~~~~~livID~l~~~~~~~~~  331 (454)
T 2r6a_A          255 EGNINAQNLRTGKLTPEDWGKLTMAMGSLSNAGIYIDDTPSIRVSDI---RAKCRRLKQESGLGMIVIDYLQLIQGSGRS  331 (454)
T ss_dssp             HHTCCHHHHHTSCCCHHHHHHHHHHHHHHHSSCEEEECCTTCCHHHH---HHHHHHHHTTTCCCEEEEECGGGSCCSCC-
T ss_pred             HcCCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHH---HHHHHHHHHHcCCCEEEEccHHHhccCCCC
Confidence            455543221                     1234444432  33333   334445555678999999999998643211


Q ss_pred             CCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCC-----cchhhhhccceEEEEEeecC--
Q 047388          240 GRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPA-----GGHVLAHAVTIRLMFRKGKG--  312 (352)
Q Consensus       240 ~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~-----gg~~~~~~~~~~i~L~~~~~--  312 (352)
                          ...|...+.++++.|+.+|+++|++||+++|+++..+..    ..+.|.     ++..+++.+|.+++|++.+.  
T Consensus       332 ----~~~~~~~i~~i~~~Lk~lAke~~i~vi~~sql~r~~e~~----~~~~p~lsdlr~Sg~ie~~aD~vi~l~r~~~~~  403 (454)
T 2r6a_A          332 ----KENRQQEVSEISRSLKALARELEVPVIALSQLSRSVEQR----QDKRPMMSDIRESGSIEQDADIVAFLYRDDYYN  403 (454)
T ss_dssp             -------CHHHHHHHHHHHHHHHHHHTCCEEEEECCCTTSTTC-------CCCTHHHHTTCSHHHHCSEEEEEEETTC--
T ss_pred             ----CCCHHHHHHHHHHHHHHHHHHhCCeEEEEecCCcccccC----CCCCCcHHHhhccchhHhhCCEEEEEecccccC
Confidence                123445678999999999999999999999999865432    112344     34478999999999998642  


Q ss_pred             ------CeEEEEEEeCCCCCccccc
Q 047388          313 ------EQRVCKVFDAPNLPEAEAI  331 (352)
Q Consensus       313 ------~~R~~~i~Ks~~~~~~~~~  331 (352)
                            ..+.+.|.|+|++|.+...
T Consensus       404 ~~~~~~~~~~l~i~K~R~G~~g~v~  428 (454)
T 2r6a_A          404 KDSENKNIIEIIIAKQRNGPVGTVQ  428 (454)
T ss_dssp             -----CCEEEEEEEEESSSCCEEEE
T ss_pred             cccCCCCeEEEEEecccCCCCeEEE
Confidence                  4588999999999987654

>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=99.88  E-value=1.1e-21  Score=180.88  Aligned_cols=227  Identities=11%  Similarity=0.099  Sum_probs=143.7

Q ss_pred             hccccccc-CChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHH
Q 047388          103 KAVIKITT-GSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIA  181 (352)
Q Consensus       103 ~~~~~i~T-G~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~  181 (352)
                      ....+++| |++.||.++ +|+++|+++.|+|+||+|||||+++++......     .+.+|+|++.|.+  ...+....
T Consensus        12 ~~~~~i~t~g~~~Ld~i~-~~l~~G~~~~i~G~~G~GKTTl~~~ia~~~~~~-----~G~~v~~~~~e~~--~~~~~~r~   83 (296)
T 1cr0_A           12 EESVGLLFSGCTGINDKT-LGARGGEVIMVTSGSGMGKSTFVRQQALQWGTA-----MGKKVGLAMLEES--VEETAEDL   83 (296)
T ss_dssp             CCCCCBCCCSCTTHHHHH-CSBCTTCEEEEEESTTSSHHHHHHHHHHHHHHT-----SCCCEEEEESSSC--HHHHHHHH
T ss_pred             CCcCCcccCCHHHHHHHh-cCCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHH-----cCCeEEEEeCcCC--HHHHHHHH
Confidence            45678999 999999998 899999999999999999999999999887652     2458999999975  43332221


Q ss_pred             H--HcCCCcc--------------------ccc--ccEEEEec---CCHHHHHHHHHHHHHHhhcCCceEEEEcccccch
Q 047388          182 E--RFGMDPG--------------------AVL--DNIIYARA---YTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALF  234 (352)
Q Consensus       182 ~--~~~~~~~--------------------~~~--~~i~~~~~---~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~  234 (352)
                      .  ..+.+..                    .++  .++.+...   .+..++   ...+.......++++||||+++.+.
T Consensus        84 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~l~i~~~~~~~~~~~l---~~~~~a~~~~~~p~llilDept~~~  160 (296)
T 1cr0_A           84 IGLHNRVRLRQSDSLKREIIENGKFDQWFDELFGNDTFHLYDSFAEAETDRL---LAKLAYMRSGLGCDVIILDHISIVV  160 (296)
T ss_dssp             HHHHTTCCGGGCHHHHHHHHHHTHHHHHHHHHHSSSCEEEECCCCSCCHHHH---HHHHHHHHHTTCCSEEEEEEEC---
T ss_pred             HHHHcCCChhhccccccCCCCHHHHHHHHHHHhccCCEEEECCCCCCCHHHH---HHHHHHHHHhcCCCEEEEcCccccC
Confidence            1  1122210                    111  13444432   334443   2333333344689999999999975


Q ss_pred             hcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCc--ccCC--CCCCCcchhhhhccceEEEEEee
Q 047388          235 RVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGV--FISD--PKKPAGGHVLAHAVTIRLMFRKG  310 (352)
Q Consensus       235 ~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~--~~~~--~~~~~gg~~~~~~~~~~i~L~~~  310 (352)
                      ... .   .. .+...+.++++.|+.+|+++|++||+++|..+..+...  -...  .....++..+.+.+|.+++|.++
T Consensus       161 ~~~-~---~~-d~~~~~~~i~~~L~~la~~~~~~vi~vsh~~r~~~~~~~~~~~~p~l~dl~~s~~i~~~aD~vi~L~~~  235 (296)
T 1cr0_A          161 SAS-G---ES-DERKMIDNLMTKLKGFAKSTGVVLVVICHLKNPDKGKAHEEGRPVSITDLRGSGALRQLSDTIIALERN  235 (296)
T ss_dssp             -------------CHHHHHHHHHHHHHHHHHCCEEEEEEECC-----------------CCC---CHHHHCSEEEEEEEC
T ss_pred             CCC-C---CC-CHHHHHHHHHHHHHHHHHHhCCeEEEEEecCccccccccccCCCCCHHHhcccHHhHhhCcEEEEEecC
Confidence            321 0   01 12133568999999999999999999999974111000  0000  01134556899999999999986


Q ss_pred             cC----CeEEEEEEeCC-CCCcccc-cccceeeeeEEEeCCCccCCC
Q 047388          311 KG----EQRVCKVFDAP-NLPEAEA-ISFSYHIILIKITPGGIADAK  351 (352)
Q Consensus       311 ~~----~~R~~~i~Ks~-~~~~~~~-~~~~~~~~~f~I~~~Gi~~~~  351 (352)
                      +.    ..|.+.|.|+| +.+.+.. .      ..|.++..|+.+++
T Consensus       236 ~~~~~~~~~~l~i~K~R~~g~~g~~~~------~~f~~~~~~f~~~~  276 (296)
T 1cr0_A          236 QQGDMPNLVLVRILKCRFTGDTGIAGY------MEYNKETGWLEPSS  276 (296)
T ss_dssp             -------CEEEEEEEETTTCCCEEEEE------EEECTTTCCEEECC
T ss_pred             cccCCCCeEEEEEEccccCCCCCceEE------EEEEcCccEEecCC
Confidence            43    35899999999 5888764 2      34778888887654

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=99.87  E-value=3.8e-21  Score=190.83  Aligned_cols=209  Identities=18%  Similarity=0.199  Sum_probs=146.1

Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHc
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERF  184 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~  184 (352)
                      ..+++||++.||++|+||+++|+++.|.|+||+|||||+.+++.....      .+.+++|+.++++  ...+...+.++
T Consensus       260 ~~~l~~g~~~ld~vL~g~i~~G~i~~i~G~~GsGKSTLl~~l~g~~~~------~G~~vi~~~~ee~--~~~l~~~~~~~  331 (525)
T 1tf7_A          260 NVRVSSGVVRLDEMCGGGFFKDSIILATGATGTGKTLLVSRFVENACA------NKERAILFAYEES--RAQLLRNAYSW  331 (525)
T ss_dssp             CCEECCSCHHHHHHTTSSEESSCEEEEEECTTSSHHHHHHHHHHHHHT------TTCCEEEEESSSC--HHHHHHHHHTT
T ss_pred             cceeecChHHHHHHhCCCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHh------CCCCEEEEEEeCC--HHHHHHHHHHc
Confidence            457899999999999999999999999999999999999999887654      4557999999876  55666667777


Q ss_pred             CCCcccccc--cEEEEec----CCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHH
Q 047388          185 GMDPGAVLD--NIIYARA----YTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRL  258 (352)
Q Consensus       185 ~~~~~~~~~--~i~~~~~----~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L  258 (352)
                      +++.+++..  .+.+...    .+..+....   +...+...+++++|+|+++.+... ..  +    ++  ..+.+..|
T Consensus       332 g~~~~~~~~~g~~~~~~~~p~~LS~g~~q~~---~~a~~l~~~p~llilDp~~~Ld~~-~~--~----~~--~~~~i~~l  399 (525)
T 1tf7_A          332 GMDFEEMERQNLLKIVCAYPESAGLEDHLQI---IKSEINDFKPARIAIDSLSALARG-VS--N----NA--FRQFVIGV  399 (525)
T ss_dssp             SCCHHHHHHTTSEEECCCCGGGSCHHHHHHH---HHHHHHTTCCSEEEEECHHHHTSS-SC--H----HH--HHHHHHHH
T ss_pred             CCCHHHHHhCCCEEEEEeccccCCHHHHHHH---HHHHHHhhCCCEEEEcChHHHHhh-CC--h----HH--HHHHHHHH
Confidence            776443221  2333222    233333222   222333468999999988777542 11  1    11  22333333


Q ss_pred             HHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcc-hhhhhccceEEEEEeec---CCeEEEEEEeCCCCCcccccccc
Q 047388          259 TKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGG-HVLAHAVTIRLMFRKGK---GEQRVCKVFDAPNLPEAEAISFS  334 (352)
Q Consensus       259 ~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg-~~~~~~~~~~i~L~~~~---~~~R~~~i~Ks~~~~~~~~~~~~  334 (352)
                      .+.+++.|++||+++|..... +.        .++. ..+.+++|.++.|++.+   ...|+++++|+|..++....   
T Consensus       400 l~~l~~~g~tvilvsh~~~~~-~~--------~~~~~~~l~~~~D~vi~L~~ge~~~~~~R~l~v~K~R~~~~~~~~---  467 (525)
T 1tf7_A          400 TGYAKQEEITGLFTNTSDQFM-GA--------HSITDSHISTITDTIILLQYVEIRGEMSRAINVFKMRGSWHDKAI---  467 (525)
T ss_dssp             HHHHHHTTCEEEEEEECSSSS-CC--------CSSCSSCCTTTCSEEEEEEEEEETTEEEEEEEEEEESSSCCCCBC---
T ss_pred             HHHHHhCCCEEEEEECccccc-Cc--------ccccCcccceeeeEEEEEEEEEeCCEEEEEEEEEECCCCCCCCCE---
Confidence            344456799999999987432 21        2222 56789999999998764   24799999999999984332   


Q ss_pred             eeeeeEEEeCCCcc
Q 047388          335 YHIILIKITPGGIA  348 (352)
Q Consensus       335 ~~~~~f~I~~~Gi~  348 (352)
                         ++|+|++.||+
T Consensus       468 ---~~f~i~~~Gi~  478 (525)
T 1tf7_A          468 ---REFMISDKGPD  478 (525)
T ss_dssp             ---EEEEECSSCEE
T ss_pred             ---EEEEEcCCCEE
Confidence               67999999997

>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=99.84  E-value=3.3e-20  Score=169.43  Aligned_cols=220  Identities=16%  Similarity=0.198  Sum_probs=136.3

Q ss_pred             cccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCC----CCCeEEEEeCCCCCChhhHHHHH
Q 047388          106 IKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRG----GNGKVAYIDTEGTFRPDRIVPIA  181 (352)
Q Consensus       106 ~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg----~~~~vl~i~~e~~~~~~rl~~~~  181 (352)
                      ..++||++.||+++ ||+++|++++|+|+||+|||||+++++..+.....+.|    .+++++|++.|+.  ...+...+
T Consensus        11 ~~i~tg~~~ld~~l-ggl~~G~i~~i~G~~GsGKTtl~~~l~~~~~~g~~~~g~~~~~~~~v~~~~~e~~--~~~~~~r~   87 (279)
T 1nlf_A           11 EAFAAAPPPLDYVL-PNMVAGTVGALVSPGGAGKSMLALQLAAQIAGGPDLLEVGELPTGPVIYLPAEDP--PTAIHHRL   87 (279)
T ss_dssp             HHHHSCCCCCCEEE-TTEETTSEEEEEESTTSSHHHHHHHHHHHHHTCCCTTCCCCCCCCCEEEEESSSC--HHHHHHHH
T ss_pred             HHhcCCCCChheeE-CCccCCCEEEEEcCCCCCHHHHHHHHHHHHhcCCCcCCCccCCCccEEEEECCCC--HHHHHHHH
Confidence            46999999999999 69999999999999999999999999986653211111    1468999999986  44444444


Q ss_pred             HHcCCCcc-----cccccEEEEecCC------HHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHH
Q 047388          182 ERFGMDPG-----AVLDNIIYARAYT------YEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQK  250 (352)
Q Consensus       182 ~~~~~~~~-----~~~~~i~~~~~~~------~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~  250 (352)
                      ..++.+..     .+++++.+....+      ....   +..+...+.  ++++||||++++++..+..     ..  ..
T Consensus        88 ~~~g~~~~~~~~~~~~~~l~l~~~~~~~~~~ls~g~---~~~i~~l~~--~~~livlDe~~~~~~~d~~-----~~--~~  155 (279)
T 1nlf_A           88 HALGAHLSAEERQAVADGLLIQPLIGSLPNIMAPEW---FDGLKRAAE--GRRLMVLDTLRRFHIEEEN-----AS--GP  155 (279)
T ss_dssp             HHHHTTSCHHHHHHHHHHEEECCCTTSCCCTTSHHH---HHHHHHHHT--TCSEEEEECGGGGCCSCTT-----CH--HH
T ss_pred             HHHHhhcChhhhhhccCceEEeecCCCCcccCCHHH---HHHHHHhcC--CCCEEEECCHHHhcCCCcC-----ch--HH
Confidence            55554321     2234555433211      1122   222333332  6899999999997643211     11  23


Q ss_pred             HHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCC--CCCCcchhhhhccceEEEEEeec----------CC----e
Q 047388          251 LGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDP--KKPAGGHVLAHAVTIRLMFRKGK----------GE----Q  314 (352)
Q Consensus       251 l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~--~~~~gg~~~~~~~~~~i~L~~~~----------~~----~  314 (352)
                      +.++++.|+.++++.|++||+++|..+...  .+...+  ....|+..+...+.....+.+..          .+    .
T Consensus       156 ~~~~~~~L~~l~~~~g~tvi~i~H~~~~~~--~~g~~~~~~~~~g~~~l~d~v~~~~~~~~~~~~~~~~~gi~~~~~~~~  233 (279)
T 1nlf_A          156 MAQVIGRMEAIAADTGCSIVFLHHASKGAA--MMGAGDQQQASRGSSVLVDNIRWQSYLSSMTSAEAEEWGVDDDQRRFF  233 (279)
T ss_dssp             HHHHHHHHHHHHHHHCCEEEEEEEC----------------------CTGGGCSCEEEEEECCHHHHHHTTCCTTSGGGE
T ss_pred             HHHHHHHHHHHHHHcCCEEEEEecCCCccc--ccCCchhhhhccchhhhccchhhhhhccCCCHHHHHHhCCChhhcCcE
Confidence            458889999999999999999999986421  111001  11345666665555544455432          11    2


Q ss_pred             EEEEEEeCCCCCcccccccceeeeeEEEeCCCccC
Q 047388          315 RVCKVFDAPNLPEAEAISFSYHIILIKITPGGIAD  349 (352)
Q Consensus       315 R~~~i~Ks~~~~~~~~~~~~~~~~~f~I~~~Gi~~  349 (352)
                      ..+++.|++..|++...       .|.+.++|+..
T Consensus       234 ~~~~v~K~~~~~~~~~~-------~~~~~~~G~l~  261 (279)
T 1nlf_A          234 VRFGVSKANYGAPFADR-------WFRRHDGGVLK  261 (279)
T ss_dssp             EEEEEEECSSSSCCCCE-------EEEECGGGCEE
T ss_pred             EEeeeccccCCCCCCce-------EEEEcCCeeEe
Confidence            23779999999987654       38888888754

>3bs4_A Uncharacterized protein PH0321; structural genomics, unknown function, PSI-2, protein struct initiative; 1.60A {Pyrococcus horikoshii}

Probab=99.82  E-value=5.4e-19  Score=158.54  Aligned_cols=208  Identities=13%  Similarity=-0.004  Sum_probs=132.6

Q ss_pred             ccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCC
Q 047388          107 KITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGM  186 (352)
Q Consensus       107 ~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~  186 (352)
                      .++||++.||++|+||+++|.+++|.|.||+|||+|++|++.+.+.      .+.+++|++.+.+  +..+...++.+|+
T Consensus         2 ~i~tGi~~LD~~l~GGl~~gs~~li~g~p~~~~~~l~~qfl~~g~~------~Ge~~~~~~~~e~--~~~l~~~~~~~G~   73 (260)
T 3bs4_A            2 SLSWEIEELDREIGKIKKHSLILIHEEDASSRGKDILFYILSRKLK------SDNLVGMFSISYP--LQLIIRILSRFGV   73 (260)
T ss_dssp             CBCCSSHHHHHHHCCBCTTCEEEEEECSGGGCHHHHHHHHHHHHHH------TTCEEEEEECSSC--HHHHHHHHHHTTC
T ss_pred             cCccCcHHHHHHhCCCCCCCcEEEEEeCCCccHHHHHHHHHHHHHH------CCCcEEEEEEeCC--HHHHHHHHHHcCC
Confidence            4899999999999999999999999999999999999999998887      7899999999987  8889999999999


Q ss_pred             Ccccccc--cEEEEec--------------------CCHHHHHHHHHHHHHH------hhc-CC-ceE-EEEcccccchh
Q 047388          187 DPGAVLD--NIIYARA--------------------YTYEHQYNLLLGLAAK------MSE-EP-FRL-LIVDSVIALFR  235 (352)
Q Consensus       187 ~~~~~~~--~i~~~~~--------------------~~~~~~~~~l~~l~~~------l~~-~~-~~l-vvIDsl~~l~~  235 (352)
                      +.+.+.+  ++.+.+.                    .+..+....+..+.+.      +.. .+ .++ ++||++..+..
T Consensus        74 dl~~~~~~g~l~i~d~~~~~~~~~~~~~~v~~~~~e~d~~~l~~~i~~iv~~~~~~~~i~~~~~~~rvv~vidsldsl~~  153 (260)
T 3bs4_A           74 DVIKYLENHRLAIVDTFGSFHGIKATMPGVWYLEGMLSSETLPIKYAKAVEDHKKVWMDLNLFEGRELYGFAISMSGYLE  153 (260)
T ss_dssp             CHHHHHHTTSEEEECHHHHHHTC---CTTEECCCSCCCTTTHHHHHHHHHHHHHHHHHHTTCSTTCCEEEEEETGGGGGG
T ss_pred             CHHHHhhCCcEEEEEcccccccccccccceecccccCCHHHHHHHHHHHHHhhccccchhhccCCceEEEEEeecchHHH
Confidence            9876543  4555532                    2233332223333332      122 23 453 46777766643


Q ss_pred             cccCCCcchHHHHHHHHHHHHH--HHHHHHH-hCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEee--
Q 047388          236 VDFTGRGELADRQQKLGQMLSR--LTKISEE-FNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKG--  310 (352)
Q Consensus       236 ~~~~~~g~~~~r~~~l~~i~~~--L~~la~~-~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~--  310 (352)
                      . +.   ....+ +.+.+++..  ...+..+ .+++.+++.+ .. . .         ......+.+.+|.+|.|+..  
T Consensus       154 ~-~~---~~~~~-~~~~~ll~~~~~~~~~~~~~~~ttil~~~-~~-~-~---------~~~~~~l~~laD~VI~lr~~e~  216 (260)
T 3bs4_A          154 V-FT---PEETL-RYLETSAEVRYGHPAYKKYPRGTNFWLWE-GV-K-D---------KRVLLSVYRRADYVLKTRSSLG  216 (260)
T ss_dssp             T-SC---HHHHH-HHHHHHHHHHHHCHHHHSSCCCEEEEEEE-SC-S-C---------HHHHHHHHHHCSEEEEEEEEEE
T ss_pred             H-hC---hhhHH-HHHHHHHHhhhhHHHHhccCCcEEEEEEC-CC-c-c---------cccccceEEEeeEEEEEEEEec
Confidence            2 11   11111 111222222  1113333 6777777655 21 1 1         11234566789999999864  


Q ss_pred             cC-CeEEEEEEeCCCCCcccccccceeeeeEEEeCC
Q 047388          311 KG-EQRVCKVFDAPNLPEAEAISFSYHIILIKITPG  345 (352)
Q Consensus       311 ~~-~~R~~~i~Ks~~~~~~~~~~~~~~~~~f~I~~~  345 (352)
                      ++ ..|.+.|.|+|.......      +++|.|+..
T Consensus       217 ~g~~rR~L~V~K~Rg~~~~~~------~re~~i~~~  246 (260)
T 3bs4_A          217 ENGIKRELLVIKTPKPIEELV------RFEYEFKGN  246 (260)
T ss_dssp             TTEEEEEEEEEECCC-----C------EEEEEEETT
T ss_pred             CCceEEEEEEEECCCCCcCCc------eEEEEEecC
Confidence            23 368999999998765433      245777654

>1b22_A DNA repair protein RAD51; DNA binding, riken structural genomics/proteomics initiative, RSGI, structural genomics, DNA binding protein; HET: DNA; NMR {Homo sapiens} SCOP: a.60.4.1

Probab=99.74  E-value=1.2e-18  Score=135.56  Aligned_cols=112  Identities=42%  Similarity=0.568  Sum_probs=68.3

Q ss_pred             HhhhhhhhhcccccccchhhhcHHHHHhCCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHHHHh
Q 047388            9 EQSQLQLVEREDIDDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIV   88 (352)
Q Consensus         9 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~   88 (352)
                      .+.++.+..++.+|++...|.++..|+.+|+++.++++|+++||.|+++++.+++++|.+++|+++..+.+++..+++.+
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~~~I~~L~~~GIg~~~i~kL~eAG~~Tve~va~a~~~eL~~i~GIse~ka~kIi~aA~kl~   82 (114)
T 1b22_A            3 MQMQLEANADTSVEEESFGPQPISRLEQCGINANDVKKLEEAGFHTVEAVAYAPKKELINIKGISEAKADKILAEAAKLV   82 (114)
T ss_dssp             -------------CCSCSSCCCHHHHHHTTCSHHHHHHHHTTCCSSGGGBTSSBHHHHHTTTTCSTTHHHHHHHHHHHHS
T ss_pred             hhHHHHHhchHHhhccccCCccHHHHHhcCCCHHHHHHHHHcCcCcHHHHHhCCHHHHHHccCCCHHHHHHHHHHHHHHc
Confidence            45778888888899888888999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCCCchhhhHHhhhcccccccCChhhHHhhc
Q 047388           89 NFGYITGSDALLRRKAVIKITTGSQALDELLG  120 (352)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~L~  120 (352)
                      +.+|.+|.++++.+.+..+|+||+..||.+|+
T Consensus        83 ~~gF~ta~e~~~~r~~~~~itTGs~~lD~lLg  114 (114)
T 1b22_A           83 PMGFTTATEFHQRRSEIIQITTGSKELDKLLQ  114 (114)
T ss_dssp             CCC-----------------------------
T ss_pred             ccCCCcHHHHHHHhcCCCeeccCcHHHHhhhC
Confidence            99999999999999999999999999999983

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=99.73  E-value=1.7e-16  Score=157.31  Aligned_cols=214  Identities=18%  Similarity=0.218  Sum_probs=145.5

Q ss_pred             cccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHH
Q 047388          104 AVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAER  183 (352)
Q Consensus       104 ~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~  183 (352)
                      ...+++||++.||.+..||+++|+++.|.|+||||||||+.+++.+.+.+     .+.+++|++++..  ...+...+++
T Consensus        17 ~~~~~~~g~~~Ld~i~~G~i~~Ge~~~l~G~nGsGKSTL~~~~ll~Gl~~-----~~~g~i~v~g~~~--~~~~~~~~~~   89 (525)
T 1tf7_A           17 AIAKMRTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIE-----FDEPGVFVTFEET--PQDIIKNARS   89 (525)
T ss_dssp             SCCEECCCCTTHHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHH-----HCCCEEEEESSSC--HHHHHHHHGG
T ss_pred             ccccccCCchhHHHhcCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHHHHh-----CCCCEEEEEEeCC--HHHHHHHHHH
Confidence            45689999999999998899999999999999999999999976554443     2456899998874  5566667778


Q ss_pred             cCCCccccc--ccEEEEecC---------CHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHH
Q 047388          184 FGMDPGAVL--DNIIYARAY---------TYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLG  252 (352)
Q Consensus       184 ~~~~~~~~~--~~i~~~~~~---------~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~  252 (352)
                      +|+.++...  .++......         ....+.+.+.++...+...++++|++|+++++++..  + -+...|    .
T Consensus        90 ~g~~~q~~~~~~~l~~~~~~~~~~~~~~l~~~~l~~~~~~~~~~LS~g~~~~lilDe~t~~~~~~--~-lD~~~~----~  162 (525)
T 1tf7_A           90 FGWDLAKLVDEGKLFILDASPDPEGQEVVGGFDLSALIERINYAIQKYRARRVSIDSVTSVFQQY--D-ASSVVR----R  162 (525)
T ss_dssp             GTCCHHHHHHTTSEEEEECCCCSSCCSCCSSHHHHHHHHHHHHHHHHHTCSEEEEECSTTTSTTT--C-CHHHHH----H
T ss_pred             cCCChHHhhccCcEEEEecCcccchhhhhcccCHHHHHHHHHHHHHHcCCCEEEECCHHHHHHhc--C-CHHHHH----H
Confidence            888775432  234443321         122333445555566666689999999999876531  0 011222    2


Q ss_pred             HHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchh-hhhccceEEEEEeec--C-CeEEEEEEeCCCCCcc
Q 047388          253 QMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHV-LAHAVTIRLMFRKGK--G-EQRVCKVFDAPNLPEA  328 (352)
Q Consensus       253 ~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~-~~~~~~~~i~L~~~~--~-~~R~~~i~Ks~~~~~~  328 (352)
                      .+...++.+++ .|+|||+++|.......          ..... ..+.+|.++.|+...  | ..|.+.+.|.|..+..
T Consensus       163 ~l~~ll~~l~~-~g~tvl~itH~~~~~~~----------~~~~~i~~~laD~vi~L~~~~~~G~~~r~l~~~k~r~~~~~  231 (525)
T 1tf7_A          163 ELFRLVARLKQ-IGATTVMTTERIEEYGP----------IARYGVEEFVSDNVVILRNVLEGERRRRTLEILKLRGTSHM  231 (525)
T ss_dssp             HHHHHHHHHHH-HTCEEEEEEECSSSSSC----------SSTTSCHHHHCSEEEEEEEECSTTCCEEEEEEEEETTSCCC
T ss_pred             HHHHHHHHHHH-CCCEEEEEecCCCCccc----------cccccceeeeeeEEEEEEEEccCCceeEEEEEEECCCCCCC
Confidence            56666666655 69999999998753211          01112 356699999998742  2 4688899998866543


Q ss_pred             cccccceeeeeEEEeCCCcc
Q 047388          329 EAISFSYHIILIKITPGGIA  348 (352)
Q Consensus       329 ~~~~~~~~~~~f~I~~~Gi~  348 (352)
                      ..      +.+|.|++.|+.
T Consensus       232 ~~------~~~~~i~~~gi~  245 (525)
T 1tf7_A          232 KG------EYPFTITDHGIN  245 (525)
T ss_dssp             CS------EEEEEEETTEEE
T ss_pred             Cc------eEEEEEcCCCEE
Confidence            22      245888888875

>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=99.52  E-value=4.7e-15  Score=135.97  Aligned_cols=130  Identities=16%  Similarity=0.171  Sum_probs=88.7

Q ss_pred             ccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeC--CCCCChhhHHHHHHHc
Q 047388          107 KITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDT--EGTFRPDRIVPIAERF  184 (352)
Q Consensus       107 ~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~--e~~~~~~rl~~~~~~~  184 (352)
                      .++||++.||++| ||+++|.+++|+||||+|||+|+++++..         .+.+|+|++.  +..++           
T Consensus       105 ~i~TGi~~LD~lL-GGi~~gsviLI~GpPGsGKTtLAlqlA~~---------~G~~VlyIs~~~eE~v~-----------  163 (331)
T 2vhj_A          105 ELVGCSPVVAEFG-GHRYASGMVIVTGKGNSGKTPLVHALGEA---------LGGKDKYATVRFGEPLS-----------  163 (331)
T ss_dssp             TCCSBCCEEEEET-TEEEESEEEEEECSCSSSHHHHHHHHHHH---------HHTTSCCEEEEBSCSST-----------
T ss_pred             ccccCcHHHHHHh-CCCCCCcEEEEEcCCCCCHHHHHHHHHHh---------CCCCEEEEEecchhhhh-----------
Confidence            4789999999999 99999999999999999999999999876         2457899998  32211           


Q ss_pred             CCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHH
Q 047388          185 GMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEE  264 (352)
Q Consensus       185 ~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~  264 (352)
                         .   ..       .+.+.   .+..+.+.+.+.+  +||||++..+...... .+..+...+.+.+++..|..++++
T Consensus       164 ---~---~~-------~~le~---~l~~i~~~l~~~~--LLVIDsI~aL~~~~~~-~s~~G~v~~~lrqlL~~L~~~~k~  224 (331)
T 2vhj_A          164 ---G---YN-------TDFNV---FVDDIARAMLQHR--VIVIDSLKNVIGAAGG-NTTSGGISRGAFDLLSDIGAMAAS  224 (331)
T ss_dssp             ---T---CB-------CCHHH---HHHHHHHHHHHCS--EEEEECCTTTC------------CCHHHHHHHHHHHHHHHH
T ss_pred             ---h---hh-------cCHHH---HHHHHHHHHhhCC--EEEEeccccccccccc-ccccchHHHHHHHHHHHHHHHHhh
Confidence               0   00       22222   2333444444444  9999999998653221 000111123467889999999999


Q ss_pred             hCcEEEEEcccc
Q 047388          265 FNVAVYMTNQVI  276 (352)
Q Consensus       265 ~~~~viv~~h~~  276 (352)
                      .++++|++++..
T Consensus       225 ~gvtVIlttnp~  236 (331)
T 2vhj_A          225 RGCVVIASLNPT  236 (331)
T ss_dssp             HTCEEEEECCCS
T ss_pred             CCCEEEEEeCCc
Confidence            999999886643

>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=98.96  E-value=5.4e-10  Score=101.22  Aligned_cols=150  Identities=13%  Similarity=0.191  Sum_probs=84.3

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCC-ChhhHHHHHHHcCCCcc---------cc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTF-RPDRIVPIAERFGMDPG---------AV  191 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~-~~~rl~~~~~~~~~~~~---------~~  191 (352)
                      -+++|+++.|.||+|||||||+..++  ...++     ..+.++++..... .......+.+..++-++         .+
T Consensus        30 ~i~~Ge~~~iiGpnGsGKSTLl~~l~--Gl~~p-----~~G~I~~~G~~i~~~~~~~~~~~~~ig~v~Q~~~~~~~~~tv  102 (275)
T 3gfo_A           30 NIKRGEVTAILGGNGVGKSTLFQNFN--GILKP-----SSGRILFDNKPIDYSRKGIMKLRESIGIVFQDPDNQLFSASV  102 (275)
T ss_dssp             EEETTSEEEEECCTTSSHHHHHHHHT--TSSCC-----SEEEEEETTEECCCSHHHHHHHHHSEEEECSSGGGTCCSSBH
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHH--cCCCC-----CCeEEEECCEECCcccccHHHHhCcEEEEEcCcccccccCcH
Confidence            57899999999999999999999554  33332     3345666654321 22223333444444332         12


Q ss_pred             cccEEEEe---cCCHHHHHHHHHHHH---------------------------HHhhcCCceEEEEcccccchhcccCCC
Q 047388          192 LDNIIYAR---AYTYEHQYNLLLGLA---------------------------AKMSEEPFRLLIVDSVIALFRVDFTGR  241 (352)
Q Consensus       192 ~~~i~~~~---~~~~~~~~~~l~~l~---------------------------~~l~~~~~~lvvIDsl~~l~~~~~~~~  241 (352)
                      .+|+.+..   .....+..+.+.++.                           +.+ -.+|+++++|+.++-+.+     
T Consensus       103 ~e~l~~~~~~~~~~~~~~~~~~~~~l~~~~L~~~~~~~~~~LSgGqkQRv~iAraL-~~~P~lLlLDEPts~LD~-----  176 (275)
T 3gfo_A          103 YQDVSFGAVNMKLPEDEIRKRVDNALKRTGIEHLKDKPTHCLSFGQKKRVAIAGVL-VMEPKVLILDEPTAGLDP-----  176 (275)
T ss_dssp             HHHHHHHHHTSCCCHHHHHHHHHHHHHHTTCGGGTTSBGGGSCHHHHHHHHHHHHH-TTCCSEEEEECTTTTCCH-----
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHHcCCchhhcCCcccCCHHHHHHHHHHHHH-HcCCCEEEEECccccCCH-----
Confidence            22322110   011111111111111                           111 137999999998876432     


Q ss_pred             cchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEe
Q 047388          242 GELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRK  309 (352)
Q Consensus       242 g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~  309 (352)
                         ..+    ..+.+.|++++++.|+|||+++|-...                  +...+|.++.|..
T Consensus       177 ---~~~----~~i~~~l~~l~~~~g~tvi~vtHdl~~------------------~~~~~drv~~l~~  219 (275)
T 3gfo_A          177 ---MGV----SEIMKLLVEMQKELGITIIIATHDIDI------------------VPLYCDNVFVMKE  219 (275)
T ss_dssp             ---HHH----HHHHHHHHHHHHHHCCEEEEEESCCSS------------------GGGGCSEEEEEET
T ss_pred             ---HHH----HHHHHHHHHHHhhCCCEEEEEecCHHH------------------HHHhCCEEEEEEC
Confidence               222    367788888875559999999996541                  3456777777764

>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=98.92  E-value=6.6e-09  Score=97.38  Aligned_cols=136  Identities=15%  Similarity=0.218  Sum_probs=78.0

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC--CChhhHHHHHHHcCCCcc--------cc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT--FRPDRIVPIAERFGMDPG--------AV  191 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~--~~~~rl~~~~~~~~~~~~--------~~  191 (352)
                      -+++|+++.|.||||||||||+..++  .+.++     ..+.++++...-  .+...+....+.+++-++        .+
T Consensus        50 ~i~~Gei~~IiGpnGaGKSTLlr~i~--GL~~p-----~~G~I~i~G~~i~~~~~~~~~~~r~~Ig~v~Q~~~l~~~~TV  122 (366)
T 3tui_C           50 HVPAGQIYGVIGASGAGKSTLIRCVN--LLERP-----TEGSVLVDGQELTTLSESELTKARRQIGMIFQHFNLLSSRTV  122 (366)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHH--TSSCC-----SEEEEEETTEECSSCCHHHHHHHHTTEEEECSSCCCCTTSCH
T ss_pred             EEcCCCEEEEEcCCCchHHHHHHHHh--cCCCC-----CceEEEECCEECCcCCHHHHHHHhCcEEEEeCCCccCCCCCH
Confidence            58899999999999999999998554  33332     234556655432  223333333334443222        23


Q ss_pred             cccEEEEe---cCCHHHH----HHHHHHH-----------------------HHHhhcCCceEEEEcccccchhcccCCC
Q 047388          192 LDNIIYAR---AYTYEHQ----YNLLLGL-----------------------AAKMSEEPFRLLIVDSVIALFRVDFTGR  241 (352)
Q Consensus       192 ~~~i~~~~---~~~~~~~----~~~l~~l-----------------------~~~l~~~~~~lvvIDsl~~l~~~~~~~~  241 (352)
                      .+|+.+..   .....+.    .+++..+                       .+.+ -.+|+++++|+.++.+.+     
T Consensus       123 ~env~~~~~~~~~~~~~~~~~v~~lL~~vgL~~~~~~~~~~LSGGqkQRVaIArAL-~~~P~lLLlDEPTs~LD~-----  196 (366)
T 3tui_C          123 FGNVALPLELDNTPKDEVKRRVTELLSLVGLGDKHDSYPSNLSGGQKQRVAIARAL-ASNPKVLLCDQATSALDP-----  196 (366)
T ss_dssp             HHHHHHHHHHSCCCHHHHHHHHHHHHHHHTCGGGTTCCTTTSCHHHHHHHHHHHHT-TTCCSEEEEESTTTTSCH-----
T ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHHHHHcCCchHhcCChhhCCHHHHHHHHHHHHH-hcCCCEEEEECCCccCCH-----
Confidence            33332210   0111111    1111111                       0111 137999999998877532     


Q ss_pred             cchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          242 GELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       242 g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                         ..+    ..+++.|++++++.|+|||+++|-..
T Consensus       197 ---~~~----~~i~~lL~~l~~~~g~Tii~vTHdl~  225 (366)
T 3tui_C          197 ---ATT----RSILELLKDINRRLGLTILLITHEMD  225 (366)
T ss_dssp             ---HHH----HHHHHHHHHHHHHSCCEEEEEESCHH
T ss_pred             ---HHH----HHHHHHHHHHHHhCCCEEEEEecCHH
Confidence               122    37888899999889999999999653

>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=98.91  E-value=1.3e-08  Score=89.98  Aligned_cols=59  Identities=14%  Similarity=0.151  Sum_probs=42.9

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhh
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAH  299 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~  299 (352)
                      .+|+++++|+.++-+..        ..+    ..+.+.|++++++.|.+||+++|-..                   ...
T Consensus       162 ~~p~llllDEPts~LD~--------~~~----~~i~~~l~~l~~~~g~tvi~vtHd~~-------------------~~~  210 (235)
T 3tif_A          162 NNPPIILADQPTWALDS--------KTG----EKIMQLLKKLNEEDGKTVVVVTHDIN-------------------VAR  210 (235)
T ss_dssp             TCCSEEEEESTTTTSCH--------HHH----HHHHHHHHHHHHHHCCEEEEECSCHH-------------------HHT
T ss_pred             cCCCEEEEeCCcccCCH--------HHH----HHHHHHHHHHHHHcCCEEEEEcCCHH-------------------HHH
Confidence            37999999998877532        222    37788888888888999999999543                   123


Q ss_pred             ccceEEEEEe
Q 047388          300 AVTIRLMFRK  309 (352)
Q Consensus       300 ~~~~~i~L~~  309 (352)
                      .+|.++.|..
T Consensus       211 ~~d~i~~l~~  220 (235)
T 3tif_A          211 FGERIIYLKD  220 (235)
T ss_dssp             TSSEEEEEET
T ss_pred             hCCEEEEEEC
Confidence            5677777764

>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=98.87  E-value=9.8e-09  Score=92.11  Aligned_cols=59  Identities=5%  Similarity=0.128  Sum_probs=41.8

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhh
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAH  299 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~  299 (352)
                      .+|+++++|+.++-+..        ..+    ..+.+.|++++++ |.+||+++|-...                  +..
T Consensus       170 ~~p~lllLDEPts~LD~--------~~~----~~l~~~l~~l~~~-g~tvi~vtHd~~~------------------~~~  218 (257)
T 1g6h_A          170 TNPKMIVMDEPIAGVAP--------GLA----HDIFNHVLELKAK-GITFLIIEHRLDI------------------VLN  218 (257)
T ss_dssp             TCCSEEEEESTTTTCCH--------HHH----HHHHHHHHHHHHT-TCEEEEECSCCST------------------TGG
T ss_pred             cCCCEEEEeCCccCCCH--------HHH----HHHHHHHHHHHHC-CCEEEEEecCHHH------------------HHH
Confidence            37999999998877532        222    3677778888765 9999999996531                  245


Q ss_pred             ccceEEEEEe
Q 047388          300 AVTIRLMFRK  309 (352)
Q Consensus       300 ~~~~~i~L~~  309 (352)
                      .+|.++.|..
T Consensus       219 ~~d~v~~l~~  228 (257)
T 1g6h_A          219 YIDHLYVMFN  228 (257)
T ss_dssp             GCSEEEEEET
T ss_pred             hCCEEEEEEC
Confidence            6777777764

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=98.86  E-value=5e-09  Score=91.74  Aligned_cols=143  Identities=13%  Similarity=0.015  Sum_probs=89.4

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCCH
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTY  203 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~  203 (352)
                      .+|.++.++|++|+||||++++++.+...      .+.+|+++..+..  ..-..+++.++|+..    ..+.+   ...
T Consensus        10 ~~G~i~litG~mGsGKTT~ll~~~~r~~~------~g~kVli~~~~~d--~r~~~~i~srlG~~~----~~~~~---~~~   74 (223)
T 2b8t_A           10 KIGWIEFITGPMFAGKTAELIRRLHRLEY------ADVKYLVFKPKID--TRSIRNIQSRTGTSL----PSVEV---ESA   74 (223)
T ss_dssp             -CCEEEEEECSTTSCHHHHHHHHHHHHHH------TTCCEEEEEECCC--GGGCSSCCCCCCCSS----CCEEE---SST
T ss_pred             CCcEEEEEECCCCCcHHHHHHHHHHHHHh------cCCEEEEEEeccC--chHHHHHHHhcCCCc----ccccc---CCH
Confidence            56899999999999999999999988765      5778999965532  111113344455433    22222   222


Q ss_pred             HHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCc
Q 047388          204 EHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGV  283 (352)
Q Consensus       204 ~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~  283 (352)
                      .+   ++..+...+...++++|+||+++.+..                 .++..+..++.. +++||++.|...- .+..
T Consensus        75 ~~---i~~~i~~~~~~~~~dvViIDEaQ~l~~-----------------~~ve~l~~L~~~-gi~Vil~Gl~~df-~~~~  132 (223)
T 2b8t_A           75 PE---ILNYIMSNSFNDETKVIGIDEVQFFDD-----------------RICEVANILAEN-GFVVIISGLDKNF-KGEP  132 (223)
T ss_dssp             HH---HHHHHHSTTSCTTCCEEEECSGGGSCT-----------------HHHHHHHHHHHT-TCEEEEECCSBCT-TSSB
T ss_pred             HH---HHHHHHHHhhCCCCCEEEEecCccCcH-----------------HHHHHHHHHHhC-CCeEEEEeccccc-cCCc
Confidence            22   333333334445689999999987521                 233445666664 9999999997752 2332


Q ss_pred             ccCCCCCCCcchhhhhccceEEEEEee
Q 047388          284 FISDPKKPAGGHVLAHAVTIRLMFRKG  310 (352)
Q Consensus       284 ~~~~~~~~~gg~~~~~~~~~~i~L~~~  310 (352)
                      |.       +...+...+|.+..|+..
T Consensus       133 F~-------~~~~Ll~lAD~V~el~~i  152 (223)
T 2b8t_A          133 FG-------PIAKLFTYADKITKLTAI  152 (223)
T ss_dssp             CT-------THHHHHHHCSEEEECCEE
T ss_pred             CC-------CcHHHHHHhheEeeccee
Confidence            31       124556688988887654

>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=98.84  E-value=7.4e-09  Score=93.33  Aligned_cols=59  Identities=14%  Similarity=0.157  Sum_probs=42.9

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +|+++++|+.++-+..        ..+    ..+.+.|++++++.+++||+++|-..                  .+...
T Consensus       165 ~p~lLllDEPts~LD~--------~~~----~~i~~~l~~l~~~~~~tvi~vtHdl~------------------~~~~~  214 (266)
T 4g1u_C          165 TPRWLFLDEPTSALDL--------YHQ----QHTLRLLRQLTRQEPLAVCCVLHDLN------------------LAALY  214 (266)
T ss_dssp             CCEEEEECCCCSSCCH--------HHH----HHHHHHHHHHHHHSSEEEEEECSCHH------------------HHHHH
T ss_pred             CCCEEEEeCccccCCH--------HHH----HHHHHHHHHHHHcCCCEEEEEEcCHH------------------HHHHh
Confidence            7999999998876432        222    37788888888888899999999653                  13456


Q ss_pred             cceEEEEEe
Q 047388          301 VTIRLMFRK  309 (352)
Q Consensus       301 ~~~~i~L~~  309 (352)
                      +|.++.|..
T Consensus       215 ~d~v~vl~~  223 (266)
T 4g1u_C          215 ADRIMLLAQ  223 (266)
T ss_dssp             CSEEEEEET
T ss_pred             CCEEEEEEC
Confidence            677777764

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=98.81  E-value=2.8e-08  Score=87.30  Aligned_cols=44  Identities=18%  Similarity=0.215  Sum_probs=32.8

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                      .+|+++++|+.++.+..        ..+    ..+.+.|++++++ |.+||+++|-.
T Consensus       157 ~~p~lllLDEPt~~LD~--------~~~----~~~~~~l~~l~~~-g~tvi~vtHd~  200 (224)
T 2pcj_A          157 NEPILLFADEPTGNLDS--------ANT----KRVMDIFLKINEG-GTSIVMVTHER  200 (224)
T ss_dssp             TCCSEEEEESTTTTCCH--------HHH----HHHHHHHHHHHHT-TCEEEEECSCH
T ss_pred             cCCCEEEEeCCCCCCCH--------HHH----HHHHHHHHHHHHC-CCEEEEEcCCH
Confidence            37999999998876432        222    3677778888776 99999999954

>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=98.80  E-value=1.1e-08  Score=92.14  Aligned_cols=149  Identities=18%  Similarity=0.225  Sum_probs=82.4

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCC-ChhhHHHHHHHcCCCcc--------ccc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTF-RPDRIVPIAERFGMDPG--------AVL  192 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~-~~~rl~~~~~~~~~~~~--------~~~  192 (352)
                      -+++|+++.|.||+|||||||+..++  ...++     ..+.++++..... .........+.+++-++        .+.
T Consensus        46 ~i~~Gei~~liG~NGsGKSTLlk~l~--Gl~~p-----~~G~I~~~g~~i~~~~~~~~~~~~~i~~v~Q~~~l~~~~tv~  118 (263)
T 2olj_A           46 HIREGEVVVVIGPSGSGKSTFLRCLN--LLEDF-----DEGEIIIDGINLKAKDTNLNKVREEVGMVFQRFNLFPHMTVL  118 (263)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHT--TSSCC-----SEEEEEETTEESSSTTCCHHHHHHHEEEECSSCCCCTTSCHH
T ss_pred             EEcCCCEEEEEcCCCCcHHHHHHHHH--cCCCC-----CCcEEEECCEECCCccccHHHHhCcEEEEeCCCcCCCCCCHH
Confidence            57899999999999999999999654  33332     2344555543210 11112222333433221        233


Q ss_pred             ccEEEEe----cCCHHH----HHHHHHHH-----------------------HHHhhcCCceEEEEcccccchhcccCCC
Q 047388          193 DNIIYAR----AYTYEH----QYNLLLGL-----------------------AAKMSEEPFRLLIVDSVIALFRVDFTGR  241 (352)
Q Consensus       193 ~~i~~~~----~~~~~~----~~~~l~~l-----------------------~~~l~~~~~~lvvIDsl~~l~~~~~~~~  241 (352)
                      +|+.+..    ......    ..++++.+                       .+.+ -.+|+++++|+.++-+..     
T Consensus       119 e~l~~~~~~~~~~~~~~~~~~~~~~l~~~~L~~~~~~~~~~LSgGqkQRv~lAraL-~~~p~lllLDEPts~LD~-----  192 (263)
T 2olj_A          119 NNITLAPMKVRKWPREKAEAKAMELLDKVGLKDKAHAYPDSLSGGQAQRVAIARAL-AMEPKIMLFDEPTSALDP-----  192 (263)
T ss_dssp             HHHHHHHHHTSCCCHHHHHHHHHHHHHHTTCGGGTTSCGGGSCHHHHHHHHHHHHH-TTCCSEEEEESTTTTSCH-----
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHHCCCchHhcCChhhCCHHHHHHHHHHHHH-HCCCCEEEEeCCcccCCH-----
Confidence            3432210    011111    11111111                       0111 137999999998877532     


Q ss_pred             cchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEe
Q 047388          242 GELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRK  309 (352)
Q Consensus       242 g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~  309 (352)
                         ..+    ..+.+.|++++++ +.+||+++|-..                  .+...+|.++.|..
T Consensus       193 ---~~~----~~~~~~l~~l~~~-g~tvi~vtHd~~------------------~~~~~~d~v~~l~~  234 (263)
T 2olj_A          193 ---EMV----GEVLSVMKQLANE-GMTMVVVTHEMG------------------FAREVGDRVLFMDG  234 (263)
T ss_dssp             ---HHH----HHHHHHHHHHHHT-TCEEEEECSCHH------------------HHHHHCSEEEEEET
T ss_pred             ---HHH----HHHHHHHHHHHhC-CCEEEEEcCCHH------------------HHHHhCCEEEEEEC
Confidence               222    3677778888776 999999999643                  24556787777764

>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=98.77  E-value=4.5e-09  Score=99.08  Aligned_cols=44  Identities=11%  Similarity=0.174  Sum_probs=34.0

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                      +|+++++|+.++-+..        ..|    .++...|+++.++.|+|+|+++|-.
T Consensus       151 ~P~lLLLDEPts~LD~--------~~~----~~l~~~l~~l~~~~g~tii~vTHd~  194 (381)
T 3rlf_A          151 EPSVFLLDEPLSNLDA--------ALR----VQMRIEISRLHKRLGRTMIYVTHDQ  194 (381)
T ss_dssp             CCSEEEEESTTTTSCH--------HHH----HHHHHHHHHHHHHHCCEEEEECSCH
T ss_pred             CCCEEEEECCCcCCCH--------HHH----HHHHHHHHHHHHhCCCEEEEEECCH
Confidence            7899999998776431        222    3777888889889999999999943

>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=98.75  E-value=1.6e-09  Score=101.41  Aligned_cols=45  Identities=9%  Similarity=0.050  Sum_probs=33.3

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                      .+|+++++|+.++-+..        ..|    .++...|+++.++.|+|+|+++|-.
T Consensus       155 ~~P~lLLLDEPts~LD~--------~~r----~~l~~~l~~~~~~~g~tvi~vTHd~  199 (359)
T 3fvq_A          155 PDPELILLDEPFSALDE--------QLR----RQIREDMIAALRANGKSAVFVSHDR  199 (359)
T ss_dssp             TCCSEEEEESTTTTSCH--------HHH----HHHHHHHHHHHHHTTCEEEEECCCH
T ss_pred             cCCCEEEEeCCcccCCH--------HHH----HHHHHHHHHHHHhCCCEEEEEeCCH
Confidence            37999999998776431        222    2566678888888899999999943

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=98.72  E-value=1.4e-08  Score=95.36  Aligned_cols=45  Identities=11%  Similarity=0.205  Sum_probs=34.2

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                      .+|+++++|+.++-+..        ..|    .++...|+++.++.|+++|+++|-.
T Consensus       150 ~~P~lLLLDEP~s~LD~--------~~r----~~l~~~l~~l~~~~g~tvi~vTHd~  194 (362)
T 2it1_A          150 KEPEVLLLDEPLSNLDA--------LLR----LEVRAELKRLQKELGITTVYVTHDQ  194 (362)
T ss_dssp             TCCSEEEEESGGGGSCH--------HHH----HHHHHHHHHHHHHHTCEEEEEESCH
T ss_pred             cCCCEEEEECccccCCH--------HHH----HHHHHHHHHHHHhCCCEEEEECCCH
Confidence            37999999998776432        222    3677788888888899999999943

>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=98.71  E-value=4.9e-08  Score=87.39  Aligned_cols=26  Identities=31%  Similarity=0.385  Sum_probs=23.6

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la  147 (352)
                      -+++|+++.|.||+|||||||+..++
T Consensus        37 ~i~~Gei~~l~G~NGsGKSTLlk~l~   62 (256)
T 1vpl_A           37 EIEEGEIFGLIGPNGAGKTTTLRIIS   62 (256)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHT
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHh
Confidence            47899999999999999999999654

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=98.71  E-value=8.6e-08  Score=85.69  Aligned_cols=135  Identities=16%  Similarity=0.177  Sum_probs=72.0

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCC--CCeEEEEeCCCCCC-hhhHHHH------------------
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGG--NGKVAYIDTEGTFR-PDRIVPI------------------  180 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~--~~~vl~i~~e~~~~-~~rl~~~------------------  180 (352)
                      -+++|+++.|.||+|||||||+..++  ...++..|.-  ...+.|+..+..+. ...+.+.                  
T Consensus        27 ~i~~Ge~~~l~G~nGsGKSTLl~~l~--Gl~~p~~G~I~~~~~i~~v~q~~~~~~~~tv~enl~~~~~~~~~~~~~~~~~  104 (253)
T 2nq2_C           27 DLNKGDILAVLGQNGCGKSTLLDLLL--GIHRPIQGKIEVYQSIGFVPQFFSSPFAYSVLDIVLMGRSTHINTFAKPKSH  104 (253)
T ss_dssp             EEETTCEEEEECCSSSSHHHHHHHHT--TSSCCSEEEEEECSCEEEECSCCCCSSCCBHHHHHHGGGGGGSCTTCCCCHH
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHh--CCCCCCCcEEEEeccEEEEcCCCccCCCCCHHHHHHHhhhhhcccccCCCHH
Confidence            47899999999999999999999654  3343333221  23455654432221 1112111                  


Q ss_pred             --------HHHcCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHH
Q 047388          181 --------AERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLG  252 (352)
Q Consensus       181 --------~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~  252 (352)
                              ++.+++..  ..++  .....+.. +.+.+.-+...+  .+|+++++|+.++.+..        ..+    .
T Consensus       105 ~~~~~~~~l~~~~l~~--~~~~--~~~~LSgG-q~qrv~lAraL~--~~p~lllLDEPts~LD~--------~~~----~  165 (253)
T 2nq2_C          105 DYQVAMQALDYLNLTH--LAKR--EFTSLSGG-QRQLILIARAIA--SECKLILLDEPTSALDL--------ANQ----D  165 (253)
T ss_dssp             HHHHHHHHHHHTTCGG--GTTS--BGGGSCHH-HHHHHHHHHHHH--TTCSEEEESSSSTTSCH--------HHH----H
T ss_pred             HHHHHHHHHHHcCChH--HhcC--ChhhCCHH-HHHHHHHHHHHH--cCCCEEEEeCCcccCCH--------HHH----H
Confidence                    11122110  0000  00011111 111111111122  37999999998876532        222    3


Q ss_pred             HHHHHHHHHHHHhCcEEEEEccccc
Q 047388          253 QMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       253 ~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      .+.+.|++++++.+.+||+++|-..
T Consensus       166 ~l~~~l~~l~~~~g~tvi~vtHd~~  190 (253)
T 2nq2_C          166 IVLSLLIDLAQSQNMTVVFTTHQPN  190 (253)
T ss_dssp             HHHHHHHHHHHTSCCEEEEEESCHH
T ss_pred             HHHHHHHHHHHhcCCEEEEEecCHH
Confidence            6777788887766999999999643

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=98.71  E-value=3.4e-08  Score=88.77  Aligned_cols=58  Identities=12%  Similarity=0.234  Sum_probs=41.5

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHA  300 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~  300 (352)
                      +|+++++|+.++-+..        ..+    ..+.+.|++++++ |.+||+++|-..                  .+...
T Consensus       171 ~p~lllLDEPts~LD~--------~~~----~~~~~~l~~l~~~-g~tvi~vtHd~~------------------~~~~~  219 (262)
T 1b0u_A          171 EPDVLLFDEPTSALDP--------ELV----GEVLRIMQQLAEE-GKTMVVVTHEMG------------------FARHV  219 (262)
T ss_dssp             CCSEEEEESTTTTSCH--------HHH----HHHHHHHHHHHHT-TCCEEEECSCHH------------------HHHHH
T ss_pred             CCCEEEEeCCCccCCH--------HHH----HHHHHHHHHHHhC-CCEEEEEeCCHH------------------HHHHh
Confidence            7999999998876432        222    3677778888766 999999999643                  13556


Q ss_pred             cceEEEEEe
Q 047388          301 VTIRLMFRK  309 (352)
Q Consensus       301 ~~~~i~L~~  309 (352)
                      +|.++.|..
T Consensus       220 ~d~v~~l~~  228 (262)
T 1b0u_A          220 SSHVIFLHQ  228 (262)
T ss_dssp             CSEEEEEET
T ss_pred             CCEEEEEEC
Confidence            777777764

>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=98.70  E-value=1.6e-08  Score=95.31  Aligned_cols=43  Identities=14%  Similarity=0.223  Sum_probs=33.3

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQV  275 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~  275 (352)
                      +|+++++|+.++-+..        ..|    .++...|+++.++.|+++|+++|-
T Consensus       159 ~P~lLLLDEP~s~LD~--------~~r----~~l~~~l~~l~~~~g~tvi~vTHd  201 (372)
T 1v43_A          159 EPDVLLMDEPLSNLDA--------KLR----VAMRAEIKKLQQKLKVTTIYVTHD  201 (372)
T ss_dssp             CCSEEEEESTTTTSCH--------HHH----HHHHHHHHHHHHHHTCEEEEEESC
T ss_pred             CCCEEEEcCCCccCCH--------HHH----HHHHHHHHHHHHhCCCEEEEEeCC
Confidence            7999999998776431        222    267778888888889999999994

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=98.70  E-value=1.4e-08  Score=94.99  Aligned_cols=45  Identities=13%  Similarity=0.194  Sum_probs=34.1

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                      .+|+++++|+.++-+..        ..|    .++...|+++.++.++++|+++|-.
T Consensus       162 ~~P~lLLLDEP~s~LD~--------~~r----~~l~~~l~~l~~~~g~tvi~vTHd~  206 (355)
T 1z47_A          162 PRPQVLLFDEPFAAIDT--------QIR----RELRTFVRQVHDEMGVTSVFVTHDQ  206 (355)
T ss_dssp             TCCSEEEEESTTCCSSH--------HHH----HHHHHHHHHHHHHHTCEEEEECSCH
T ss_pred             cCCCEEEEeCCcccCCH--------HHH----HHHHHHHHHHHHhcCCEEEEECCCH
Confidence            37999999998776421        222    3677788888888899999999943

>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=98.69  E-value=8e-09  Score=96.87  Aligned_cols=45  Identities=11%  Similarity=0.191  Sum_probs=34.1

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                      .+|+++++|+.++-+..        ..|    .++...|+++.++.|+|+|+++|-.
T Consensus       150 ~~P~lLLLDEP~s~LD~--------~~r----~~l~~~l~~l~~~~g~tvi~vTHd~  194 (359)
T 2yyz_A          150 KQPKVLLFDEPLSNLDA--------NLR----MIMRAEIKHLQQELGITSVYVTHDQ  194 (359)
T ss_dssp             TCCSEEEEESTTTTSCH--------HHH----HHHHHHHHHHHHHHCCEEEEEESCH
T ss_pred             cCCCEEEEECCcccCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEcCCH
Confidence            37999999998776431        222    2677788888888899999999953

>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=98.68  E-value=2.5e-08  Score=88.49  Aligned_cols=59  Identities=10%  Similarity=0.086  Sum_probs=41.5

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhh
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAH  299 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~  299 (352)
                      .+|+++++|+.++-+..        ..+    ..+.+.|+++++ .|.+||+++|-..                  .+..
T Consensus       156 ~~p~lllLDEPts~LD~--------~~~----~~l~~~l~~~~~-~g~tvi~vtHd~~------------------~~~~  204 (240)
T 1ji0_A          156 SRPKLLMMDEPSLGLAP--------ILV----SEVFEVIQKINQ-EGTTILLVEQNAL------------------GALK  204 (240)
T ss_dssp             TCCSEEEEECTTTTCCH--------HHH----HHHHHHHHHHHH-TTCCEEEEESCHH------------------HHHH
T ss_pred             cCCCEEEEcCCcccCCH--------HHH----HHHHHHHHHHHH-CCCEEEEEecCHH------------------HHHH
Confidence            37999999998877532        222    267777788765 5899999999643                  1355


Q ss_pred             ccceEEEEEe
Q 047388          300 AVTIRLMFRK  309 (352)
Q Consensus       300 ~~~~~i~L~~  309 (352)
                      .+|.++.|..
T Consensus       205 ~~d~v~~l~~  214 (240)
T 1ji0_A          205 VAHYGYVLET  214 (240)
T ss_dssp             HCSEEEEEET
T ss_pred             hCCEEEEEEC
Confidence            6787777764

>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=98.65  E-value=6.5e-08  Score=90.30  Aligned_cols=45  Identities=9%  Similarity=0.141  Sum_probs=34.0

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                      .+|+++++|+.++-+..        ..|    .++...|+++.++.|+++|+++|-.
T Consensus       144 ~~P~lLLLDEP~s~LD~--------~~~----~~l~~~l~~l~~~~g~tii~vTHd~  188 (348)
T 3d31_A          144 TNPKILLLDEPLSALDP--------RTQ----ENAREMLSVLHKKNKLTVLHITHDQ  188 (348)
T ss_dssp             SCCSEEEEESSSTTSCH--------HHH----HHHHHHHHHHHHHTTCEEEEEESCH
T ss_pred             cCCCEEEEECccccCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEeCCH
Confidence            37999999998776432        222    3677788888888899999999953

>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=98.64  E-value=2e-08  Score=94.65  Aligned_cols=44  Identities=14%  Similarity=0.231  Sum_probs=33.6

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccc
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQV  275 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~  275 (352)
                      .+|+++++|+.++-+..        ..|    .++...|+++.++.++++|+++|-
T Consensus       156 ~~P~lLLLDEP~s~LD~--------~~r----~~l~~~l~~l~~~~g~tvi~vTHd  199 (372)
T 1g29_1          156 RKPQVFLMDEPLSNLDA--------KLR----VRMRAELKKLQRQLGVTTIYVTHD  199 (372)
T ss_dssp             TCCSEEEEECTTTTSCH--------HHH----HHHHHHHHHHHHHHTCEEEEEESC
T ss_pred             cCCCEEEECCCCccCCH--------HHH----HHHHHHHHHHHHhcCCEEEEECCC
Confidence            37999999998776432        222    267778888888889999999994

>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=98.64  E-value=1.1e-08  Score=95.71  Aligned_cols=45  Identities=11%  Similarity=0.179  Sum_probs=34.2

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                      .+|+++++|+.++-+..        ..|    .++...|+++.++.|+++|+++|-.
T Consensus       157 ~~P~lLLLDEP~s~LD~--------~~r----~~l~~~l~~l~~~~g~tvi~vTHd~  201 (353)
T 1oxx_K          157 KDPSLLLLDEPFSNLDA--------RMR----DSARALVKEVQSRLGVTLLVVSHDP  201 (353)
T ss_dssp             TCCSEEEEESTTTTSCG--------GGH----HHHHHHHHHHHHHHCCEEEEEESCH
T ss_pred             hCCCEEEEECCcccCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEeCCH
Confidence            37999999998776532        122    2677778888888899999999953

>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=98.61  E-value=4.1e-07  Score=79.11  Aligned_cols=45  Identities=13%  Similarity=0.225  Sum_probs=32.5

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      .+|+++++|+.++-+...        .+    ..+.+.|++++++ +.+||+++|-..
T Consensus       150 ~~p~lllLDEPts~LD~~--------~~----~~l~~~l~~~~~~-g~tiiivtHd~~  194 (214)
T 1sgw_A          150 VNAEIYVLDDPVVAIDED--------SK----HKVLKSILEILKE-KGIVIISSREEL  194 (214)
T ss_dssp             SCCSEEEEESTTTTSCTT--------TH----HHHHHHHHHHHHH-HSEEEEEESSCC
T ss_pred             hCCCEEEEECCCcCCCHH--------HH----HHHHHHHHHHHhC-CCEEEEEeCCHH
Confidence            479999999998875431        11    2666777777655 789999999654

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=98.61  E-value=1.1e-06  Score=79.16  Aligned_cols=45  Identities=16%  Similarity=0.181  Sum_probs=33.4

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      .+|+++++|+.++-+..        ..+    ..+.+.|++++++ |.+||+++|-..
T Consensus       155 ~~p~lllLDEPts~LD~--------~~~----~~l~~~l~~l~~~-g~tii~vtHd~~  199 (266)
T 2yz2_A          155 HEPDILILDEPLVGLDR--------EGK----TDLLRIVEKWKTL-GKTVILISHDIE  199 (266)
T ss_dssp             TCCSEEEEESTTTTCCH--------HHH----HHHHHHHHHHHHT-TCEEEEECSCCT
T ss_pred             cCCCEEEEcCccccCCH--------HHH----HHHHHHHHHHHHc-CCEEEEEeCCHH
Confidence            37999999998877532        222    3677778888776 999999999643

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=98.60  E-value=1e-07  Score=79.97  Aligned_cols=23  Identities=26%  Similarity=0.326  Sum_probs=21.5

Q ss_pred             CCCCcEEEEecCCCCChhHHHHH
Q 047388          123 IETGAITEAFGEFRSGKTQLAHT  145 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~  145 (352)
                      +++|+++.|+|+||||||||+..
T Consensus         6 i~~gei~~l~G~nGsGKSTl~~~   28 (171)
T 4gp7_A            6 IPELSLVVLIGSSGSGKSTFAKK   28 (171)
T ss_dssp             EESSEEEEEECCTTSCHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHH
Confidence            67899999999999999999994

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=98.59  E-value=4.7e-08  Score=88.64  Aligned_cols=45  Identities=22%  Similarity=0.269  Sum_probs=33.1

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEE--EEEccccc
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAV--YMTNQVIA  277 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~v--iv~~h~~~  277 (352)
                      .+|+++++|+.++-+..        ..+    ..+.+.|++++++ |.+|  |+++|-..
T Consensus       178 ~~p~lLlLDEPts~LD~--------~~~----~~l~~~l~~l~~~-g~tv~~iivtHd~~  224 (279)
T 2ihy_A          178 GQPQVLILDEPAAGLDF--------IAR----ESLLSILDSLSDS-YPTLAMIYVTHFIE  224 (279)
T ss_dssp             TCCSEEEEESTTTTCCH--------HHH----HHHHHHHHHHHHH-CTTCEEEEEESCGG
T ss_pred             CCCCEEEEeCCccccCH--------HHH----HHHHHHHHHHHHC-CCEEEEEEEecCHH
Confidence            37999999998876532        222    3677778888776 8888  99988654

>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=98.58  E-value=1.4e-07  Score=83.99  Aligned_cols=26  Identities=27%  Similarity=0.440  Sum_probs=23.5

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la  147 (352)
                      -+++|+++.|.||+|||||||+..++
T Consensus        31 ~i~~Ge~~~i~G~nGsGKSTLl~~l~   56 (247)
T 2ff7_A           31 SIKQGEVIGIVGRSGSGKSTLTKLIQ   56 (247)
T ss_dssp             EEETTCEEEEECSTTSSHHHHHHHHT
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHh
Confidence            47899999999999999999999654

>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=98.56  E-value=4.9e-08  Score=87.06  Aligned_cols=26  Identities=23%  Similarity=0.404  Sum_probs=23.5

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la  147 (352)
                      -+++|+++.|.||+|||||||+..++
T Consensus        22 ~i~~Ge~~~liG~NGsGKSTLlk~l~   47 (249)
T 2qi9_C           22 EVRAGEILHLVGPNGAGKSTLLARMA   47 (249)
T ss_dssp             EEETTCEEEEECCTTSSHHHHHHHHT
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHh
Confidence            57899999999999999999999654

>2kz3_A Putative uncharacterized protein RAD51L3; RAD51D, homologous recombination, unknown function; NMR {Homo sapiens}

Probab=98.55  E-value=1.3e-07  Score=68.79  Aligned_cols=65  Identities=15%  Similarity=0.108  Sum_probs=61.9

Q ss_pred             CCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHHHHhhcCCCchhhhHHh
Q 047388           37 QGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGYITGSDALLR  101 (352)
Q Consensus        37 ~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  101 (352)
                      +||++..++.|+++||.|+.|++..++.+|.+++|++++.+.++.+.+.+.+.+.++++.+++++
T Consensus        10 p~Lse~~~~~L~~~~I~Tv~Dfl~~d~~eL~~~~~ls~~~v~~l~r~l~~~~s~~~~~~~~~~~~   74 (83)
T 2kz3_A           10 PGLTEEMIQLLRSHRIKTVVDLVSADLEEVAQKCGLSYKALVALRRVLLAQFSAFPVNGADLYEE   74 (83)
T ss_dssp             TTCCHHHHHHHHHTTCCCHHHHTTSCHHHHHHHHTCCHHHHHHHHHHHHHHHCSSCCCCCCCCCC
T ss_pred             CCCCHHHHHHHHHCCCCCHHHHHhCCHHHHHHHhCCCHHHHHHHHHHHHHHhCCCcCcHHHHHHH
Confidence            69999999999999999999999999999999999999999999999999999999999998754

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=98.55  E-value=1.4e-07  Score=83.62  Aligned_cols=60  Identities=17%  Similarity=0.267  Sum_probs=43.0

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhh
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAH  299 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~  299 (352)
                      .+|+++++|+.++-+..        ..+    ..+.+.|++++++.|.+||+++|-..                  .+..
T Consensus       143 ~~p~lllLDEPts~LD~--------~~~----~~~~~~l~~l~~~~g~tvi~vtHd~~------------------~~~~  192 (240)
T 2onk_A          143 IQPRLLLLDEPLSAVDL--------KTK----GVLMEELRFVQREFDVPILHVTHDLI------------------EAAM  192 (240)
T ss_dssp             TCCSSBEEESTTSSCCH--------HHH----HHHHHHHHHHHHHHTCCEEEEESCHH------------------HHHH
T ss_pred             cCCCEEEEeCCcccCCH--------HHH----HHHHHHHHHHHHhcCCEEEEEeCCHH------------------HHHH
Confidence            37899999998876432        222    36777888888778999999999543                  1355


Q ss_pred             ccceEEEEEe
Q 047388          300 AVTIRLMFRK  309 (352)
Q Consensus       300 ~~~~~i~L~~  309 (352)
                      .+|.++.|..
T Consensus       193 ~~d~i~~l~~  202 (240)
T 2onk_A          193 LADEVAVMLN  202 (240)
T ss_dssp             HCSEEEEEET
T ss_pred             hCCEEEEEEC
Confidence            6777777764

>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=98.49  E-value=1.4e-07  Score=86.64  Aligned_cols=26  Identities=19%  Similarity=0.288  Sum_probs=23.5

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la  147 (352)
                      -+++|+++.|+||+|||||||+..++
T Consensus        76 ~i~~Ge~vaivG~sGsGKSTLl~ll~  101 (306)
T 3nh6_A           76 TVMPGQTLALVGPSGAGKSTILRLLF  101 (306)
T ss_dssp             EECTTCEEEEESSSCHHHHHHHHHHT
T ss_pred             EEcCCCEEEEECCCCchHHHHHHHHH
Confidence            57899999999999999999998554

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=98.49  E-value=2.3e-07  Score=83.79  Aligned_cols=45  Identities=20%  Similarity=0.220  Sum_probs=33.2

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +|+++++|+.++-+..        ..+    ..+.+.|++++++.+.+||+++|-..
T Consensus       174 ~p~lllLDEPts~LD~--------~~~----~~i~~~l~~~~~~~g~tviivtHd~~  218 (271)
T 2ixe_A          174 KPRLLILDNATSALDA--------GNQ----LRVQRLLYESPEWASRTVLLITQQLS  218 (271)
T ss_dssp             CCSEEEEESTTTTCCH--------HHH----HHHHHHHHHCTTTTTSEEEEECSCHH
T ss_pred             CCCEEEEECCccCCCH--------HHH----HHHHHHHHHHHhhcCCEEEEEeCCHH
Confidence            7999999998876532        222    26777788877667899999999543

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=98.49  E-value=8.4e-07  Score=72.63  Aligned_cols=40  Identities=25%  Similarity=0.375  Sum_probs=33.0

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      +|+.+.|+|++|+|||+|+..++.....      .+.+++|++...
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~~~------~g~~~~~~~~~~   74 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQALE------AGKNAAYIDAAS   74 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHHHT------TTCCEEEEETTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHh------cCCcEEEEcHHH
Confidence            8999999999999999999988776543      345688988764

>1c9k_A COBU, adenosylcobinamide kinase; alpha/beta structure rossmann fold P-loop, transferase; HET: 5GP; 2.20A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1cbu_A

Probab=98.49  E-value=4.9e-07  Score=76.18  Aligned_cols=126  Identities=16%  Similarity=0.148  Sum_probs=66.7

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEec-CCHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARA-YTYEHQ  206 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~-~~~~~~  206 (352)
                      ++.|+|++|||||+|+.+++..          +.+++|++|...++.+...++.+...-.+    .++..+.. .+..+ 
T Consensus         1 ~ilV~Gg~~SGKS~~A~~la~~----------~~~~~yiaT~~~~d~e~~~rI~~h~~~R~----~~w~tiE~p~~l~~-   65 (180)
T 1c9k_A            1 MILVTGGARSGKSRHAEALIGD----------APQVLYIATSQILDDEMAARIQHHKDGRP----AHWRTAECWRHLDT-   65 (180)
T ss_dssp             CEEEEECTTSSHHHHHHHHHCS----------CSSEEEEECCCC------CHHHHHHHTSC----TTEEEECCSSCGGG-
T ss_pred             CEEEECCCCCcHHHHHHHHHhc----------CCCeEEEecCCCCCHHHHHHHHHHHhcCC----CCcEEEEcHhhHHH-
Confidence            4789999999999999998742          24699999987766543333332211111    12222221 22211 


Q ss_pred             HHHHHHHHHHhhcC--CceEEEEcccccchhcccCC-----Cc---chHH-HHHHHHHHHHHHHHHHHHhCcEEEEEccc
Q 047388          207 YNLLLGLAAKMSEE--PFRLLIVDSVIALFRVDFTG-----RG---ELAD-RQQKLGQMLSRLTKISEEFNVAVYMTNQV  275 (352)
Q Consensus       207 ~~~l~~l~~~l~~~--~~~lvvIDsl~~l~~~~~~~-----~g---~~~~-r~~~l~~i~~~L~~la~~~~~~viv~~h~  275 (352)
                               .+...  +.+.|+||+++.++...+..     ..   +..+ ......++...+..+.+..+..|+|+|++
T Consensus        66 ---------~l~~~~~~~~~VLvDclt~wl~n~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~vlVsNEV  136 (180)
T 1c9k_A           66 ---------LITADLAPDDAILLECITTMVTNLLFALGGENDPEQWDYAAMERAIDDEIQILIAACQRCPAKVVLVTNEV  136 (180)
T ss_dssp             ---------TSCTTSCTTCEEEEECHHHHHHHHHHHC----CTTSCCHHHHHHHHHHHHHHHHHHHHHCCSEEEEECCCC
T ss_pred             ---------HHHhhcccCCeEEEcCHHHHHHHHHhhcccccccccccchhhHHHHHHHHHHHHHHHHccCCCEEEEEccc
Confidence                     12111  23799999999988654311     10   1110 01112344455556655555667777887


Q ss_pred             cc
Q 047388          276 IA  277 (352)
Q Consensus       276 ~~  277 (352)
                      ..
T Consensus       137 G~  138 (180)
T 1c9k_A          137 GM  138 (180)
T ss_dssp             CS
T ss_pred             cC
Confidence            65

>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=98.48  E-value=7e-08  Score=85.77  Aligned_cols=27  Identities=19%  Similarity=0.156  Sum_probs=24.0

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.||+|||||||+..++.
T Consensus        24 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G   50 (243)
T 1mv5_A           24 EAQPNSIIAFAGPSGGGKSTIFSLLER   50 (243)
T ss_dssp             EECTTEEEEEECCTTSSHHHHHHHHTT
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhc
Confidence            578999999999999999999996543

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=98.48  E-value=1.6e-07  Score=79.21  Aligned_cols=43  Identities=23%  Similarity=0.124  Sum_probs=32.8

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      .+++|..+.|+||||+|||+|+..++......     .+..++|++..
T Consensus        34 ~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~-----~g~~~~~~~~~   76 (180)
T 3ec2_A           34 NPEEGKGLTFVGSPGVGKTHLAVATLKAIYEK-----KGIRGYFFDTK   76 (180)
T ss_dssp             CGGGCCEEEECCSSSSSHHHHHHHHHHHHHHH-----SCCCCCEEEHH
T ss_pred             cccCCCEEEEECCCCCCHHHHHHHHHHHHHHH-----cCCeEEEEEHH
Confidence            34568999999999999999999888766421     34567777643

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=98.45  E-value=2.4e-06  Score=84.42  Aligned_cols=138  Identities=14%  Similarity=0.205  Sum_probs=74.7

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCC---CCCeEEEEeCCCCCC-hhhHHHHHHHcCCC---c-----cc
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRG---GNGKVAYIDTEGTFR-PDRIVPIAERFGMD---P-----GA  190 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg---~~~~vl~i~~e~~~~-~~rl~~~~~~~~~~---~-----~~  190 (352)
                      +++|+++.|.|++|||||||+..++  ...++..|.   .+..+.|+..+.... ...+.+........   .     ++
T Consensus       291 i~~Gei~~i~G~nGsGKSTLl~~l~--Gl~~p~~G~i~~~~~~i~~~~q~~~~~~~~tv~~~l~~~~~~~~~~~~~~~~~  368 (538)
T 3ozx_A          291 AKEGEIIGILGPNGIGKTTFARILV--GEITADEGSVTPEKQILSYKPQRIFPNYDGTVQQYLENASKDALSTSSWFFEE  368 (538)
T ss_dssp             EETTCEEEEECCTTSSHHHHHHHHT--TSSCCSBCCEESSCCCEEEECSSCCCCCSSBHHHHHHHHCSSTTCTTSHHHHH
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHh--CCCCCCCcEEEECCeeeEeechhcccccCCCHHHHHHHhhhhccchhHHHHHH
Confidence            5799999999999999999999554  344444332   133455554322110 11122222111000   0     01


Q ss_pred             ccccEEE-------EecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHH
Q 047388          191 VLDNIIY-------ARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISE  263 (352)
Q Consensus       191 ~~~~i~~-------~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~  263 (352)
                      +++.+.+       ....+..+. +.+. +.+.+. .+|+++++|+.++.+.        ...+    .++.+.|+++++
T Consensus       369 ~l~~~~l~~~~~~~~~~LSGGq~-QRv~-iAraL~-~~p~lLlLDEPT~gLD--------~~~~----~~i~~~l~~l~~  433 (538)
T 3ozx_A          369 VTKRLNLHRLLESNVNDLSGGEL-QKLY-IAATLA-KEADLYVLDQPSSYLD--------VEER----YIVAKAIKRVTR  433 (538)
T ss_dssp             TTTTTTGGGCTTSBGGGCCHHHH-HHHH-HHHHHH-SCCSEEEEESTTTTCC--------HHHH----HHHHHHHHHHHH
T ss_pred             HHHHcCCHHHhcCChhhCCHHHH-HHHH-HHHHHH-cCCCEEEEeCCccCCC--------HHHH----HHHHHHHHHHHH
Confidence            1111100       011122221 1111 222222 4799999999988753        2222    377888899998


Q ss_pred             HhCcEEEEEccccc
Q 047388          264 EFNVAVYMTNQVIA  277 (352)
Q Consensus       264 ~~~~~viv~~h~~~  277 (352)
                      +.+.+||+++|-..
T Consensus       434 ~~g~tvi~vsHdl~  447 (538)
T 3ozx_A          434 ERKAVTFIIDHDLS  447 (538)
T ss_dssp             HTTCEEEEECSCHH
T ss_pred             hCCCEEEEEeCCHH
Confidence            89999999999543

>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=98.44  E-value=1.9e-06  Score=86.38  Aligned_cols=133  Identities=14%  Similarity=0.135  Sum_probs=74.8

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCC--CCeEEEEeCCCCCC-hhhHHHH------------------H
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGG--NGKVAYIDTEGTFR-PDRIVPI------------------A  181 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~--~~~vl~i~~e~~~~-~~rl~~~------------------~  181 (352)
                      +++|+++.|.||+|+|||||+..++.  ..++..|.-  ...+.|+.-+.... ...+...                  +
T Consensus       379 v~~Gei~~i~G~NGsGKSTLlk~l~G--l~~p~~G~I~~~~~i~~v~Q~~~~~~~~tv~e~~~~~~~~~~~~~~~~~~~l  456 (607)
T 3bk7_A          379 IRKGEVIGIVGPNGIGKTTFVKMLAG--VEEPTEGKVEWDLTVAYKPQYIKAEYEGTVYELLSKIDSSKLNSNFYKTELL  456 (607)
T ss_dssp             EETTCEEEEECCTTSSHHHHHHHHHT--SSCCSBSCCCCCCCEEEECSSCCCCCSSBHHHHHHHHHHHHHHCHHHHHHTH
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHhc--CCCCCceEEEEeeEEEEEecCccCCCCCcHHHHHHhhhccCCCHHHHHHHHH
Confidence            47899999999999999999996643  444444432  34566765443211 1111111                  1


Q ss_pred             HHcCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHH
Q 047388          182 ERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKI  261 (352)
Q Consensus       182 ~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~l  261 (352)
                      +.+++..  ..++  .....+..+.. .+. +.+.+. .+++++++|+.++.+.        ...+    ..+.+.|+++
T Consensus       457 ~~~~l~~--~~~~--~~~~LSGGe~Q-Rv~-iAraL~-~~p~lLlLDEPt~~LD--------~~~~----~~l~~~l~~l  517 (607)
T 3bk7_A          457 KPLGIID--LYDR--NVEDLSGGELQ-RVA-IAATLL-RDADIYLLDEPSAYLD--------VEQR----LAVSRAIRHL  517 (607)
T ss_dssp             HHHTCTT--TTTS--BGGGCCHHHHH-HHH-HHHHHT-SCCSEEEEECTTTTCC--------HHHH----HHHHHHHHHH
T ss_pred             HHcCCch--HhcC--ChhhCCHHHHH-HHH-HHHHHH-hCCCEEEEeCCccCCC--------HHHH----HHHHHHHHHH
Confidence            1122210  0010  00112222222 111 222222 4789999999988753        2222    3777888888


Q ss_pred             HHHhCcEEEEEcccc
Q 047388          262 SEEFNVAVYMTNQVI  276 (352)
Q Consensus       262 a~~~~~~viv~~h~~  276 (352)
                      +++.+.+||+++|-.
T Consensus       518 ~~~~g~tvi~vsHd~  532 (607)
T 3bk7_A          518 MEKNEKTALVVEHDV  532 (607)
T ss_dssp             HHHTTCEEEEECSCH
T ss_pred             HHhCCCEEEEEeCCH
Confidence            888899999999954

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=98.42  E-value=1.5e-06  Score=86.00  Aligned_cols=138  Identities=12%  Similarity=0.123  Sum_probs=75.8

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCC--CCeEEEEeCCCCCC-hhhHHHHHHHc---CCC-c---cccc
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGG--NGKVAYIDTEGTFR-PDRIVPIAERF---GMD-P---GAVL  192 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~--~~~vl~i~~e~~~~-~~rl~~~~~~~---~~~-~---~~~~  192 (352)
                      +++|+++.|.|++|||||||+..++.  ..++..|.-  ...+.|+.-+.... ...+.......   ... .   .+++
T Consensus       309 i~~Ge~~~i~G~NGsGKSTLlk~l~G--l~~p~~G~i~~~~~i~~v~Q~~~~~~~~tv~~~~~~~~~~~~~~~~~~~~~l  386 (538)
T 1yqt_A          309 IKKGEVIGIVGPNGIGKTTFVKMLAG--VEEPTEGKIEWDLTVAYKPQYIKADYEGTVYELLSKIDASKLNSNFYKTELL  386 (538)
T ss_dssp             EETTCEEEEECCTTSSHHHHHHHHHT--SSCCSBCCCCCCCCEEEECSSCCCCCSSBHHHHHHHHHHHHHTCHHHHHHTT
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHhC--CCCCCCeEEEECceEEEEecCCcCCCCCcHHHHHHhhhccCCCHHHHHHHHH
Confidence            46899999999999999999996653  444443332  34567775543211 11111111110   000 0   1111


Q ss_pred             ccEEE-------EecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHh
Q 047388          193 DNIIY-------ARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEF  265 (352)
Q Consensus       193 ~~i~~-------~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~  265 (352)
                      +.+.+       ....+..+... +. +.+.+. .+++++++|+.++.+.        ...+    ..+.+.|++++++.
T Consensus       387 ~~~~l~~~~~~~~~~LSGGe~qr-v~-lAraL~-~~p~lLlLDEPt~~LD--------~~~~----~~i~~~l~~l~~~~  451 (538)
T 1yqt_A          387 KPLGIIDLYDREVNELSGGELQR-VA-IAATLL-RDADIYLLDEPSAYLD--------VEQR----LAVSRAIRHLMEKN  451 (538)
T ss_dssp             TTTTCGGGTTSBGGGCCHHHHHH-HH-HHHHHT-SCCSEEEEECTTTTCC--------HHHH----HHHHHHHHHHHHHH
T ss_pred             HHcCChhhhcCChhhCCHHHHHH-HH-HHHHHH-hCCCEEEEeCCcccCC--------HHHH----HHHHHHHHHHHHhC
Confidence            11111       01122222221 11 222332 4799999999988753        2222    37778888888888


Q ss_pred             CcEEEEEccccc
Q 047388          266 NVAVYMTNQVIA  277 (352)
Q Consensus       266 ~~~viv~~h~~~  277 (352)
                      +.+||+++|-..
T Consensus       452 g~tvi~vsHd~~  463 (538)
T 1yqt_A          452 EKTALVVEHDVL  463 (538)
T ss_dssp             TCEEEEECSCHH
T ss_pred             CCEEEEEeCCHH
Confidence            999999999543

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=98.38  E-value=2.2e-06  Score=84.77  Aligned_cols=44  Identities=11%  Similarity=0.174  Sum_probs=32.7

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                      .+|+++++|+.++.+..        ..+    ..+...|+++++ .|.+||+++|-.
T Consensus       175 ~~P~lLlLDEPTs~LD~--------~~~----~~l~~~L~~l~~-~g~tvi~vsHd~  218 (538)
T 1yqt_A          175 RNATFYFFDEPSSYLDI--------RQR----LNAARAIRRLSE-EGKSVLVVEHDL  218 (538)
T ss_dssp             SCCSEEEEESTTTTCCH--------HHH----HHHHHHHHHHHH-TTCEEEEECSCH
T ss_pred             cCCCEEEEECCcccCCH--------HHH----HHHHHHHHHHHh-cCCEEEEEeCCH
Confidence            47999999999887532        222    367777777766 599999999954

>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=98.36  E-value=1e-06  Score=78.54  Aligned_cols=27  Identities=22%  Similarity=0.363  Sum_probs=24.3

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.||+|||||||+..++.
T Consensus        25 ~i~~Ge~~~l~G~nGsGKSTLlk~l~G   51 (250)
T 2d2e_A           25 VVPKGEVHALMGPNGAGKSTLGKILAG   51 (250)
T ss_dssp             EEETTCEEEEECSTTSSHHHHHHHHHT
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999999999997654

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=98.34  E-value=4.1e-06  Score=83.81  Aligned_cols=135  Identities=13%  Similarity=0.162  Sum_probs=74.5

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCC--CCCeEEEEeCCCC--CChhhHHHHH---------------
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRG--GNGKVAYIDTEGT--FRPDRIVPIA---------------  181 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg--~~~~vl~i~~e~~--~~~~rl~~~~---------------  181 (352)
                      |-++.|+++.|.|++|+|||||+..++  ...++..|.  ...++.|+.....  +.. .+.+..               
T Consensus       373 G~~~~GEiv~iiG~NGsGKSTLlk~l~--Gl~~p~~G~~~~~~~i~~~~q~~~~~~~~-tv~e~~~~~~~~~~~~~~~~~  449 (608)
T 3j16_B          373 GEFSDSEILVMMGENGTGKTTLIKLLA--GALKPDEGQDIPKLNVSMKPQKIAPKFPG-TVRQLFFKKIRGQFLNPQFQT  449 (608)
T ss_dssp             EECCTTCEEEEESCTTSSHHHHHHHHH--TSSCCSBCCCCCSCCEEEECSSCCCCCCS-BHHHHHHHHCSSTTTSHHHHH
T ss_pred             CccccceEEEEECCCCCcHHHHHHHHh--cCCCCCCCcCccCCcEEEecccccccCCc-cHHHHHHHHhhcccccHHHHH
Confidence            457788999999999999999999654  344444332  1224555543311  111 111111               


Q ss_pred             ---HHcCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHH
Q 047388          182 ---ERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRL  258 (352)
Q Consensus       182 ---~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L  258 (352)
                         +.+++..  ..+.  .....+..+.. .+. +.+.+. .+++++++|+.++.+.        ...+    ..+.+.|
T Consensus       450 ~~l~~l~l~~--~~~~--~~~~LSGGqkQ-Rv~-iAraL~-~~p~lLlLDEPT~gLD--------~~~~----~~i~~ll  510 (608)
T 3j16_B          450 DVVKPLRIDD--IIDQ--EVQHLSGGELQ-RVA-IVLALG-IPADIYLIDEPSAYLD--------SEQR----IICSKVI  510 (608)
T ss_dssp             HTHHHHTSTT--TSSS--BSSSCCHHHHH-HHH-HHHHTT-SCCSEEEECCTTTTCC--------HHHH----HHHHHHH
T ss_pred             HHHHHcCChh--hhcC--ChhhCCHHHHH-HHH-HHHHHH-hCCCEEEEECCCCCCC--------HHHH----HHHHHHH
Confidence               1111110  0000  00112222221 111 222332 4799999999887743        2222    3777888


Q ss_pred             HHHHHHhCcEEEEEccccc
Q 047388          259 TKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       259 ~~la~~~~~~viv~~h~~~  277 (352)
                      ++++++.|.|||+++|-..
T Consensus       511 ~~l~~~~g~tviivtHdl~  529 (608)
T 3j16_B          511 RRFILHNKKTAFIVEHDFI  529 (608)
T ss_dssp             HHHHHHHTCEEEEECSCHH
T ss_pred             HHHHHhCCCEEEEEeCCHH
Confidence            8888888999999999543

>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=98.33  E-value=7.6e-07  Score=89.04  Aligned_cols=27  Identities=26%  Similarity=0.368  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|+||+|||||||+..++.
T Consensus       365 ~i~~G~~~~ivG~sGsGKSTll~~l~g  391 (582)
T 3b5x_A          365 SIPQGKTVALVGRSGSGKSTIANLFTR  391 (582)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhc
Confidence            478999999999999999999996654

>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=98.33  E-value=3.6e-07  Score=82.28  Aligned_cols=27  Identities=30%  Similarity=0.463  Sum_probs=24.4

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.||+|||||||+..++.
T Consensus        42 ~i~~Ge~~~l~G~NGsGKSTLlk~l~G   68 (267)
T 2zu0_C           42 DVHPGEVHAIMGPNGSGKSTLSATLAG   68 (267)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHHT
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999999999997654

>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=98.32  E-value=2.1e-05  Score=76.18  Aligned_cols=85  Identities=13%  Similarity=0.009  Sum_probs=51.4

Q ss_pred             hCCCHHHHHHHHHHHHHHhhc-CCCchhhhHHhhhcccccccCChhhHHhhc-------CCCCCCcEEEEecCCCCChhH
Q 047388           70 KGLSEAKVEKICEAAEKIVNF-GYITGSDALLRRKAVIKITTGSQALDELLG-------GGIETGAITEAFGEFRSGKTQ  141 (352)
Q Consensus        70 ~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~i~TG~~~LD~~L~-------GGl~~G~i~~I~G~~GsGKTt  141 (352)
                      .+++..-+.++++.+.+.... .......+.....         ..|-++|+       =-+.+|+++.|+|++||||||
T Consensus       238 aDv~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~---------~~l~~~l~~~~~~Isl~i~~GeVI~LVGpNGSGKTT  308 (503)
T 2yhs_A          238 ADVGVETTRKIITNLTEGASRKQLRDAEALYGLLK---------EEMGEILAKVDEPLNVEGKAPFVILMVGVNGVGKTT  308 (503)
T ss_dssp             TTCCHHHHHHHHHHHHHHHHHHTCCBGGGHHHHHH---------HHHHHHHHTTBCCCCCCSCTTEEEEEECCTTSSHHH
T ss_pred             cCCCHHHHHHHHHHHHHHHHhccCCCHHHHHHHHH---------HHHHHHhCCCCCCceeeccCCeEEEEECCCcccHHH
Confidence            578877777777776654422 2222222211100         01222221       136789999999999999999


Q ss_pred             HHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          142 LAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       142 l~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      |+..|+.....      .+++|++.+..
T Consensus       309 Ll~~LAgll~~------~~G~V~l~g~D  330 (503)
T 2yhs_A          309 TIGKLARQFEQ------QGKSVMLAAGD  330 (503)
T ss_dssp             HHHHHHHHHHH------TTCCEEEECCC
T ss_pred             HHHHHHHHhhh------cCCeEEEecCc
Confidence            99988766543      45677666554

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.31  E-value=2.8e-06  Score=80.37  Aligned_cols=118  Identities=18%  Similarity=0.235  Sum_probs=72.9

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAY  201 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~  201 (352)
                      |+++-.=++++||||+|||.++..+|...-         ...+.++...-++.                          +
T Consensus       178 gi~~prGvLL~GPPGTGKTllAkAiA~e~~---------~~f~~v~~s~l~sk--------------------------~  222 (405)
T 4b4t_J          178 GIAQPKGVILYGPPGTGKTLLARAVAHHTD---------CKFIRVSGAELVQK--------------------------Y  222 (405)
T ss_dssp             TCCCCCCEEEESCSSSSHHHHHHHHHHHHT---------CEEEEEEGGGGSCS--------------------------S
T ss_pred             CCCCCCceEEeCCCCCCHHHHHHHHHHhhC---------CCceEEEhHHhhcc--------------------------c
Confidence            677766799999999999999998887643         34555554321110                          0


Q ss_pred             CHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCc-chHHHHHHHHHHHHHHHHHHHHhCcEEEEEccc
Q 047388          202 TYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRG-ELADRQQKLGQMLSRLTKISEEFNVAVYMTNQV  275 (352)
Q Consensus       202 ~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g-~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~  275 (352)
                       ..+....+..+........|.+|+||++-++.+....+.+ .....++.+..++..|..+....++.||.++.-
T Consensus       223 -vGese~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~V~vIaATNr  296 (405)
T 4b4t_J          223 -IGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETSKNIKIIMATNR  296 (405)
T ss_dssp             -TTHHHHHHHHHHHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTCCCCEEEEEEESC
T ss_pred             -cchHHHHHHHHHHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccCCCCCeEEEeccCC
Confidence             0111222333444445567999999999999765433221 222334456677777776666667777765543

>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=98.31  E-value=1e-05  Score=73.92  Aligned_cols=138  Identities=16%  Similarity=0.120  Sum_probs=79.6

Q ss_pred             hCCCHHHHHHHHHHHHHHhhcC-C---CchhhhHHhhhcccccccCChhhHHhhcCCCCC-------CcEEEEecCCCCC
Q 047388           70 KGLSEAKVEKICEAAEKIVNFG-Y---ITGSDALLRRKAVIKITTGSQALDELLGGGIET-------GAITEAFGEFRSG  138 (352)
Q Consensus        70 ~~~~~~~~~~~~~~~~~~~~~~-~---~~~~~~~~~~~~~~~i~TG~~~LD~~L~GGl~~-------G~i~~I~G~~GsG  138 (352)
                      .+++..-+.++++.+.+..... .   .+..+        ..+..+...|...++++...       +.++.++|++|+|
T Consensus        39 ~dv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~l~~~~~~~~~~~i~~~~~~~vi~i~G~~G~G  110 (297)
T 1j8m_F           39 ADVNVKLVFSLTNKIKERLKNEKPPTYIERRE--------WFIKIVYDELSNLFGGDKEPKVIPDKIPYVIMLVGVQGTG  110 (297)
T ss_dssp             TTCCHHHHHHHHHHHHHHHHHCCCCTTCCHHH--------HHHHHHHHHHHHHTTCSCCCCCSCSSSSEEEEEECSSCSS
T ss_pred             cCCCHHHHHHHHHHHHHHHhhccccccCChHH--------HHHHHHHHHHHHHhccccccccccCCCCeEEEEECCCCCC
Confidence            4666666666666665443211 1   01111        12344556677766554322       8899999999999


Q ss_pred             hhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCCh--hhHHHHHHHcCCCcccccccEEEEec---CCHHHHHHHHHHH
Q 047388          139 KTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRP--DRIVPIAERFGMDPGAVLDNIIYARA---YTYEHQYNLLLGL  213 (352)
Q Consensus       139 KTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~--~rl~~~~~~~~~~~~~~~~~i~~~~~---~~~~~~~~~l~~l  213 (352)
                      |||++..++.....      .+++|++++.+...+.  ..+..+.++.+++.         +..   .++...   +...
T Consensus       111 KTT~~~~la~~~~~------~g~~v~l~~~D~~r~~a~~ql~~~~~~~~v~v---------~~~~~~~~p~~~---~~~~  172 (297)
T 1j8m_F          111 KTTTAGKLAYFYKK------KGFKVGLVGADVYRPAALEQLQQLGQQIGVPV---------YGEPGEKDVVGI---AKRG  172 (297)
T ss_dssp             TTHHHHHHHHHHHH------TTCCEEEEECCCSSSHHHHHHHHHHHHHTCCE---------ECCTTCCCHHHH---HHHH
T ss_pred             HHHHHHHHHHHHHH------CCCeEEEEecCCCCHHHHHHHHHHhccCCeEE---------EecCCCCCHHHH---HHHH
Confidence            99999999887765      5789999998753221  22333444444432         211   223322   2222


Q ss_pred             HHHhhcCCceEEEEcccccc
Q 047388          214 AAKMSEEPFRLLIVDSVIAL  233 (352)
Q Consensus       214 ~~~l~~~~~~lvvIDsl~~l  233 (352)
                      ...+...+.++|+||....+
T Consensus       173 l~~~~~~~~D~ViIDTpg~~  192 (297)
T 1j8m_F          173 VEKFLSEKMEIIIVDTAGRH  192 (297)
T ss_dssp             HHHHHHTTCSEEEEECCCSC
T ss_pred             HHHHHhCCCCEEEEeCCCCc
Confidence            23333356899999986544

>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=98.29  E-value=1.2e-05  Score=73.68  Aligned_cols=39  Identities=23%  Similarity=0.165  Sum_probs=31.4

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      +|+++.|+||+||||||++..++.....      .+++|.+.+.+
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll~~------~~g~V~l~g~D  139 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYYQN------LGKKVMFCAGD  139 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHT------TTCCEEEECCC
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHh------cCCEEEEEeec
Confidence            6899999999999999999988876553      45677766554

>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=98.28  E-value=4.3e-06  Score=83.78  Aligned_cols=44  Identities=9%  Similarity=0.174  Sum_probs=32.6

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                      .+|+++++|+.++.+.        ...+    ..+.+.|+++++ .|.+||+++|-.
T Consensus       245 ~~P~lLlLDEPTs~LD--------~~~~----~~l~~~L~~l~~-~g~tvIivsHdl  288 (607)
T 3bk7_A          245 RKAHFYFFDEPSSYLD--------IRQR----LKVARVIRRLAN-EGKAVLVVEHDL  288 (607)
T ss_dssp             SCCSEEEEECTTTTCC--------HHHH----HHHHHHHHHHHH-TTCEEEEECSCH
T ss_pred             cCCCEEEEECCcccCC--------HHHH----HHHHHHHHHHHh-cCCEEEEEecCh
Confidence            4799999999988753        2222    267777787766 499999999943

>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=98.27  E-value=5.8e-07  Score=85.12  Aligned_cols=27  Identities=26%  Similarity=0.343  Sum_probs=24.3

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.||||||||||+..++.
T Consensus        43 ~i~~Ge~~~llGpsGsGKSTLLr~iaG   69 (390)
T 3gd7_A           43 SISPGQRVGLLGRTGSGKSTLLSAFLR   69 (390)
T ss_dssp             EECTTCEEEEEESTTSSHHHHHHHHHT
T ss_pred             EEcCCCEEEEECCCCChHHHHHHHHhC
Confidence            588999999999999999999996653

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=98.26  E-value=9.9e-06  Score=72.52  Aligned_cols=27  Identities=30%  Similarity=0.348  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.||+|||||||+..++.
T Consensus        42 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G   68 (260)
T 2ghi_A           42 FIPSGTTCALVGHTGSGKSTIAKLLYR   68 (260)
T ss_dssp             EECTTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhc
Confidence            578999999999999999999996653

>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=98.25  E-value=2.7e-06  Score=75.11  Aligned_cols=26  Identities=31%  Similarity=0.520  Sum_probs=23.7

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la  147 (352)
                      -+++|+++.|.||+|||||||+..++
T Consensus        27 ~i~~Ge~~~i~G~nGsGKSTLl~~l~   52 (237)
T 2cbz_A           27 SIPEGALVAVVGQVGCGKSSLLSALL   52 (237)
T ss_dssp             EECTTCEEEEECSTTSSHHHHHHHHT
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHh
Confidence            58899999999999999999999654

>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=98.25  E-value=1.6e-06  Score=76.15  Aligned_cols=26  Identities=31%  Similarity=0.411  Sum_probs=23.5

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la  147 (352)
                      -+++|+++.|.||+|||||||+..++
T Consensus        30 ~i~~Ge~~~i~G~nGsGKSTLl~~l~   55 (229)
T 2pze_A           30 KIERGQLLAVAGSTGAGKTSLLMMIM   55 (229)
T ss_dssp             EEETTCEEEEECCTTSSHHHHHHHHT
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHh
Confidence            47899999999999999999999654

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.24  E-value=4.1e-06  Score=80.12  Aligned_cols=119  Identities=17%  Similarity=0.216  Sum_probs=73.6

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAY  201 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~  201 (352)
                      |+++-.=++++||||+|||.++..+|...         +...+.++...-++..                          
T Consensus       202 g~~~prGiLL~GPPGtGKT~lakAiA~~~---------~~~~~~v~~~~l~~~~--------------------------  246 (428)
T 4b4t_K          202 GIDPPRGVLLYGPPGTGKTMLVKAVANST---------KAAFIRVNGSEFVHKY--------------------------  246 (428)
T ss_dssp             CCCCCCEEEEESCTTTTHHHHHHHHHHHH---------TCEEEEEEGGGTCCSS--------------------------
T ss_pred             CCCCCceEEEECCCCCCHHHHHHHHHHHh---------CCCeEEEecchhhccc--------------------------
Confidence            77777789999999999999999888764         3356666543321110                          


Q ss_pred             CHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCC-cchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          202 TYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGR-GELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       202 ~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~-g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                       ..+....+..+........|.+++||.+.++......+. +.-...++.+..++..|..+....++.||.++.-.
T Consensus       247 -~Ge~e~~ir~lF~~A~~~aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~~~~~v~vI~aTN~~  321 (428)
T 4b4t_K          247 -LGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQSTNVKVIMATNRA  321 (428)
T ss_dssp             -CSHHHHHHHHHHHHHHHTCSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSCSSCSEEEEEEESCS
T ss_pred             -cchhHHHHHHHHHHHHHcCCCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCCCCCCEEEEEecCCh
Confidence             001112223333344456789999999999876432211 11123334567777778777666677777665433

>1u9l_A Transcription elongation protein NUSA; escherichia coli NUSA, phage lambda protein N, regulation of RNA binding, transcription antitermination, X-RAY crystallography; 1.90A {Escherichia coli} SCOP: a.60.4.2 PDB: 1wcl_A

Probab=98.23  E-value=2.1e-06  Score=60.33  Aligned_cols=55  Identities=27%  Similarity=0.291  Sum_probs=51.2

Q ss_pred             HhCCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHHHHhh
Q 047388           35 ISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVN   89 (352)
Q Consensus        35 ~~~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~   89 (352)
                      +..|+++.++++|.++||+|++++++.++++|..+.|+++..+.++...+++.+.
T Consensus        10 ~~lgI~e~~a~~L~~~Gf~tve~vA~~~~~eL~~I~G~dE~~a~~l~~~A~~~l~   64 (70)
T 1u9l_A           10 KYLDIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNALA   64 (70)
T ss_dssp             HHHTCCHHHHHHHHHTTCCCHHHHHHSCHHHHTTSTTCCHHHHHHHHHHHHHHHH
T ss_pred             HhCCCCHHHHHHHHHcCcCcHHHHHcCCHHHHhhccCCCHHHHHHHHHHHHHHHH
Confidence            4469999999999999999999999999999999999999999999999887753

>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=98.21  E-value=1.1e-06  Score=87.80  Aligned_cols=27  Identities=26%  Similarity=0.350  Sum_probs=24.0

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|+||+|||||||+..++.
T Consensus       365 ~i~~G~~~~ivG~sGsGKSTLl~~l~g  391 (582)
T 3b60_A          365 KIPAGKTVALVGRSGSGKSTIASLITR  391 (582)
T ss_dssp             EECTTCEEEEEECTTSSHHHHHHHHTT
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhh
Confidence            478999999999999999999996543

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=98.21  E-value=5e-06  Score=74.56  Aligned_cols=26  Identities=27%  Similarity=0.339  Sum_probs=23.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -++ |+++.|.||+|||||||+..++.
T Consensus        27 ~i~-Ge~~~i~G~NGsGKSTLlk~l~G   52 (263)
T 2pjz_A           27 EVN-GEKVIILGPNGSGKTTLLRAISG   52 (263)
T ss_dssp             EEC-SSEEEEECCTTSSHHHHHHHHTT
T ss_pred             EEC-CEEEEEECCCCCCHHHHHHHHhC
Confidence            478 99999999999999999996654

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=98.21  E-value=1.4e-06  Score=87.08  Aligned_cols=42  Identities=19%  Similarity=0.294  Sum_probs=30.7

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      -+++|+++.|+||+|||||||+..++.  ..+     ...+.++++..+
T Consensus       365 ~i~~Ge~~~ivG~sGsGKSTll~~l~g--~~~-----~~~G~i~i~g~~  406 (587)
T 3qf4_A          365 SVKPGSLVAVLGETGSGKSTLMNLIPR--LID-----PERGRVEVDELD  406 (587)
T ss_dssp             EECTTCEEEEECSSSSSHHHHHHTTTT--SSC-----CSEEEEEESSSB
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhC--Ccc-----CCCcEEEECCEE
Confidence            478999999999999999999985543  332     234556666553

>4a8j_A Elongator complex protein 4; transcription; 2.10A {Saccharomyces cerevisiae} PDB: 4ejs_A

Probab=98.20  E-value=6e-06  Score=76.40  Aligned_cols=103  Identities=6%  Similarity=0.139  Sum_probs=64.4

Q ss_pred             HHHHHHHHHHhhc--CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHh--CcEEEEEcccccCCCCC
Q 047388          207 YNLLLGLAAKMSE--EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEF--NVAVYMTNQVIADPGGG  282 (352)
Q Consensus       207 ~~~l~~l~~~l~~--~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~--~~~viv~~h~~~~~~~~  282 (352)
                      ..++.++.+.+..  .++-.|+|=|+.+..+....    . .....+..|+..|+.|.+.+  +++++++-...-     
T Consensus       201 ~~lL~~I~~~i~~~~~~ilRIvI~SLgSP~wy~~~----~-~~~~~ll~FL~~LRaLlR~~~~~~v~~iTlP~~l-----  270 (361)
T 4a8j_A          201 STILSQIEQTIKRNDKKLIRIVIPSLLHPAMYPPK----M-FESSEIIGLMHGVRSLVKKYYERVVLFASISIDI-----  270 (361)
T ss_dssp             HHHHHHHHHHHHHTTTSEEEEEETTTTCTTTSCGG----G-GBHHHHHHHHHHHHHHHHHTTTTEEEEEEEECTT-----
T ss_pred             HHHHHHHHHHHhcCCCceEEEEecCCCCcccCCCc----c-cCHHHHHHHHHHHHHHHhhcCCceEEEEEEChHH-----
Confidence            3455555555533  36778889888776542111    0 11245679999999999987  446666533221     


Q ss_pred             cccCCCCCCCcchhhhhccceEEEEEeecC-----------------CeEEEEEEeCCCC
Q 047388          283 VFISDPKKPAGGHVLAHAVTIRLMFRKGKG-----------------EQRVCKVFDAPNL  325 (352)
Q Consensus       283 ~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~-----------------~~R~~~i~Ks~~~  325 (352)
                       |     .+..-..|++.+|.+|.|.-..+                 ..=.++|.|-|.+
T Consensus       271 -~-----~~~l~~rle~l~D~vi~L~pF~~~~~~~~~~~yk~~p~~~~~GLl~V~KLP~l  324 (361)
T 4a8j_A          271 -I-----TPPLLVLLRNMFDSVINLEPFNQEMTEFLERVYKSQPGKIQHGLVHILKLPVF  324 (361)
T ss_dssp             -S-----CHHHHHHHHHHCSEEEEEEECCHHHHHHHHHHTTTCGGGCCCEEEEEEECTTH
T ss_pred             -c-----ChHHHHHHHHhCcEEEEeeecCCchhhhcccccccCcccccceEEEEEecccc
Confidence             1     02345789999999999986311                 2457888886654

>1wcn_A Transcription elongation protein NUSA; RNA-binding protein, escherichia coli NUSA, transcription regulation, regulation of RNA binding; NMR {Escherichia coli} PDB: 2jzb_B

Probab=98.19  E-value=3e-06  Score=59.65  Aligned_cols=55  Identities=25%  Similarity=0.360  Sum_probs=50.8

Q ss_pred             cHHHHHhCCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHHH
Q 047388           30 AIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEK   86 (352)
Q Consensus        30 ~~~~l~~~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~   86 (352)
                      .+..|  +|+++.++.+|.++||+|+++++..+..+|..++|+++.++.+++..+++
T Consensus         8 ~l~~L--~Gi~~~~~~kL~e~Gi~TvedlA~~~~~eL~~i~gise~kA~~ii~aAr~   62 (70)
T 1wcn_A            8 DLLNL--EGVDRDLAFKLAARGVCTLEDLAEQGIDDLADIEGLTDEKAGALIMAARN   62 (70)
T ss_dssp             HHHSS--TTCCHHHHHHHHTTTCCSHHHHHTSCHHHHHTSSSCCHHHHHHHHHHHHH
T ss_pred             HHHHc--CCCCHHHHHHHHHcCCCcHHHHHcCCHHHHHHccCCCHHHHHHHHHHHHH
Confidence            34444  59999999999999999999999999999999999999999999999987

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.19  E-value=9.1e-06  Score=73.30  Aligned_cols=119  Identities=18%  Similarity=0.155  Sum_probs=65.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAY  201 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~  201 (352)
                      |+.++.-+.|+||||+|||+++..++...         +..+++++...-+...                          
T Consensus        47 ~~~~~~~~ll~G~~GtGKT~la~~la~~~---------~~~~~~v~~~~~~~~~--------------------------   91 (285)
T 3h4m_A           47 GIEPPKGILLYGPPGTGKTLLAKAVATET---------NATFIRVVGSELVKKF--------------------------   91 (285)
T ss_dssp             CCCCCSEEEEESSSSSSHHHHHHHHHHHT---------TCEEEEEEGGGGCCCS--------------------------
T ss_pred             CCCCCCeEEEECCCCCcHHHHHHHHHHHh---------CCCEEEEehHHHHHhc--------------------------
Confidence            56777789999999999999999887652         4466776543211100                          


Q ss_pred             CHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCC-cchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          202 TYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGR-GELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       202 ~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~-g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                       .......+..+........+.+|+||++..+........ +...+.+..+..++..+..+....++.||.+++..
T Consensus        92 -~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vI~ttn~~  166 (285)
T 3h4m_A           92 -IGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDARGDVKIIGATNRP  166 (285)
T ss_dssp             -TTHHHHHHHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCSSSSEEEEEECSCG
T ss_pred             -cchHHHHHHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCc
Confidence             001112222233333445788999999998865322111 11122233333443333322233466677766543

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=98.19  E-value=2.2e-05  Score=71.76  Aligned_cols=44  Identities=25%  Similarity=0.185  Sum_probs=33.7

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCC
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFR  173 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~  173 (352)
                      +++|+++.|+|++|+||||++..++.....      .+++|.+.+. +.+.
T Consensus        97 ~~~g~vi~lvG~nGsGKTTll~~Lag~l~~------~~g~V~l~g~-d~~r  140 (302)
T 3b9q_A           97 FRKPAVIMIVGVNGGGKTTSLGKLAHRLKN------EGTKVLMAAG-DTFR  140 (302)
T ss_dssp             SSSCEEEEEECCTTSCHHHHHHHHHHHHHH------TTCCEEEECC-CCSC
T ss_pred             cCCCcEEEEEcCCCCCHHHHHHHHHHHHHH------cCCeEEEEee-cccc
Confidence            678999999999999999999988876543      4566666554 3444

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.19  E-value=7.4e-06  Score=78.51  Aligned_cols=118  Identities=16%  Similarity=0.177  Sum_probs=71.1

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEec
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARA  200 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~  200 (352)
                      .|+++-.=++++||||||||.|+..+|...-         ...++++...-++..                         
T Consensus       210 ~g~~~prGvLL~GPPGtGKTllAkAiA~e~~---------~~~~~v~~s~l~sk~-------------------------  255 (437)
T 4b4t_L          210 VGIKPPKGVLLYGPPGTGKTLLAKAVAATIG---------ANFIFSPASGIVDKY-------------------------  255 (437)
T ss_dssp             HCCCCCCEEEEESCTTSSHHHHHHHHHHHHT---------CEEEEEEGGGTCCSS-------------------------
T ss_pred             CCCCCCCeEEEECCCCCcHHHHHHHHHHHhC---------CCEEEEehhhhcccc-------------------------
Confidence            4788888899999999999999998887643         356666543321110                         


Q ss_pred             CCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCC-cchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcc
Q 047388          201 YTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGR-GELADRQQKLGQMLSRLTKISEEFNVAVYMTNQ  274 (352)
Q Consensus       201 ~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~-g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h  274 (352)
                        ..+....+..+........|.+|+||.+-++......+. ..-...+..+..++..|..+....++.||.++.
T Consensus       256 --~Gese~~ir~~F~~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~vivI~ATN  328 (437)
T 4b4t_L          256 --IGESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNLGQTKIIMATN  328 (437)
T ss_dssp             --SSHHHHHHHHHHHHHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSCTTSSEEEEEES
T ss_pred             --chHHHHHHHHHHHHHHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcccCCCCeEEEEecC
Confidence              001112233333444556899999999999876432221 111233344556666665555455667776544

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=98.19  E-value=1.9e-06  Score=86.40  Aligned_cols=26  Identities=31%  Similarity=0.391  Sum_probs=23.4

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la  147 (352)
                      -+++|+++.|+||+|||||||+..++
T Consensus       377 ~i~~G~~~~ivG~sGsGKSTll~~l~  402 (598)
T 3qf4_B          377 HIKPGQKVALVGPTGSGKTTIVNLLM  402 (598)
T ss_dssp             ECCTTCEEEEECCTTSSTTHHHHHHT
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHh
Confidence            47899999999999999999998554

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=98.19  E-value=1e-05  Score=80.94  Aligned_cols=27  Identities=19%  Similarity=0.172  Sum_probs=23.5

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+++.|.||+|+|||||+..++.
T Consensus        99 ~~~~Gei~~LvGpNGaGKSTLLkiL~G  125 (608)
T 3j16_B           99 TPRPGQVLGLVGTNGIGKSTALKILAG  125 (608)
T ss_dssp             CCCTTSEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCCCCCEEEEECCCCChHHHHHHHHhc
Confidence            367999999999999999999995543

>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=98.17  E-value=1.2e-05  Score=74.30  Aligned_cols=56  Identities=23%  Similarity=0.208  Sum_probs=40.5

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCC---hhhHHHHHHHcCC
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFR---PDRIVPIAERFGM  186 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~---~~rl~~~~~~~~~  186 (352)
                      ++|+++.|+|++|+||||++..++.....      .+++|.+.+.+- +.   .+.+..+.++.++
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l~~------~~g~V~l~g~D~-~r~~a~eql~~~~~~~gv  185 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWLKN------HGFSVVIAASDT-FRAGAIEQLEEHAKRIGV  185 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHHHH------TTCCEEEEEECC-SSTTHHHHHHHHHHHTTC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHh------cCCEEEEEeecc-cccchHHHHHHHHHHcCc
Confidence            67999999999999999999988876544      567787776543 22   2334555666653

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.16  E-value=4.7e-06  Score=79.84  Aligned_cols=121  Identities=18%  Similarity=0.184  Sum_probs=71.1

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEec
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARA  200 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~  200 (352)
                      .|+++-.=++++||||||||.|+..+|...-         ...+.++...-.+.                          
T Consensus       210 ~g~~~prGvLLyGPPGTGKTllAkAiA~e~~---------~~f~~v~~s~l~~~--------------------------  254 (434)
T 4b4t_M          210 MGIRAPKGALMYGPPGTGKTLLARACAAQTN---------ATFLKLAAPQLVQM--------------------------  254 (434)
T ss_dssp             HCCCCCCEEEEESCTTSSHHHHHHHHHHHHT---------CEEEEEEGGGGCSS--------------------------
T ss_pred             CCCCCCCeeEEECcCCCCHHHHHHHHHHHhC---------CCEEEEehhhhhhc--------------------------
Confidence            4788778899999999999999998887643         34555554321110                          


Q ss_pred             CCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCc-chHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          201 YTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRG-ELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       201 ~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g-~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      + ..+....+..+........|.+|+||.+-++......+.+ .....++.+..++..|..+....++.||.++.-..
T Consensus       255 ~-vGese~~ir~lF~~A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~~~~~ViVIaaTNrp~  331 (434)
T 4b4t_M          255 Y-IGEGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSSDDRVKVLAATNRVD  331 (434)
T ss_dssp             C-SSHHHHHHHHHHHHHHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSCSSCSSEEEEECSSCC
T ss_pred             c-cchHHHHHHHHHHHHHhcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccCCCCCEEEEEeCCCch
Confidence            0 0011122333333344457899999999998765332211 11233344556666665555555677776554333

>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=98.15  E-value=7e-05  Score=71.70  Aligned_cols=93  Identities=17%  Similarity=0.203  Sum_probs=56.5

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChh---hHHHHHHHcCCCcccccccEEEEecC
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPD---RIVPIAERFGMDPGAVLDNIIYARAY  201 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~---rl~~~~~~~~~~~~~~~~~i~~~~~~  201 (352)
                      ++.++.++|++|+||||++..++.....      .+.+|++++... +.+.   .+..+.+..++..         +...
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l~~------~G~kVllv~~D~-~r~~a~eqL~~~~~~~gv~~---------~~~~  159 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFYKK------RGYKVGLVAADV-YRPAAYDQLLQLGNQIGVQV---------YGEP  159 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHHHH------TTCCEEEEEECC-SCHHHHHHHHHHHHTTTCCE---------ECCT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH------cCCeEEEEecCc-cchhHHHHHHHHHHhcCCce---------eecc
Confidence            4789999999999999999999887765      678999998763 3433   2333444444432         1111


Q ss_pred             CHHHHHHHHHHHHHHhhcCCceEEEEcccccc
Q 047388          202 TYEHQYNLLLGLAAKMSEEPFRLLIVDSVIAL  233 (352)
Q Consensus       202 ~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l  233 (352)
                      .......+.......+...++++||||....+
T Consensus       160 ~~~dp~~i~~~al~~a~~~~~DvvIIDTaGr~  191 (433)
T 3kl4_A          160 NNQNPIEIAKKGVDIFVKNKMDIIIVDTAGRH  191 (433)
T ss_dssp             TCSCHHHHHHHHHHHTTTTTCSEEEEEECCCS
T ss_pred             ccCCHHHHHHHHHHHHHhcCCCEEEEECCCCc
Confidence            11111222222223333457888899976543

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=98.14  E-value=1.2e-05  Score=79.39  Aligned_cols=25  Identities=24%  Similarity=0.324  Sum_probs=22.3

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHH
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la  147 (352)
                      .++|+++.|.||+|||||||+..++
T Consensus        22 ~~~Gei~gLiGpNGaGKSTLlkiL~   46 (538)
T 3ozx_A           22 PKNNTILGVLGKNGVGKTTVLKILA   46 (538)
T ss_dssp             CCTTEEEEEECCTTSSHHHHHHHHT
T ss_pred             CCCCCEEEEECCCCCcHHHHHHHHh
Confidence            4589999999999999999999554

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.14  E-value=9.6e-06  Score=77.10  Aligned_cols=123  Identities=19%  Similarity=0.202  Sum_probs=72.5

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEec
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARA  200 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~  200 (352)
                      .|+++-.=++++||||+|||.|+..+|...-         ...+.++...-++.                          
T Consensus       211 ~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~---------~~fi~v~~s~l~sk--------------------------  255 (437)
T 4b4t_I          211 MGIKPPKGVILYGAPGTGKTLLAKAVANQTS---------ATFLRIVGSELIQK--------------------------  255 (437)
T ss_dssp             HTCCCCSEEEEESSTTTTHHHHHHHHHHHHT---------CEEEEEESGGGCCS--------------------------
T ss_pred             CCCCCCCCCceECCCCchHHHHHHHHHHHhC---------CCEEEEEHHHhhhc--------------------------
Confidence            4788778899999999999999998887643         34555554321110                          


Q ss_pred             CCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCC-cchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCC
Q 047388          201 YTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGR-GELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADP  279 (352)
Q Consensus       201 ~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~-g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~  279 (352)
                      + ..+....+..+........|.+|+||++.++......+. +...+.++.+..++..+..+....++.||.++.-....
T Consensus       256 ~-vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~~~~ViVIaATNrpd~L  334 (437)
T 4b4t_I          256 Y-LGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDDRGDVKVIMATNKIETL  334 (437)
T ss_dssp             S-SSHHHHHHHHHHHHHHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCCSSSEEEEEEESCSTTC
T ss_pred             c-CchHHHHHHHHHHHHHhcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCChhhc
Confidence            0 001122233333344556789999999999876533221 11123334455666666655555566677655433333

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=98.13  E-value=9.3e-07  Score=75.03  Aligned_cols=113  Identities=19%  Similarity=0.211  Sum_probs=63.2

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCCHH
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYE  204 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~  204 (352)
                      +|.++.++|++|+||||++++++.+...      .+.+++++....+-... ...+..+.+...    ..+.   ..+..
T Consensus         2 ~g~i~vi~G~~gsGKTT~ll~~~~~~~~------~g~~v~~~~~~~d~r~~-~~~i~s~~g~~~----~~~~---~~~~~   67 (184)
T 2orw_A            2 SGKLTVITGPMYSGKTTELLSFVEIYKL------GKKKVAVFKPKIDSRYH-STMIVSHSGNGV----EAHV---IERPE   67 (184)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHHHH------TTCEEEEEEEC-----C-CCEECC----CE----ECEE---ESSGG
T ss_pred             ccEEEEEECCCCCCHHHHHHHHHHHHHH------CCCeEEEEeeccccccC-cccEEecCCCce----eeEE---ECCHH
Confidence            4789999999999999999999887765      56788887654220000 000001111111    1111   11111


Q ss_pred             HHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          205 HQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       205 ~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +       +...+. .+.++|+||+++.+..                 .++..|+.++.+ ++.|+++.+...
T Consensus        68 ~-------~~~~~~-~~~dvviIDE~Q~~~~-----------------~~~~~l~~l~~~-~~~Vi~~Gl~~~  114 (184)
T 2orw_A           68 E-------MRKYIE-EDTRGVFIDEVQFFNP-----------------SLFEVVKDLLDR-GIDVFCAGLDLT  114 (184)
T ss_dssp             G-------GGGGCC-TTEEEEEECCGGGSCT-----------------THHHHHHHHHHT-TCEEEEEEESBC
T ss_pred             H-------HHHHhc-CCCCEEEEECcccCCH-----------------HHHHHHHHHHHC-CCCEEEEeeccc
Confidence            1       111111 2578999999987521                 233445666665 899998877543

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=98.13  E-value=2.9e-05  Score=72.66  Aligned_cols=41  Identities=20%  Similarity=0.104  Sum_probs=32.4

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      +++|+++.|+|++||||||++..++.....      .+++|.+.+.+
T Consensus       154 ~~~g~vi~lvG~nGsGKTTll~~Lag~l~~------~~G~V~l~g~D  194 (359)
T 2og2_A          154 FRKPAVIMIVGVNGGGKTTSLGKLAHRLKN------EGTKVLMAAGD  194 (359)
T ss_dssp             SSSSEEEEEECCTTSCHHHHHHHHHHHHHH------TTCCEEEECCC
T ss_pred             cCCCeEEEEEcCCCChHHHHHHHHHhhccc------cCCEEEEeccc
Confidence            568999999999999999999988876543      45666665543

>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=98.12  E-value=1.5e-05  Score=72.43  Aligned_cols=46  Identities=22%  Similarity=0.374  Sum_probs=31.7

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCC--CCCeEEEEeCC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRG--GNGKVAYIDTE  169 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg--~~~~vl~i~~e  169 (352)
                      -+++|+++.|.||+|||||||+..++  ...++..|.  .++.+.|+..+
T Consensus        60 ~i~~Ge~~~i~G~NGsGKSTLlk~l~--Gl~~p~~G~I~~~g~i~~v~Q~  107 (290)
T 2bbs_A           60 KIERGQLLAVAGSTGAGKTSLLMMIM--GELEPSEGKIKHSGRISFCSQN  107 (290)
T ss_dssp             EECTTCEEEEEESTTSSHHHHHHHHT--TSSCEEEEEEECCSCEEEECSS
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHh--cCCCCCCcEEEECCEEEEEeCC
Confidence            47899999999999999999999654  334333221  13345666544

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=98.09  E-value=2.4e-06  Score=85.28  Aligned_cols=26  Identities=27%  Similarity=0.350  Sum_probs=23.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la  147 (352)
                      -+++|+++.|+||+|||||||+..++
T Consensus       363 ~i~~G~~~~ivG~sGsGKSTll~~l~  388 (578)
T 4a82_A          363 SIEKGETVAFVGMSGGGKSTLINLIP  388 (578)
T ss_dssp             EECTTCEEEEECSTTSSHHHHHTTTT
T ss_pred             EECCCCEEEEECCCCChHHHHHHHHh
Confidence            47899999999999999999998554

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.07  E-value=1.4e-05  Score=76.73  Aligned_cols=118  Identities=15%  Similarity=0.166  Sum_probs=69.5

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEec
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARA  200 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~  200 (352)
                      -|+++-.=++|+||||+|||.|+..+|..+-         ...+.++...-++.                          
T Consensus       238 ~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~---------~~fi~vs~s~L~sk--------------------------  282 (467)
T 4b4t_H          238 LGIDPPKGILLYGPPGTGKTLCARAVANRTD---------ATFIRVIGSELVQK--------------------------  282 (467)
T ss_dssp             HTCCCCSEEEECSCTTSSHHHHHHHHHHHHT---------CEEEEEEGGGGCCC--------------------------
T ss_pred             CCCCCCCceEeeCCCCCcHHHHHHHHHhccC---------CCeEEEEhHHhhcc--------------------------
Confidence            3788888899999999999999998887643         34555554321110                          


Q ss_pred             CCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCC-cchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcc
Q 047388          201 YTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGR-GELADRQQKLGQMLSRLTKISEEFNVAVYMTNQ  274 (352)
Q Consensus       201 ~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~-g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h  274 (352)
                      + ..+....+..+........+.+|+||.+.++......+. +.....++.+..++..|..+....++.||.++.
T Consensus       283 ~-vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~ViVIaATN  356 (467)
T 4b4t_H          283 Y-VGEGARMVRELFEMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPRGNIKVMFATN  356 (467)
T ss_dssp             S-SSHHHHHHHHHHHHHHHTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCCTTTEEEEEECS
T ss_pred             c-CCHHHHHHHHHHHHHHhcCCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccCCCCcEEEEeCCC
Confidence            0 001112233333344556789999999999876433221 222333334455555555544455666666544

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=97.98  E-value=9.6e-06  Score=75.92  Aligned_cols=29  Identities=14%  Similarity=0.035  Sum_probs=24.3

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHhc
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCTQ  151 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~~  151 (352)
                      ..+|+++.|+||+|||||||+..++....
T Consensus       120 ~~~~g~i~I~GptGSGKTTlL~~l~g~~~  148 (356)
T 3jvv_A          120 DVPRGLVLVTGPTGSGKSTTLAAMLDYLN  148 (356)
T ss_dssp             HCSSEEEEEECSTTSCHHHHHHHHHHHHH
T ss_pred             hCCCCEEEEECCCCCCHHHHHHHHHhccc
Confidence            36778999999999999999997765543

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=97.98  E-value=3.4e-05  Score=69.07  Aligned_cols=35  Identities=17%  Similarity=0.095  Sum_probs=29.4

Q ss_pred             hhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          113 QALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       113 ~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      +.|+.+.   +++|+++.|+||+|||||||+..++...
T Consensus        15 ~vl~~i~---i~~g~~v~i~Gp~GsGKSTll~~l~g~~   49 (261)
T 2eyu_A           15 DKVLELC---HRKMGLILVTGPTGSGKSTTIASMIDYI   49 (261)
T ss_dssp             THHHHGG---GCSSEEEEEECSTTCSHHHHHHHHHHHH
T ss_pred             HHHHHHh---hCCCCEEEEECCCCccHHHHHHHHHHhC
Confidence            3566654   8999999999999999999999877654

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=97.97  E-value=3.8e-05  Score=70.86  Aligned_cols=117  Identities=17%  Similarity=0.161  Sum_probs=64.2

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEec
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARA  200 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~  200 (352)
                      |+..+..-+.|+||||+|||+|+..++...        .+...++++...-+...        .|               
T Consensus        40 ~~~~~~~~iLL~GppGtGKT~la~ala~~~--------~~~~~~~i~~~~l~~~~--------~g---------------   88 (322)
T 1xwi_A           40 GKRTPWRGILLFGPPGTGKSYLAKAVATEA--------NNSTFFSISSSDLVSKW--------LG---------------   88 (322)
T ss_dssp             TTCCCCSEEEEESSSSSCHHHHHHHHHHHT--------TSCEEEEEECCSSCCSS--------CC---------------
T ss_pred             CCCCCCceEEEECCCCccHHHHHHHHHHHc--------CCCcEEEEEhHHHHhhh--------hh---------------
Confidence            556667789999999999999999888653        13456777765321110        00               


Q ss_pred             CCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHH-HhCcEEEEEcc
Q 047388          201 YTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISE-EFNVAVYMTNQ  274 (352)
Q Consensus       201 ~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~-~~~~~viv~~h  274 (352)
                       ....   .+..+........+.+|+||++..+......+..+...  +.+.+++..+..+.. ..++.||.++.
T Consensus        89 -~~~~---~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~--~~~~~ll~~ld~~~~~~~~v~vI~atn  157 (322)
T 1xwi_A           89 -ESEK---LVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAAR--RIKTEFLVQMQGVGVDNDGILVLGATN  157 (322)
T ss_dssp             -SCHH---HHHHHHHHHHHTSSEEEEEETTTGGGCCSSSCCTTHHH--HHHHHHHHHHHCSSSCCTTEEEEEEES
T ss_pred             -HHHH---HHHHHHHHHHhcCCcEEEeecHHHhccccccccchHHH--HHHHHHHHHHhcccccCCCEEEEEecC
Confidence             0111   12222223334578999999999886543222112222  223344444443321 23455555443

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=97.97  E-value=4.6e-05  Score=79.65  Aligned_cols=133  Identities=12%  Similarity=0.120  Sum_probs=69.4

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC--CCC---------------hhhHHHHHHHc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG--TFR---------------PDRIVPIAERF  184 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~--~~~---------------~~rl~~~~~~~  184 (352)
                      -+++|+++.|.|++|||||||+..++.......... ...++.|+..+.  .+.               ..++...++.+
T Consensus       457 ~I~~Ge~v~LiGpNGsGKSTLLk~LagG~i~g~~~~-~~~~~~~v~q~~~~~~~~ltv~e~l~~~~~~~~~~v~~~L~~l  535 (986)
T 2iw3_A          457 RLKRARRYGICGPNGCGKSTLMRAIANGQVDGFPTQ-EECRTVYVEHDIDGTHSDTSVLDFVFESGVGTKEAIKDKLIEF  535 (986)
T ss_dssp             EEETTCEEEEECSTTSSHHHHHHHHHHTCSTTCCCT-TTSCEEETTCCCCCCCTTSBHHHHHHTTCSSCHHHHHHHHHHT
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCcCCCccc-cceeEEEEcccccccccCCcHHHHHHHhhcCHHHHHHHHHHHc
Confidence            478999999999999999999998874211100000 112345554221  111               12333444455


Q ss_pred             CCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHH
Q 047388          185 GMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEE  264 (352)
Q Consensus       185 ~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~  264 (352)
                      |+... ..++  .....+..+.. .+. +.+.+. .+++++++|+.++.+..        ..+    ..+.+.|+.    
T Consensus       536 gL~~~-~~~~--~~~~LSGGqkQ-Rva-LArAL~-~~P~lLLLDEPTs~LD~--------~~~----~~l~~~L~~----  593 (986)
T 2iw3_A          536 GFTDE-MIAM--PISALSGGWKM-KLA-LARAVL-RNADILLLDEPTNHLDT--------VNV----AWLVNYLNT----  593 (986)
T ss_dssp             TCCHH-HHHS--BGGGCCHHHHH-HHH-HHHHHH-TTCSEEEEESTTTTCCH--------HHH----HHHHHHHHH----
T ss_pred             CCChh-hhcC--CcccCCHHHHH-HHH-HHHHHh-cCCCEEEEECCccCCCH--------HHH----HHHHHHHHh----
Confidence            54310 0000  00112222221 111 112222 47999999999887532        222    245555554    


Q ss_pred             hCcEEEEEccccc
Q 047388          265 FNVAVYMTNQVIA  277 (352)
Q Consensus       265 ~~~~viv~~h~~~  277 (352)
                      .|.+||+++|-..
T Consensus       594 ~g~tvIivSHdl~  606 (986)
T 2iw3_A          594 CGITSITISHDSV  606 (986)
T ss_dssp             SCSEEEEECSCHH
T ss_pred             CCCEEEEEECCHH
Confidence            5899999999543

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=97.97  E-value=1.9e-05  Score=80.28  Aligned_cols=44  Identities=18%  Similarity=0.310  Sum_probs=31.7

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +|+++++|+.++-+.+        ..    ...+.+.|++++++ |.|||+++|-..
T Consensus       564 ~p~llllDEPt~~LD~--------~~----~~~i~~~l~~l~~~-g~tvi~vtHd~~  607 (670)
T 3ux8_A          564 GRTLYILDEPTTGLHV--------DD----IARLLDVLHRLVDN-GDTVLVIEHNLD  607 (670)
T ss_dssp             SCEEEEEESTTTTCCH--------HH----HHHHHHHHHHHHHT-TCEEEEECCCHH
T ss_pred             CCcEEEEeCCCCCCCH--------HH----HHHHHHHHHHHHHC-CCEEEEEeCCHH
Confidence            4689999999877532        22    23677778888654 999999999653

>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=97.94  E-value=0.00013  Score=68.44  Aligned_cols=119  Identities=16%  Similarity=0.153  Sum_probs=68.8

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCC-CCeEEEEeCCCCCCh-hhHHHHHHHcCCCcccccccEEEEecCCHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGG-NGKVAYIDTEGTFRP-DRIVPIAERFGMDPGAVLDNIIYARAYTYEH  205 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~-~~~vl~i~~e~~~~~-~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~~  205 (352)
                      .+.|+||||+|||+++..++.....      . +..++|++....... ..+..++..++.....        .......
T Consensus        46 ~~li~G~~G~GKTtl~~~l~~~~~~------~~~~~~~~i~~~~~~~~~~~~~~l~~~l~~~~~~--------~~~~~~~  111 (389)
T 1fnn_A           46 RATLLGRPGTGKTVTLRKLWELYKD------KTTARFVYINGFIYRNFTAIIGEIARSLNIPFPR--------RGLSRDE  111 (389)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTT------SCCCEEEEEETTTCCSHHHHHHHHHHHTTCCCCS--------SCCCHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHhh------hcCeeEEEEeCccCCCHHHHHHHHHHHhCccCCC--------CCCCHHH
Confidence            8999999999999999988766543      2 467899986554433 3344555666543210        0112233


Q ss_pred             HHHHHHHHHHHhhc-CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHH--hCcEEEEEcccc
Q 047388          206 QYNLLLGLAAKMSE-EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEE--FNVAVYMTNQVI  276 (352)
Q Consensus       206 ~~~~l~~l~~~l~~-~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~--~~~~viv~~h~~  276 (352)
                      ..+   .+...+.. .++.+|+||++..+-          .   ..+..+.+.+..+...  .++++|++++..
T Consensus       112 ~~~---~l~~~l~~~~~~~vlilDE~~~l~----------~---~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~  169 (389)
T 1fnn_A          112 FLA---LLVEHLRERDLYMFLVLDDAFNLA----------P---DILSTFIRLGQEADKLGAFRIALVIVGHND  169 (389)
T ss_dssp             HHH---HHHHHHHHTTCCEEEEEETGGGSC----------H---HHHHHHHHHTTCHHHHSSCCEEEEEEESST
T ss_pred             HHH---HHHHHHhhcCCeEEEEEECccccc----------h---HHHHHHHHHHHhCCCCCcCCEEEEEEECCc
Confidence            222   22233332 357899999988771          0   1122343444333321  478888876643

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=97.94  E-value=7.6e-06  Score=89.11  Aligned_cols=27  Identities=19%  Similarity=0.294  Sum_probs=23.9

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|+.+.|+|++|||||||+.-+..
T Consensus       440 ~i~~G~~vaivG~sGsGKSTll~ll~~  466 (1321)
T 4f4c_A          440 RVNAGQTVALVGSSGCGKSTIISLLLR  466 (1321)
T ss_dssp             EECTTCEEEEEECSSSCHHHHHHHHTT
T ss_pred             eecCCcEEEEEecCCCcHHHHHHHhcc
Confidence            589999999999999999999985543

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=97.93  E-value=3.7e-06  Score=91.53  Aligned_cols=26  Identities=23%  Similarity=0.323  Sum_probs=23.4

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la  147 (352)
                      -+++|+.+.|+|++|||||||+.-+.
T Consensus      1101 ~I~~Ge~vaIVG~SGsGKSTL~~lL~ 1126 (1321)
T 4f4c_A         1101 SVEPGQTLALVGPSGCGKSTVVALLE 1126 (1321)
T ss_dssp             EECTTCEEEEECSTTSSTTSHHHHHT
T ss_pred             EECCCCEEEEECCCCChHHHHHHHHh
Confidence            47899999999999999999998554

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=97.90  E-value=7.6e-05  Score=69.57  Aligned_cols=43  Identities=26%  Similarity=0.340  Sum_probs=37.4

Q ss_pred             cccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          106 IKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       106 ~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ..+.||+..||.++  -+.+|+++.|+|++|+|||||+..++...
T Consensus        53 ~~~~tg~~ald~ll--~i~~Gq~~gIiG~nGaGKTTLl~~I~g~~   95 (347)
T 2obl_A           53 QPFILGVRAIDGLL--TCGIGQRIGIFAGSGVGKSTLLGMICNGA   95 (347)
T ss_dssp             SEECCSCHHHHHHS--CEETTCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             eecCCCCEEEEeee--eecCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            35678999999986  68999999999999999999998777654

>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=97.90  E-value=3e-05  Score=67.55  Aligned_cols=48  Identities=23%  Similarity=0.301  Sum_probs=35.8

Q ss_pred             hHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          115 LDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       115 LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      |..+..++  .+..+.|+||||+|||+++..++.....      .+..++|++...
T Consensus        43 l~~~~~~~--~~~~~ll~G~~G~GKT~la~~l~~~~~~------~~~~~~~~~~~~   90 (242)
T 3bos_A           43 LKSAASGD--GVQAIYLWGPVKSGRTHLIHAACARANE------LERRSFYIPLGI   90 (242)
T ss_dssp             HHHHHHTC--SCSEEEEECSTTSSHHHHHHHHHHHHHH------TTCCEEEEEGGG
T ss_pred             HHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHHHHH------cCCeEEEEEHHH
Confidence            44444333  5788999999999999999998876654      356788887653

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=97.89  E-value=4.1e-05  Score=77.78  Aligned_cols=42  Identities=10%  Similarity=0.168  Sum_probs=30.1

Q ss_pred             ceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          222 FRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       222 ~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                      ++++++|+.++.+.+.        .+    ..+.+.|+++.+ .|.|||+++|-.
T Consensus       223 ~~lLlLDEPtsgLD~~--------~~----~~l~~~l~~l~~-~g~tvi~vtHd~  264 (670)
T 3ux8_A          223 GVLYVLDEPSIGLHQR--------DN----DRLIATLKSMRD-LGNTLIVVEHDE  264 (670)
T ss_dssp             SCEEEEECTTTTCCGG--------GH----HHHHHHHHHHHH-TTCEEEEECCCH
T ss_pred             CCEEEEECCccCCCHH--------HH----HHHHHHHHHHHH-cCCEEEEEeCCH
Confidence            3499999998876431        11    266777777754 599999999953

>3thx_B DNA mismatch repair protein MSH3; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 3thw_B* 3thy_B* 3thz_B*

Probab=97.88  E-value=1.9e-05  Score=82.28  Aligned_cols=28  Identities=14%  Similarity=0.185  Sum_probs=24.8

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      +++|+++.|+||+|+|||||+.+++...
T Consensus       670 ~~~g~i~~ItGPNGaGKSTlLr~i~~i~  697 (918)
T 3thx_B          670 EDSERVMIITGPNMGGKSSYIKQVALIT  697 (918)
T ss_dssp             TTSCCEEEEESCCCHHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCchHHHHHHHHHHH
Confidence            6789999999999999999999887543

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=97.86  E-value=3.6e-05  Score=79.06  Aligned_cols=117  Identities=15%  Similarity=0.154  Sum_probs=72.6

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEec
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARA  200 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~  200 (352)
                      -|+.+-.=++|+||||+|||+|+..+|..         .+...++++...         +...+                
T Consensus       233 ~g~~~p~GILL~GPPGTGKT~LAraiA~e---------lg~~~~~v~~~~---------l~sk~----------------  278 (806)
T 3cf2_A          233 IGVKPPRGILLYGPPGTGKTLIARAVANE---------TGAFFFLINGPE---------IMSKL----------------  278 (806)
T ss_dssp             CCCCCCCEEEEECCTTSCHHHHHHHHHTT---------TTCEEEEEEHHH---------HHSSC----------------
T ss_pred             cCCCCCCeEEEECCCCCCHHHHHHHHHHH---------hCCeEEEEEhHH---------hhccc----------------
Confidence            46766677999999999999999988753         244556555421         11000                


Q ss_pred             CCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccc
Q 047388          201 YTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQV  275 (352)
Q Consensus       201 ~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~  275 (352)
                        ..+....+..+........+.+|+||++-++.+..-.+.++...  +.+.+++..|..+....++.||.++.-
T Consensus       279 --~gese~~lr~lF~~A~~~~PsIIfIDEiDal~~~r~~~~~~~~~--riv~~LL~~mdg~~~~~~V~VIaaTN~  349 (806)
T 3cf2_A          279 --AGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVER--RIVSQLLTLMDGLKQRAHVIVMAATNR  349 (806)
T ss_dssp             --TTHHHHHHHHHHHHHTTSCSEEEEEESGGGTCCTTTTCCCTTHH--HHHHHHHTHHHHCCGGGCEEEEEECSS
T ss_pred             --chHHHHHHHHHHHHHHHcCCeEEEEehhcccccccCCCCChHHH--HHHHHHHHHHhcccccCCEEEEEecCC
Confidence              01112223333344455689999999999997654333333333  345677777777767777777766543

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=97.86  E-value=0.00016  Score=69.37  Aligned_cols=93  Identities=18%  Similarity=0.162  Sum_probs=57.0

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChh---hHHHHHHHcCCCcccccccEEEEecC
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPD---RIVPIAERFGMDPGAVLDNIIYARAY  201 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~---rl~~~~~~~~~~~~~~~~~i~~~~~~  201 (352)
                      ++.++.++|++|+||||++..+|.....      .+.+|++++++. +.+.   .+..+++..++         .++...
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~~------~G~kVllv~~D~-~R~aa~eqL~~~~~~~gv---------pv~~~~  162 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQK------RGYKVGVVCSDT-WRPGAYHQLRQLLDRYHI---------EVFGNP  162 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHT------TTCCEEEEECCC-SSTHHHHHHHHHHGGGTC---------EEECCT
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHHH------CCCeEEEEeCCC-cchhHHHHHHHHHHhcCC---------cEEecC
Confidence            4679999999999999999999987765      678999999864 3332   23333333333         222221


Q ss_pred             CHHHHHHHHHHHHHHhhcCCceEEEEcccccc
Q 047388          202 TYEHQYNLLLGLAAKMSEEPFRLLIVDSVIAL  233 (352)
Q Consensus       202 ~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l  233 (352)
                      ........+......+...++++||||....+
T Consensus       163 ~~~dp~~i~~~al~~a~~~~~DvVIIDTaGrl  194 (443)
T 3dm5_A          163 QEKDAIKLAKEGVDYFKSKGVDIIIVDTAGRH  194 (443)
T ss_dssp             TCCCHHHHHHHHHHHHHHTTCSEEEEECCCCS
T ss_pred             CCCCHHHHHHHHHHHHHhCCCCEEEEECCCcc
Confidence            11112222222223334456899999977543

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=97.83  E-value=7.6e-05  Score=72.44  Aligned_cols=118  Identities=19%  Similarity=0.183  Sum_probs=64.0

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAY  201 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~  201 (352)
                      -+|+|  +.|+||||+|||+|+..++...         +.+.++++...-...                +..       .
T Consensus        47 ~~p~g--vLL~GppGtGKT~Laraia~~~---------~~~f~~is~~~~~~~----------------~~g-------~   92 (476)
T 2ce7_A           47 RMPKG--ILLVGPPGTGKTLLARAVAGEA---------NVPFFHISGSDFVEL----------------FVG-------V   92 (476)
T ss_dssp             CCCSE--EEEECCTTSSHHHHHHHHHHHH---------TCCEEEEEGGGTTTC----------------CTT-------H
T ss_pred             CCCCe--EEEECCCCCCHHHHHHHHHHHc---------CCCeeeCCHHHHHHH----------------Hhc-------c
Confidence            34555  8899999999999999887653         234566654321100                000       0


Q ss_pred             CHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCC-CcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          202 TYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTG-RGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       202 ~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~-~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      .......++    .......+.+|+||++..+....-.+ .+...++.+.+.+++..|..+....++.||.+++...
T Consensus        93 ~~~~~r~lf----~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~~~viVIaaTn~~~  165 (476)
T 2ce7_A           93 GAARVRDLF----AQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKEGIIVMAATNRPD  165 (476)
T ss_dssp             HHHHHHHHH----HHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGGGTEEEEEEESCGG
T ss_pred             cHHHHHHHH----HHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCCCCEEEEEecCChh
Confidence            011111222    22233578999999999885532110 0111233334556666555444456788888777654

>1xx6_A Thymidine kinase; NESG, northeast structural genomics consortium, protein STRU initiative, PSI, structural genomics, DNA synthesis; HET: ADP; 2.00A {Clostridium acetobutylicum} SCOP: c.37.1.24 g.39.1.14

Probab=97.82  E-value=2.7e-05  Score=66.26  Aligned_cols=138  Identities=13%  Similarity=0.096  Sum_probs=76.7

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCCH
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTY  203 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~  203 (352)
                      .+|.+..++|+.|+||||.++.++.+...      .+.+|+++...-.. ......+..+.|+..    ..+.+   .+.
T Consensus         6 ~~g~i~v~~G~mgsGKTT~ll~~a~r~~~------~g~kV~v~k~~~d~-r~~~~~i~s~~g~~~----~a~~~---~~~   71 (191)
T 1xx6_A            6 DHGWVEVIVGPMYSGKSEELIRRIRRAKI------AKQKIQVFKPEIDN-RYSKEDVVSHMGEKE----QAVAI---KNS   71 (191)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHHHH------TTCCEEEEEEC--------CEEECTTSCEE----ECEEE---SSS
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHHHHHH------CCCEEEEEEeccCc-cchHHHHHhhcCCce----eeEee---CCH
Confidence            45889999999999999999999988765      67788888532110 000001111122211    11111   111


Q ss_pred             HHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCc
Q 047388          204 EHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGV  283 (352)
Q Consensus       204 ~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~  283 (352)
                      .   +    +...+. .+.++|+||+.+.+-.                 +.+..|..++.. ++.||++..-+. ..+..
T Consensus        72 ~---~----i~~~~~-~~~dvViIDEaqfl~~-----------------~~v~~l~~l~~~-~~~Vi~~Gl~~d-f~~~~  124 (191)
T 1xx6_A           72 R---E----ILKYFE-EDTEVIAIDEVQFFDD-----------------EIVEIVNKIAES-GRRVICAGLDMD-FRGKP  124 (191)
T ss_dssp             T---H----HHHHCC-TTCSEEEECSGGGSCT-----------------HHHHHHHHHHHT-TCEEEEEECSBC-TTSCB
T ss_pred             H---H----HHHHHh-ccCCEEEEECCCCCCH-----------------HHHHHHHHHHhC-CCEEEEEecccc-cccCc
Confidence            1   2    212222 2479999999876411                 224456666665 999999865443 22332


Q ss_pred             ccCCCCCCCcchhhhhccceEEEEEe
Q 047388          284 FISDPKKPAGGHVLAHAVTIRLMFRK  309 (352)
Q Consensus       284 ~~~~~~~~~gg~~~~~~~~~~i~L~~  309 (352)
                      |.       +...+-..+|.+..+..
T Consensus       125 F~-------~~~~L~~~AD~V~el~~  143 (191)
T 1xx6_A          125 FG-------PIPELMAIAEFVDKIQA  143 (191)
T ss_dssp             CT-------THHHHHHHCSEEEECCE
T ss_pred             Cc-------cHHHHHHHcccEEeeee
Confidence            31       23445567777666653

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=97.82  E-value=4.2e-05  Score=70.02  Aligned_cols=42  Identities=17%  Similarity=0.056  Sum_probs=35.5

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      ..+|+++.|+|++|+||||++..+|.....      .+++|++++.+.
T Consensus       101 ~~~~~vi~ivG~~GsGKTTl~~~LA~~l~~------~g~kV~lv~~D~  142 (306)
T 1vma_A          101 PEPPFVIMVVGVNGTGKTTSCGKLAKMFVD------EGKSVVLAAADT  142 (306)
T ss_dssp             SSSCEEEEEECCTTSSHHHHHHHHHHHHHH------TTCCEEEEEECT
T ss_pred             CCCCeEEEEEcCCCChHHHHHHHHHHHHHh------cCCEEEEEcccc
Confidence            357899999999999999999999887654      567899988763

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=97.81  E-value=2.1e-05  Score=85.40  Aligned_cols=41  Identities=15%  Similarity=0.187  Sum_probs=29.9

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      -+++|+++.|+|++|||||||+..++.  ..+     ...+.++++..
T Consensus       412 ~i~~G~~~~ivG~sGsGKSTl~~ll~g--~~~-----~~~G~i~i~g~  452 (1284)
T 3g5u_A          412 KVKSGQTVALVGNSGCGKSTTVQLMQR--LYD-----PLDGMVSIDGQ  452 (1284)
T ss_dssp             EECTTCEEEEECCSSSSHHHHHHHTTT--SSC-----CSEEEEEETTE
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhC--CCC-----CCCeEEEECCE
Confidence            478999999999999999999985543  332     23345566553

>2j9r_A Thymidine kinase; TK1, DNK, lasso, transferase, ATP-binding, deoxyribonucleoside kinase, DNA synthesis, phosphate accept nucleotide-binding; HET: THM; 2.7A {Bacillus anthracis} PDB: 2ja1_A*

Probab=97.80  E-value=3.4e-05  Score=66.52  Aligned_cols=138  Identities=12%  Similarity=0.067  Sum_probs=77.1

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCCH
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTY  203 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~  203 (352)
                      .+|.+..++|+.|+||||.+++++.+...      .+.+|+++...-+.. .-...++.+.|....    .+   ...+.
T Consensus        26 ~~G~l~vitG~MgsGKTT~lL~~a~r~~~------~g~kVli~k~~~d~R-~ge~~i~s~~g~~~~----a~---~~~~~   91 (214)
T 2j9r_A           26 QNGWIEVICGSMFSGKSEELIRRVRRTQF------AKQHAIVFKPCIDNR-YSEEDVVSHNGLKVK----AV---PVSAS   91 (214)
T ss_dssp             CSCEEEEEECSTTSCHHHHHHHHHHHHHH------TTCCEEEEECC------------------CC----EE---ECSSG
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHHHHHH------CCCEEEEEEeccCCc-chHHHHHhhcCCeeE----Ee---ecCCH
Confidence            56899999999999999999999998876      678899986442211 111234444444321    11   11111


Q ss_pred             HHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCc
Q 047388          204 EHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGV  283 (352)
Q Consensus       204 ~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~  283 (352)
                      .       .+...+. .++++|+||+.+.+-.                 +.+..|..++.+ ++.||++..-+. ..+..
T Consensus        92 ~-------~~~~~~~-~~~dvViIDEaQF~~~-----------------~~V~~l~~l~~~-~~~Vi~~Gl~~D-F~~~~  144 (214)
T 2j9r_A           92 K-------DIFKHIT-EEMDVIAIDEVQFFDG-----------------DIVEVVQVLANR-GYRVIVAGLDQD-FRGLP  144 (214)
T ss_dssp             G-------GGGGGCC-SSCCEEEECCGGGSCT-----------------THHHHHHHHHHT-TCEEEEEECSBC-TTSCB
T ss_pred             H-------HHHHHHh-cCCCEEEEECcccCCH-----------------HHHHHHHHHhhC-CCEEEEEecccc-cccCc
Confidence            1       1111111 2589999999987511                 122445666654 999998876554 23333


Q ss_pred             ccCCCCCCCcchhhhhccceEEEEEe
Q 047388          284 FISDPKKPAGGHVLAHAVTIRLMFRK  309 (352)
Q Consensus       284 ~~~~~~~~~gg~~~~~~~~~~i~L~~  309 (352)
                      |.       +...+-..+|.+..|..
T Consensus       145 F~-------~~~~Ll~~AD~Vtel~a  163 (214)
T 2j9r_A          145 FG-------QVPQLMAIAEHVTKLQA  163 (214)
T ss_dssp             CT-------THHHHHHHCSEEEECCC
T ss_pred             cc-------cHHHHHHhcccEEeeee
Confidence            32       23345567787777664

>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=97.79  E-value=4e-05  Score=70.65  Aligned_cols=116  Identities=18%  Similarity=0.220  Sum_probs=61.2

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEec
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARA  200 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~  200 (352)
                      ++..+..-++|+||||+|||+++..++...         +...++++...         +...+   .            
T Consensus        46 ~~~~~~~~vLl~GppGtGKT~la~aia~~~---------~~~~~~v~~~~---------l~~~~---~------------   92 (322)
T 3eie_A           46 GNRKPTSGILLYGPPGTGKSYLAKAVATEA---------NSTFFSVSSSD---------LVSKW---M------------   92 (322)
T ss_dssp             TTCCCCCEEEEECSSSSCHHHHHHHHHHHH---------TCEEEEEEHHH---------HHTTT---G------------
T ss_pred             cCCCCCCeEEEECCCCCcHHHHHHHHHHHH---------CCCEEEEchHH---------Hhhcc---c------------
Confidence            444556679999999999999999887653         34566664421         10000   0            


Q ss_pred             CCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHH-HhCcEEEEEcc
Q 047388          201 YTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISE-EFNVAVYMTNQ  274 (352)
Q Consensus       201 ~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~-~~~~~viv~~h  274 (352)
                         ......+..+........+.+|+||++..+......+..+...+  ....++..|..+.. ..++.||.+++
T Consensus        93 ---g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~--~~~~ll~~l~~~~~~~~~v~vi~atn  162 (322)
T 3eie_A           93 ---GESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRR--IKTELLVQMNGVGNDSQGVLVLGATN  162 (322)
T ss_dssp             ---GGHHHHHHHHHHHHHHTSSEEEEEECGGGGSCC------CCTHH--HHHHHHHHHGGGGTSCCCEEEEEEES
T ss_pred             ---chHHHHHHHHHHHHHhcCCeEEEechhhhhhccCCCCcchHHHH--HHHHHHHHhccccccCCceEEEEecC
Confidence               01112223333344455789999999998865321111111222  23455555554432 23455554544

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=97.79  E-value=0.00011  Score=66.48  Aligned_cols=76  Identities=18%  Similarity=0.107  Sum_probs=46.8

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCCHH
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYE  204 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~  204 (352)
                      ++..+.|+||||+|||+++..++...         +...++++...-+...                        .....
T Consensus        53 ~~~~vll~Gp~GtGKT~la~~la~~~---------~~~~~~i~~~~l~~~~------------------------~~~~~   99 (297)
T 3b9p_A           53 PAKGLLLFGPPGNGKTLLARAVATEC---------SATFLNISAASLTSKY------------------------VGDGE   99 (297)
T ss_dssp             CCSEEEEESSSSSCHHHHHHHHHHHT---------TCEEEEEESTTTSSSS------------------------CSCHH
T ss_pred             CCCeEEEECcCCCCHHHHHHHHHHHh---------CCCeEEeeHHHHhhcc------------------------cchHH
Confidence            46678999999999999999887653         3456666654321100                        00111


Q ss_pred             HHHHHHHHHHHHhhcCCceEEEEcccccchhc
Q 047388          205 HQYNLLLGLAAKMSEEPFRLLIVDSVIALFRV  236 (352)
Q Consensus       205 ~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~  236 (352)
                      ..   +..+........+.+|+||++..+...
T Consensus       100 ~~---~~~~~~~~~~~~~~vl~iDEid~l~~~  128 (297)
T 3b9p_A          100 KL---VRALFAVARHMQPSIIFIDEVDSLLSE  128 (297)
T ss_dssp             HH---HHHHHHHHHHTCSEEEEEETGGGTSBC
T ss_pred             HH---HHHHHHHHHHcCCcEEEeccHHHhccc
Confidence            11   122222333457899999999988653

>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation, transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A* 2wvj_A* 2j87_A*

Probab=97.78  E-value=3.7e-05  Score=65.29  Aligned_cols=134  Identities=12%  Similarity=-0.006  Sum_probs=77.6

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCCHH
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYE  204 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~  204 (352)
                      .|.+..|+|+.|+|||+.+++.+.+...      .+.+|+|+..+-+....  ..+..+.|...    +-+   ...+..
T Consensus        19 ~g~l~fiyG~MgsGKTt~Ll~~i~n~~~------~~~kvl~~kp~~D~R~~--~~i~S~~g~~~----~A~---~~~~~~   83 (195)
T 1w4r_A           19 RGQIQVILGPMFSGKSTELMRRVRRFQI------AQYKCLVIKYAKDTRYS--SSFCTHDRNTM----EAL---PACLLR   83 (195)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHHHHH------TTCCEEEEEETTCCCGG--GSCCHHHHHHS----EEE---EESSGG
T ss_pred             ceEEEEEECCCCCcHHHHHHHHHHHHHH------cCCeEEEEccccCccch--hhhhhccCCcc----cce---ecCCHH
Confidence            5899999999999999888888888776      57899999866331110  00111112111    111   112222


Q ss_pred             HHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcc
Q 047388          205 HQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVF  284 (352)
Q Consensus       205 ~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~  284 (352)
                      +..+   .    .  .++++|+||+.+.+ . +      +       .+++   ..++ +.|+.||+...-+. ..+..|
T Consensus        84 d~~~---~----~--~~~DvIlIDEaQFf-k-~------~-------ve~~---~~L~-~~gk~VI~~GL~~D-F~~~~F  134 (195)
T 1w4r_A           84 DVAQ---E----A--LGVAVIGIDEGQFF-P-D------I-------VEFC---EAMA-NAGKTVIVAALDGT-FQRKPF  134 (195)
T ss_dssp             GGHH---H----H--HTCSEEEESSGGGC-T-T------H-------HHHH---HHHH-HTTCEEEEEEESBC-TTSSBC
T ss_pred             HHHH---h----c--cCCCEEEEEchhhh-H-H------H-------HHHH---HHHH-HCCCeEEEEecccc-cccccc
Confidence            2111   1    1  24799999999987 2 1      1       1333   5555 67999998876554 233333


Q ss_pred             cCCCCCCCcchhhhhccceEEEEEe
Q 047388          285 ISDPKKPAGGHVLAHAVTIRLMFRK  309 (352)
Q Consensus       285 ~~~~~~~~gg~~~~~~~~~~i~L~~  309 (352)
                      .       +...+-..+|.+..|..
T Consensus       135 ~-------~~~~Ll~~Ad~v~kl~a  152 (195)
T 1w4r_A          135 G-------AILNLVPLAESVVKLTA  152 (195)
T ss_dssp             T-------TGGGGGGGCSEEEECCE
T ss_pred             h-------hHHHHHHhcCeEEEeee
Confidence            2       12344556777766654

>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=97.78  E-value=8.2e-05  Score=65.89  Aligned_cols=40  Identities=18%  Similarity=0.106  Sum_probs=29.8

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      |++...-+.|+||||+|||+++..++...         +.+.++++...
T Consensus        35 g~~~~~~vll~G~~GtGKT~la~~la~~~---------~~~~~~~~~~~   74 (262)
T 2qz4_A           35 GAKVPKGALLLGPPGCGKTLLAKAVATEA---------QVPFLAMAGAE   74 (262)
T ss_dssp             -CCCCCEEEEESCTTSSHHHHHHHHHHHH---------TCCEEEEETTT
T ss_pred             CCCCCceEEEECCCCCCHHHHHHHHHHHh---------CCCEEEechHH
Confidence            45556678999999999999999887653         33567776653

>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=97.78  E-value=2.9e-05  Score=72.56  Aligned_cols=129  Identities=12%  Similarity=0.109  Sum_probs=66.2

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChh-hHHHHHHHcCCCcccccccEEEEecCC
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPD-RIVPIAERFGMDPGAVLDNIIYARAYT  202 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~-rl~~~~~~~~~~~~~~~~~i~~~~~~~  202 (352)
                      ..+..+.|+|++|+|||+|+..++......  .+ .+..++|++........ .+..++..++.....        ...+
T Consensus        43 ~~~~~vli~G~~G~GKTtl~~~l~~~~~~~--~~-~~~~~~~i~~~~~~~~~~~~~~i~~~l~~~~~~--------~~~~  111 (386)
T 2qby_A           43 EKPNNIFIYGLTGTGKTAVVKFVLSKLHKK--FL-GKFKHVYINTRQIDTPYRVLADLLESLDVKVPF--------TGLS  111 (386)
T ss_dssp             CCCCCEEEEECTTSSHHHHHHHHHHHHHHH--TC-SSCEEEEEEHHHHCSHHHHHHHHTTTTSCCCCS--------SSCC
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHHHHHH--hc-CCceEEEEECCCCCCHHHHHHHHHHHhCCCCCC--------CCCC
Confidence            356789999999999999999887654321  00 05678888854322222 123333333322100        1112


Q ss_pred             HHHHHHHHHHHHHHhhcC-CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          203 YEHQYNLLLGLAAKMSEE-PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       203 ~~~~~~~l~~l~~~l~~~-~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                      ....   +..+...+... .+.+||||++..+.....  .       ..+..+++.+..+ ...++.+|++++..
T Consensus       112 ~~~~---~~~l~~~l~~~~~~~vlilDE~~~l~~~~~--~-------~~l~~l~~~~~~~-~~~~~~~I~~~~~~  173 (386)
T 2qby_A          112 IAEL---YRRLVKAVRDYGSQVVIVLDEIDAFVKKYN--D-------DILYKLSRINSEV-NKSKISFIGITNDV  173 (386)
T ss_dssp             HHHH---HHHHHHHHHTCCSCEEEEEETHHHHHHSSC--S-------THHHHHHHHHHSC-CC--EEEEEEESCG
T ss_pred             HHHH---HHHHHHHHhccCCeEEEEEcChhhhhccCc--C-------HHHHHHhhchhhc-CCCeEEEEEEECCC
Confidence            2222   23333334333 478999999988753210  0       1112332222211 34477888877644

>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=97.77  E-value=6.4e-05  Score=68.59  Aligned_cols=119  Identities=18%  Similarity=0.208  Sum_probs=65.7

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEec
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARA  200 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~  200 (352)
                      -|++++..+.|+||||+|||+++..++...         +.+.++++..     . +.  ..-+|...            
T Consensus        44 ~~~~~~~~vLL~Gp~GtGKT~la~ala~~~---------~~~~i~v~~~-----~-l~--~~~~g~~~------------   94 (301)
T 3cf0_A           44 FGMTPSKGVLFYGPPGCGKTLLAKAIANEC---------QANFISIKGP-----E-LL--TMWFGESE------------   94 (301)
T ss_dssp             HCCCCCSEEEEECSSSSSHHHHHHHHHHHT---------TCEEEEECHH-----H-HH--HHHHTTCT------------
T ss_pred             cCCCCCceEEEECCCCcCHHHHHHHHHHHh---------CCCEEEEEhH-----H-HH--hhhcCchH------------
Confidence            367889999999999999999999887653         3455555431     1 11  11122111            


Q ss_pred             CCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCC---CcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          201 YTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTG---RGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       201 ~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~---~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                         .....++.    ......+.+++||++..+.......   .+....+  .+..++..|..+....++.||.+++...
T Consensus        95 ---~~~~~~f~----~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~--~~~~lL~~l~~~~~~~~v~vi~atn~~~  165 (301)
T 3cf0_A           95 ---ANVREIFD----KARQAAPCVLFFDELDSIAKARGGNIGDGGGAADR--VINQILTEMDGMSTKKNVFIIGATNRPD  165 (301)
T ss_dssp             ---THHHHHHH----HHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCH--HHHHHHHHHHSSCTTSSEEEEEEESCGG
T ss_pred             ---HHHHHHHH----HHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHH--HHHHHHHHhhcccCCCCEEEEEecCCcc
Confidence               11112222    2233468999999999886532110   0111111  2345555555444445677777766543

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.74  E-value=2.7e-05  Score=70.87  Aligned_cols=82  Identities=10%  Similarity=-0.017  Sum_probs=46.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAY  201 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~  201 (352)
                      |.++...+.|+||||+|||+++..+|...         +.++++++...         +.           +. ++.  .
T Consensus        32 ~~~~p~~lLl~GppGtGKT~la~aiA~~l---------~~~~i~v~~~~---------l~-----------~~-~~g--~   79 (293)
T 3t15_A           32 NIKVPLILGIWGGKGQGKSFQCELVFRKM---------GINPIMMSAGE---------LE-----------SG-NAG--E   79 (293)
T ss_dssp             TCCCCSEEEEEECTTSCHHHHHHHHHHHH---------TCCCEEEEHHH---------HH-----------CC------H
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHh---------CCCEEEEeHHH---------hh-----------hc-cCc--h
Confidence            55556678999999999999999988764         33466665321         00           00 000  0


Q ss_pred             CHHHHHHHHHHHHHHhhcCCceEEEEcccccchh
Q 047388          202 TYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFR  235 (352)
Q Consensus       202 ~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~  235 (352)
                      ........+...........+.+|+||.+-.+..
T Consensus        80 ~~~~i~~~f~~a~~~~~~~~~~vl~iDEiD~~~~  113 (293)
T 3t15_A           80 PAKLIRQRYREAAEIIRKGNMCCLFINDLDAGAG  113 (293)
T ss_dssp             HHHHHHHHHHHHHHHHTTSSCCCEEEECCC----
T ss_pred             hHHHHHHHHHHHHHHHhcCCCeEEEEechhhhcC
Confidence            0111222333333333456789999999988765

>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=97.72  E-value=0.00011  Score=68.05  Aligned_cols=149  Identities=9%  Similarity=0.026  Sum_probs=77.9

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCC
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYT  202 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~  202 (352)
                      +++|+++.|+|++|||||||+..++..  .+     ...+.+.++....+.            ..  ...+.+.+... .
T Consensus       168 i~~g~~v~i~G~~GsGKTTll~~l~g~--~~-----~~~g~i~i~~~~e~~------------~~--~~~~~i~~~~g-g  225 (330)
T 2pt7_A          168 IAIGKNVIVCGGTGSGKTTYIKSIMEF--IP-----KEERIISIEDTEEIV------------FK--HHKNYTQLFFG-G  225 (330)
T ss_dssp             HHHTCCEEEEESTTSCHHHHHHHGGGG--SC-----TTSCEEEEESSCCCC------------CS--SCSSEEEEECB-T
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHhCC--Cc-----CCCcEEEECCeeccc------------cc--cchhEEEEEeC-C
Confidence            457999999999999999999866533  22     234455665432211            10  01123333311 1


Q ss_pred             HHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCC
Q 047388          203 YEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGG  282 (352)
Q Consensus       203 ~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~  282 (352)
                      ...+...   +...+ ..+|+++++|+++..                   ++...|+.+.. -+.++|+++|-.......
T Consensus       226 g~~~r~~---la~aL-~~~p~ilildE~~~~-------------------e~~~~l~~~~~-g~~tvi~t~H~~~~~~~~  281 (330)
T 2pt7_A          226 NITSADC---LKSCL-RMRPDRIILGELRSS-------------------EAYDFYNVLCS-GHKGTLTTLHAGSSEEAF  281 (330)
T ss_dssp             TBCHHHH---HHHHT-TSCCSEEEECCCCST-------------------HHHHHHHHHHT-TCCCEEEEEECSSHHHHH
T ss_pred             ChhHHHH---HHHHh-hhCCCEEEEcCCChH-------------------HHHHHHHHHhc-CCCEEEEEEcccHHHHHh
Confidence            1122222   22233 247999999998751                   12334555443 345788888865421100


Q ss_pred             -----cccCCCC---CC--CcchhhhhccceEEEEEeecCCeEEEEEE
Q 047388          283 -----VFISDPK---KP--AGGHVLAHAVTIRLMFRKGKGEQRVCKVF  320 (352)
Q Consensus       283 -----~~~~~~~---~~--~gg~~~~~~~~~~i~L~~~~~~~R~~~i~  320 (352)
                           +..+.+.   .+  ..-..+....|.++.+.+  | .|+..|+
T Consensus       282 dri~~l~~g~~~~~~~~~~~i~~~i~~~id~vv~~~~--g-R~v~ei~  326 (330)
T 2pt7_A          282 IRLANMSSSNSAARNIKFESLIEGFKDLIDMIVHINH--H-KQCDEFY  326 (330)
T ss_dssp             HHHHHHHHTSGGGTTSCHHHHHHHHHTTCCEEEEECT--T-SCEEEEE
T ss_pred             hhheehhcCCcccCCCCHHHHHHHHHHhCCEEEEEeC--C-cEEEEEE
Confidence                 1111100   00  112356778899999987  4 4444443

>1g5t_A COB(I)alamin adenosyltransferase; P-loop protein, cobalamin biosynthesis, RECA fold; HET: ATP; 1.80A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1g5r_A* 1g64_A*

Probab=97.72  E-value=0.00016  Score=61.44  Aligned_cols=130  Identities=12%  Similarity=0.117  Sum_probs=75.0

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC-CChhhHHHHHHHcCCCcccccccEEEEecCCH-
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT-FRPDRIVPIAERFGMDPGAVLDNIIYARAYTY-  203 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~-~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~-  203 (352)
                      ...+.+++++|.||||.+.-++..++-      .+.+|+++.+-.. .... -..+++++++.....-..+.. +..+. 
T Consensus        28 ~g~i~v~tG~GkGKTTaA~GlalRA~g------~G~rV~~vQF~Kg~~~~g-E~~~l~~L~v~~~~~g~gf~~-~~~~~~   99 (196)
T 1g5t_A           28 RGIIIVFTGNGKGKTTAAFGTAARAVG------HGKNVGVVQFIKGTWPNG-ERNLLEPHGVEFQVMATGFTW-ETQNRE   99 (196)
T ss_dssp             CCCEEEEESSSSCHHHHHHHHHHHHHH------TTCCEEEEESSCCSSCCH-HHHHHGGGTCEEEECCTTCCC-CGGGHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHH------CCCeEEEEEeeCCCCCcc-HHHHHHhCCcEEEEccccccc-CCCCcH
Confidence            347778888899999999999988775      7899999965432 1211 223444454222111111111 11111 


Q ss_pred             ---HHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccc
Q 047388          204 ---EHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQV  275 (352)
Q Consensus       204 ---~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~  275 (352)
                         ......+..+.+.+....+++||+|++.......+-+          ..+++..|.+  +-.+..||+|...
T Consensus       100 ~~~~~a~~~l~~a~~~l~~~~yDlvILDEi~~al~~g~l~----------~~ev~~~l~~--Rp~~~~vIlTGr~  162 (196)
T 1g5t_A          100 ADTAACMAVWQHGKRMLADPLLDMVVLDELTYMVAYDYLP----------LEEVISALNA--RPGHQTVIITGRG  162 (196)
T ss_dssp             HHHHHHHHHHHHHHHHTTCTTCSEEEEETHHHHHHTTSSC----------HHHHHHHHHT--SCTTCEEEEECSS
T ss_pred             HHHHHHHHHHHHHHHHHhcCCCCEEEEeCCCccccCCCCC----------HHHHHHHHHh--CcCCCEEEEECCC
Confidence               1122334455666666789999999998765543321          1255555542  2346788887543

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=97.72  E-value=0.00055  Score=62.29  Aligned_cols=42  Identities=26%  Similarity=0.333  Sum_probs=34.6

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      .+|.++.|+|++|+||||++..++......     .+.+|++++.+.
T Consensus       103 ~~g~vi~lvG~~GsGKTTl~~~LA~~l~~~-----~G~~V~lv~~D~  144 (296)
T 2px0_A          103 IHSKYIVLFGSTGAGKTTTLAKLAAISMLE-----KHKKIAFITTDT  144 (296)
T ss_dssp             CCSSEEEEEESTTSSHHHHHHHHHHHHHHT-----TCCCEEEEECCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHHHh-----cCCEEEEEecCc
Confidence            368899999999999999999998776531     356899998764

>4aby_A DNA repair protein RECN; hydrolase, double strand break repair, ATPase, nucleotide binding domain; HET: DNA; 3.00A {Deinococcus radiodurans}

Probab=97.72  E-value=0.00034  Score=66.54  Aligned_cols=62  Identities=15%  Similarity=0.149  Sum_probs=41.1

Q ss_pred             eEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccc
Q 047388          223 RLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVT  302 (352)
Q Consensus       223 ~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~  302 (352)
                      +++++|++++.+..        ..    ...+...|++++ + +.+||+++|-..                   +...+|
T Consensus       317 ~~LlLDEpt~~LD~--------~~----~~~l~~~L~~l~-~-~~~vi~itH~~~-------------------~~~~~d  363 (415)
T 4aby_A          317 PSVVFDEVDAGIGG--------AA----AIAVAEQLSRLA-D-TRQVLVVTHLAQ-------------------IAARAH  363 (415)
T ss_dssp             SEEEESSTTTTCCH--------HH----HHHHHHHHHHHT-T-TSEEEEECSCHH-------------------HHTTCS
T ss_pred             CEEEEECCCCCCCH--------HH----HHHHHHHHHHHh-C-CCEEEEEeCcHH-------------------HHhhcC
Confidence            99999999877532        11    236777777776 2 899999999642                   123578


Q ss_pred             eEEEEEeecCCeEEE
Q 047388          303 IRLMFRKGKGEQRVC  317 (352)
Q Consensus       303 ~~i~L~~~~~~~R~~  317 (352)
                      .++.+.+.....|+.
T Consensus       364 ~i~~l~k~~~~G~~~  378 (415)
T 4aby_A          364 HHYKVEKQVEDGRTV  378 (415)
T ss_dssp             EEEEEEEEEETTEEE
T ss_pred             eEEEEEEeccCCceE
Confidence            888887653333343

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=97.71  E-value=2.1e-05  Score=85.36  Aligned_cols=26  Identities=19%  Similarity=0.312  Sum_probs=23.4

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la  147 (352)
                      -+++|+++.|+|++|||||||+..++
T Consensus      1055 ~i~~Ge~v~ivG~sGsGKSTl~~~l~ 1080 (1284)
T 3g5u_A         1055 EVKKGQTLALVGSSGCGKSTVVQLLE 1080 (1284)
T ss_dssp             EECSSSEEEEECSSSTTHHHHHHHHT
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHh
Confidence            47899999999999999999999654

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=97.71  E-value=0.00014  Score=66.99  Aligned_cols=42  Identities=17%  Similarity=-0.030  Sum_probs=36.3

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      ..+|.++.|+|++|+||||++..+|.....      .+++|++++...
T Consensus       102 ~~~~~vI~ivG~~G~GKTT~~~~LA~~l~~------~g~kVllid~D~  143 (320)
T 1zu4_A          102 ENRLNIFMLVGVNGTGKTTSLAKMANYYAE------LGYKVLIAAADT  143 (320)
T ss_dssp             TTSCEEEEEESSTTSSHHHHHHHHHHHHHH------TTCCEEEEECCC
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHHH------CCCeEEEEeCCC
Confidence            467899999999999999999999887665      578999998864

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=97.70  E-value=9e-05  Score=65.72  Aligned_cols=32  Identities=22%  Similarity=0.124  Sum_probs=24.9

Q ss_pred             EEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      +.|+||||+|||+++..++...         +.+.++++..
T Consensus        48 vll~G~~GtGKT~la~~la~~~---------~~~~~~i~~~   79 (257)
T 1lv7_A           48 VLMVGPPGTGKTLLAKAIAGEA---------KVPFFTISGS   79 (257)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHH---------TCCEEEECSC
T ss_pred             EEEECcCCCCHHHHHHHHHHHc---------CCCEEEEeHH
Confidence            8899999999999999887653         2346666654

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=97.70  E-value=0.00015  Score=67.77  Aligned_cols=100  Identities=18%  Similarity=0.164  Sum_probs=58.0

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChh-hHHHHHHHcCCCcccccccEEEEecCC
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPD-RIVPIAERFGMDPGAVLDNIIYARAYT  202 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~-rl~~~~~~~~~~~~~~~~~i~~~~~~~  202 (352)
                      ..+..+.|+||||+|||+++..++..........+.+..++|++.....++. -+..++..++.....        ...+
T Consensus        42 ~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~~l~~~~~~--------~~~~  113 (387)
T 2v1u_A           42 EKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVASAIAEAVGVRVPF--------TGLS  113 (387)
T ss_dssp             CCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHHHHHHHHHHSCCCCS--------SCCC
T ss_pred             CCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHHHHHHHHHhCCCCCC--------CCCC
Confidence            3456899999999999999998876653210000125678899876543332 244555555542200        0111


Q ss_pred             HHHHHHHHHHHHHHhhcC-CceEEEEcccccch
Q 047388          203 YEHQYNLLLGLAAKMSEE-PFRLLIVDSVIALF  234 (352)
Q Consensus       203 ~~~~~~~l~~l~~~l~~~-~~~lvvIDsl~~l~  234 (352)
                      ...   .+..+...+... ++.+|+||++..+.
T Consensus       114 ~~~---~~~~l~~~l~~~~~~~vlilDEi~~l~  143 (387)
T 2v1u_A          114 VGE---VYERLVKRLSRLRGIYIIVLDEIDFLP  143 (387)
T ss_dssp             HHH---HHHHHHHHHTTSCSEEEEEEETTTHHH
T ss_pred             HHH---HHHHHHHHHhccCCeEEEEEccHhhhc
Confidence            222   223333344333 47799999998874

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=97.69  E-value=0.0004  Score=65.63  Aligned_cols=114  Identities=19%  Similarity=0.146  Sum_probs=59.0

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCCH
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTY  203 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~  203 (352)
                      .++.-++|+||||+|||+++..++..         .+..+++++...-....        .+               . .
T Consensus       146 ~~~~~vLL~GppGtGKT~la~aia~~---------~~~~~~~v~~~~l~~~~--------~g---------------~-~  192 (389)
T 3vfd_A          146 APARGLLLFGPPGNGKTMLAKAVAAE---------SNATFFNISAASLTSKY--------VG---------------E-G  192 (389)
T ss_dssp             CCCSEEEEESSTTSCHHHHHHHHHHH---------TTCEEEEECSCCC-------------------------------C
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHh---------hcCcEEEeeHHHhhccc--------cc---------------h-H
Confidence            34678999999999999999988765         34567777765421110        00               0 0


Q ss_pred             HHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHH--hCcEEEEEccc
Q 047388          204 EHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEE--FNVAVYMTNQV  275 (352)
Q Consensus       204 ~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~--~~~~viv~~h~  275 (352)
                      .   ..+..+........+.+|+||++..++.....+......  ..+..++..|..+...  .++.||.+++.
T Consensus       193 ~---~~~~~~~~~a~~~~~~il~iDEid~l~~~~~~~~~~~~~--~~~~~ll~~l~~~~~~~~~~v~vI~atn~  261 (389)
T 3vfd_A          193 E---KLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASR--RLKTEFLIEFDGVQSAGDDRVLVMGATNR  261 (389)
T ss_dssp             H---HHHHHHHHHHHHSSSEEEEEETGGGGC--------CTHH--HHHHHHHHHHHHHC-----CEEEEEEESC
T ss_pred             H---HHHHHHHHHHHhcCCeEEEEECchhhcccCCCccchHHH--HHHHHHHHHhhcccccCCCCEEEEEecCC
Confidence            1   112222233344577899999999886532211112222  2234555555544332  34555555443

>3thx_A DNA mismatch repair protein MSH2; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 2o8c_A* 2o8d_A* 2o8f_A* 3thw_A* 2o8b_A* 3thy_A* 3thz_A* 2o8e_A*

Probab=97.68  E-value=6e-05  Score=78.80  Aligned_cols=28  Identities=14%  Similarity=0.071  Sum_probs=24.5

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      +.+|+++.|+||+|+|||||+.+++...
T Consensus       659 ~~~g~i~~ItGpNGsGKSTlLr~ial~~  686 (934)
T 3thx_A          659 KDKQMFHIITGPNMGGKSTYIRQTGVIV  686 (934)
T ss_dssp             TTTBCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            5679999999999999999999886543

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=97.68  E-value=9.2e-05  Score=69.24  Aligned_cols=30  Identities=20%  Similarity=0.244  Sum_probs=24.3

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ++..+..-++|+||||+|||+++..++...
T Consensus        79 ~~~~~~~~iLL~GppGtGKT~la~ala~~~  108 (355)
T 2qp9_X           79 GNRKPTSGILLYGPPGTGKSYLAKAVATEA  108 (355)
T ss_dssp             SSCCCCCCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHh
Confidence            445555668999999999999999888764

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=97.65  E-value=0.00013  Score=66.33  Aligned_cols=40  Identities=18%  Similarity=0.103  Sum_probs=35.0

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      +|+++.++|++|+||||++..+|.....      .+++|++++...
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~~~------~~~~v~l~~~d~  136 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKG------KGRRPLLVAADT  136 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHH------TTCCEEEEECCS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH------cCCeEEEecCCc
Confidence            6899999999999999999999887665      578899998864

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=97.65  E-value=0.0016  Score=63.45  Aligned_cols=51  Identities=22%  Similarity=0.126  Sum_probs=37.7

Q ss_pred             hhHHhhcC---CC----CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          114 ALDELLGG---GI----ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       114 ~LD~~L~G---Gl----~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      +|.+++++   ++    .+..++.|+|++|+||||++..++.....      .+.+|+.++.+.
T Consensus        82 eL~~ll~~~~~~~~~~~~~~~vI~ivG~~GvGKTTl~~kLA~~l~~------~G~kVllVd~D~  139 (504)
T 2j37_W           82 ELVKLVDPGVKAWTPTKGKQNVIMFVGLQGSGKTTTCSKLAYYYQR------KGWKTCLICADT  139 (504)
T ss_dssp             HHHHHHCCCCCCCCCCSS--EEEEEECSTTSSHHHHHHHHHHHHHH------TTCCEEEEEECC
T ss_pred             HHHHHhccccchhccccCCCeEEEEECCCCCCHHHHHHHHHHHHHh------CCCeEEEEeccc
Confidence            45566654   23    23458999999999999999999987664      567899998753

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=97.65  E-value=0.00064  Score=59.07  Aligned_cols=41  Identities=15%  Similarity=-0.096  Sum_probs=33.6

Q ss_pred             CCcE-EEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC
Q 047388          125 TGAI-TEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT  171 (352)
Q Consensus       125 ~G~i-~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~  171 (352)
                      +|.+ +.+.|++|+||||++.+++.....      .+.+|++++.+..
T Consensus         4 ~g~l~I~~~~kgGvGKTt~a~~la~~l~~------~G~~V~v~d~D~q   45 (228)
T 2r8r_A            4 RGRLKVFLGAAPGVGKTYAMLQAAHAQLR------QGVRVMAGVVETH   45 (228)
T ss_dssp             CCCEEEEEESSTTSSHHHHHHHHHHHHHH------TTCCEEEEECCCT
T ss_pred             CceEEEEEECCCCCcHHHHHHHHHHHHHH------CCCCEEEEEeCCC
Confidence            4555 788999999999999999988776      5778988888753

>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=97.64  E-value=0.00016  Score=67.69  Aligned_cols=114  Identities=14%  Similarity=0.191  Sum_probs=69.5

Q ss_pred             cccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcC
Q 047388          106 IKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFG  185 (352)
Q Consensus       106 ~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~  185 (352)
                      ..+.||+..+|-++  -+.+|+.+.|+|++|+|||+|+..++..+...    +.+-.|+|......  .+.+..+.+.+.
T Consensus       156 ~~~~tGiraID~~~--pi~rGQr~~IvG~sG~GKTtLl~~Iar~i~~~----~~~v~~I~~lIGER--~~Ev~~~~~~~~  227 (422)
T 3ice_A          156 STEDLTARVLDLAS--PIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYN----HPDCVLMVLLIDER--PEEVTEMQRLVK  227 (422)
T ss_dssp             CTTHHHHHHHHHHS--CCBTTCEEEEECCSSSSHHHHHHHHHHHHHHH----CTTSEEEEEEESSC--HHHHHHHHTTCS
T ss_pred             Ccccccceeeeeee--eecCCcEEEEecCCCCChhHHHHHHHHHHhhc----CCCeeEEEEEecCC--hHHHHHHHHHhC
Confidence            46889999999877  58899999999999999999999888765431    12345777654432  455555544331


Q ss_pred             CCcccccccEEEEecCC-HHH-HHH---HHHHHHHHhhcCCce-EEEEcccccchh
Q 047388          186 MDPGAVLDNIIYARAYT-YEH-QYN---LLLGLAAKMSEEPFR-LLIVDSVIALFR  235 (352)
Q Consensus       186 ~~~~~~~~~i~~~~~~~-~~~-~~~---~l~~l~~~l~~~~~~-lvvIDsl~~l~~  235 (352)
                              .+.+....+ +.. ...   ....+.+.+...+-+ +|++||++.+..
T Consensus       228 --------~~vV~atadep~~~r~~~a~~alt~AEyfrd~G~dVLil~DslTR~A~  275 (422)
T 3ice_A          228 --------GEVVASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLAR  275 (422)
T ss_dssp             --------SEEEEECTTSCHHHHHHHHHHHHHHHHHHHHTSCEEEEEEECHHHHHH
T ss_pred             --------eEEEEeCCCCCHHHHHHHHHHHHHHHHHHHhcCCCEEEEEeCchHHHH
Confidence                    233333222 211 111   111222333344444 567799998754

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=97.63  E-value=0.00012  Score=71.50  Aligned_cols=117  Identities=15%  Similarity=0.164  Sum_probs=66.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAY  201 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~  201 (352)
                      |.++..-++|+||||+|||+++..++..         .+...++++...         +...+  .              
T Consensus       234 g~~~~~~vLL~GppGtGKT~lAraia~~---------~~~~fv~vn~~~---------l~~~~--~--------------  279 (489)
T 3hu3_A          234 GVKPPRGILLYGPPGTGKTLIARAVANE---------TGAFFFLINGPE---------IMSKL--A--------------  279 (489)
T ss_dssp             TCCCCCEEEEECSTTSSHHHHHHHHHHH---------CSSEEEEEEHHH---------HHTSC--T--------------
T ss_pred             CCCCCCcEEEECcCCCCHHHHHHHHHHH---------hCCCEEEEEchH---------hhhhh--c--------------
Confidence            4566677999999999999999988654         245677776421         11000  0              


Q ss_pred             CHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          202 TYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       202 ~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                        .+....+..+........+.+|+||++..+........+++..  ..+..+++.|..+....++.||.+++..
T Consensus       280 --g~~~~~~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~~~~~~~--~~~~~LL~~ld~~~~~~~v~vIaaTn~~  350 (489)
T 3hu3_A          280 --GESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVER--RIVSQLLTLMDGLKQRAHVIVMAATNRP  350 (489)
T ss_dssp             --THHHHHHHHHHHHHHHTCSEEEEEESHHHHCBCTTSCCCHHHH--HHHHHHHHHHHHSCTTSCEEEEEEESCG
T ss_pred             --chhHHHHHHHHHHHHhcCCcEEEecchhhhccccccccchHHH--HHHHHHHHHhhccccCCceEEEEecCCc
Confidence              0111111222222334567899999998886543222233332  2344666666554444566666665543

>3e2i_A Thymidine kinase; Zn-binding, ATP-binding, DNA synthesis, nucleotide-B transferase; HET: MSE; 2.01A {Staphylococcus aureus}

Probab=97.61  E-value=9.5e-05  Score=63.70  Aligned_cols=154  Identities=14%  Similarity=-0.003  Sum_probs=79.3

Q ss_pred             ccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCc
Q 047388          109 TTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDP  188 (352)
Q Consensus       109 ~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~  188 (352)
                      ++|.-.--.++.+--..|.+..|+|+-|+||||.++..+.+...      .+.+++.+...-+- ..-...+..+.|...
T Consensus        11 ~~~~~~~~~~m~~~~~~G~I~vitG~M~sGKTT~Llr~~~r~~~------~g~kvli~kp~~D~-R~~~~~I~Sr~G~~~   83 (219)
T 3e2i_A           11 SSGLVPRGSHMYETYHSGWIECITGSMFSGKSEELIRRLRRGIY------AKQKVVVFKPAIDD-RYHKEKVVSHNGNAI   83 (219)
T ss_dssp             ----------------CCEEEEEEECTTSCHHHHHHHHHHHHHH------TTCCEEEEEEC------------CBTTBCC
T ss_pred             ccCcccCCceEeeccCCceEEEEECCCCCCHHHHHHHHHHHHHH------cCCceEEEEeccCC-cchhhhHHHhcCCce
Confidence            34443333444444467899999999999999988877777665      56778887654321 111223444455433


Q ss_pred             ccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcE
Q 047388          189 GAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVA  268 (352)
Q Consensus       189 ~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~  268 (352)
                      +    -+.+   .+..++.+       .+ ..++++|+||+.+.+-.                 .++..|..++ ..|+.
T Consensus        84 ~----a~~v---~~~~di~~-------~i-~~~~dvV~IDEaQFf~~-----------------~~v~~l~~la-~~gi~  130 (219)
T 3e2i_A           84 E----AINI---SKASEIMT-------HD-LTNVDVIGIDEVQFFDD-----------------EIVSIVEKLS-ADGHR  130 (219)
T ss_dssp             E----EEEE---SSGGGGGG-------SC-CTTCSEEEECCGGGSCT-----------------HHHHHHHHHH-HTTCE
T ss_pred             e----eEEe---CCHHHHHH-------HH-hcCCCEEEEechhcCCH-----------------HHHHHHHHHH-HCCCE
Confidence            1    1111   11111111       11 23688999999987621                 3455677777 58999


Q ss_pred             EEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEee
Q 047388          269 VYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKG  310 (352)
Q Consensus       269 viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~  310 (352)
                      ||+..--+ ...+..|.       +...+-..+|.+..|..-
T Consensus       131 Vi~~GLd~-DF~~~~F~-------~~~~Ll~~Ad~v~kl~ai  164 (219)
T 3e2i_A          131 VIVAGLDM-DFRGEPFE-------PMPKLMAVSEQVTKLQAV  164 (219)
T ss_dssp             EEEEEESB-CTTSCBCT-------THHHHHHHCSEEEEECEE
T ss_pred             EEEeeccc-ccccCCCc-------cHHHHHHhcceEEEeeeE
Confidence            88865433 23333331       234556677887777643

>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=97.61  E-value=4e-05  Score=64.61  Aligned_cols=39  Identities=21%  Similarity=0.116  Sum_probs=30.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      ++++|+++.|.|+|||||||++..++..  .       +.+.++++++
T Consensus         5 ~i~~g~~i~l~G~~GsGKSTl~~~La~~--~-------~~g~i~i~~d   43 (191)
T 1zp6_A            5 DDLGGNILLLSGHPGSGKSTIAEALANL--P-------GVPKVHFHSD   43 (191)
T ss_dssp             -CCTTEEEEEEECTTSCHHHHHHHHHTC--S-------SSCEEEECTT
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHhc--c-------CCCeEEEccc
Confidence            5789999999999999999999977643  1       2345677654

>2orv_A Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2'deoxythymidil))tetraphosphate, transferase; HET: 4TA; 2.30A {Homo sapiens} SCOP: c.37.1.24 g.39.1.14

Probab=97.59  E-value=0.00039  Score=60.54  Aligned_cols=134  Identities=10%  Similarity=-0.041  Sum_probs=75.2

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCCHH
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYE  204 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~  204 (352)
                      .|.+..++|+.|+||||.+++.+.+...      .+.+|+++...-+... - ..+..+.|....    .+.+   .+..
T Consensus        18 ~g~l~v~~G~MgsGKTT~lL~~~~r~~~------~g~kvli~kp~~D~Ry-g-~~i~sr~G~~~~----a~~i---~~~~   82 (234)
T 2orv_A           18 RGQIQVILGPMFSGKSTELMRRVRRFQI------AQYKCLVIKYAKDTRY-S-SSFCTHDRNTME----ALPA---CLLR   82 (234)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHHT------TTCCEEEEEETTCCCC-------------CE----EEEE---SSGG
T ss_pred             ceEEEEEECCCCCcHHHHHHHHHHHHHH------CCCeEEEEeecCCccc-h-HHHHhhcCCeeE----EEec---CCHH
Confidence            5899999999999999999999988776      6788998874433221 1 334555554431    1111   1222


Q ss_pred             HHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcc
Q 047388          205 HQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVF  284 (352)
Q Consensus       205 ~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~  284 (352)
                      +   ++..    +  .++++|+||+.+.+.        +       +.++++.+    .+.|+.||++..-+. ..+..|
T Consensus        83 d---i~~~----~--~~~dvViIDEaQF~~--------~-------v~el~~~l----~~~gi~VI~~GL~~D-F~~~~F  133 (234)
T 2orv_A           83 D---VAQE----A--LGVAVIGIDEGQFFP--------D-------IVEFCEAM----ANAGKTVIVAALDGT-FQRKPF  133 (234)
T ss_dssp             G---GHHH----H--TTCSEEEESSGGGCT--------T-------HHHHHHHH----HHTTCEEEEECCSBC-TTSSBC
T ss_pred             H---HHHH----h--ccCCEEEEEchhhhh--------h-------HHHHHHHH----HhCCCEEEEEecccc-cccCCc
Confidence            1   1221    1  358999999998762        0       12444333    347999999876554 233333


Q ss_pred             cCCCCCCCcchhhhhccceEEEEEe
Q 047388          285 ISDPKKPAGGHVLAHAVTIRLMFRK  309 (352)
Q Consensus       285 ~~~~~~~~gg~~~~~~~~~~i~L~~  309 (352)
                      .       +...+-..+|.+..|..
T Consensus       134 ~-------~~~~Ll~~AD~Vtelka  151 (234)
T 2orv_A          134 G-------AILNLVPLAESVVKLTA  151 (234)
T ss_dssp             T-------TGGGGGGGCSEEEECCE
T ss_pred             c-------cHHHHHHhcccEEeeee
Confidence            2       12334456666666653

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=97.59  E-value=0.00017  Score=75.36  Aligned_cols=26  Identities=19%  Similarity=0.212  Sum_probs=23.5

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      +++|+++.|.|++|+|||||+..++.
T Consensus       696 I~~GeivaIiGpNGSGKSTLLklLaG  721 (986)
T 2iw3_A          696 CSLSSRIAVIGPNGAGKSTLINVLTG  721 (986)
T ss_dssp             EETTCEEEECSCCCHHHHHHHHHHTT
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            78999999999999999999996653

>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=97.57  E-value=5.1e-05  Score=71.23  Aligned_cols=152  Identities=15%  Similarity=0.093  Sum_probs=73.4

Q ss_pred             hcCCCCC--CcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEe----C-CCCCChhh---HHHHHHHcCCCc
Q 047388          119 LGGGIET--GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYID----T-EGTFRPDR---IVPIAERFGMDP  188 (352)
Q Consensus       119 L~GGl~~--G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~----~-e~~~~~~r---l~~~~~~~~~~~  188 (352)
                      +.--+++  |+.+.|.|++|||||||+..++.....  ..+...+.+ |+.    . +..+....   +....+......
T Consensus       161 v~~~v~~~lg~k~~IvG~nGsGKSTLlk~L~gl~~~--~~~~e~G~i-~i~~~~~~~~~~~~~~~~~~I~~~~q~~~~~~  237 (365)
T 1lw7_A          161 IPKEARPFFAKTVAILGGESSGKSVLVNKLAAVFNT--TSAWEYGRE-FVFEKLGGDEQAMQYSDYPQMALGHQRYIDYA  237 (365)
T ss_dssp             SCTTTGGGTCEEEEEECCTTSHHHHHHHHHHHHTTC--EEECCTTHH-HHHHSSSSCTTSSCTTTHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHhhhCeEEEECCCCCCHHHHHHHHHHHhCC--CcchhhHHH-HHHhhcCCCcccCChhHHHHHHHHHHHHHHHH
Confidence            4445677  999999999999999999987765332  211011222 221    1 11111221   222222211111


Q ss_pred             ccccccEEEEecCCHHHHH-HHH------HHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHH
Q 047388          189 GAVLDNIIYARAYTYEHQY-NLL------LGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKI  261 (352)
Q Consensus       189 ~~~~~~i~~~~~~~~~~~~-~~l------~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~l  261 (352)
                      .++.+|+.+.......... ...      ..+.......+++++++|.....+..+. .+.+++++++  ..+.+.|+++
T Consensus       238 ~t~~~nl~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~lllLdE~~~p~~~~g-~~~sld~~~r--~~l~~~l~~l  314 (365)
T 1lw7_A          238 VRHSHKIAFIDTDFITTQAFCIQYEGKAHPFLDSMIKEYPFDVTILLKNNTEWVDDG-LRSLGSQKQR--QQFQQLLKKL  314 (365)
T ss_dssp             HHHCSSEEEESSCHHHHHHHHHHHHSCCCHHHHHHHHHSCCSEEEEEECCCC------------CCSH--HHHHHHHHHH
T ss_pred             HhccCCEEEEeCCchHHHHHHHHHcCCCCHHHHHHHhhcCCCEEEECCCCCCcccCC-CcCCccHHHH--HHHHHHHHHH
Confidence            2345677665432111111 110      0112222235789999985321111000 0001122222  2677888888


Q ss_pred             HHHhCcEEEEEcccc
Q 047388          262 SEEFNVAVYMTNQVI  276 (352)
Q Consensus       262 a~~~~~~viv~~h~~  276 (352)
                      .++++.+|++++|.+
T Consensus       315 ~~~~~~~ililde~~  329 (365)
T 1lw7_A          315 LDKYKVPYIEIESPS  329 (365)
T ss_dssp             HHGGGCCCEEEECSS
T ss_pred             HHHcCCCEEEeCCCC
Confidence            888899999988753

>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=97.57  E-value=7e-05  Score=70.53  Aligned_cols=41  Identities=12%  Similarity=0.067  Sum_probs=31.4

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeC
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDT  168 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~  168 (352)
                      +++|+++.|+||+||||||++..++......     ..+.++++..
T Consensus       133 ~~~g~~i~ivG~~GsGKTTll~~l~~~~~~~-----~~g~I~~~e~  173 (372)
T 2ewv_A          133 HRKMGLILVTGPTGSGKSTTIASMIDYINQT-----KSYHIITIED  173 (372)
T ss_dssp             TSSSEEEEEECSSSSSHHHHHHHHHHHHHHH-----SCCEEEEEES
T ss_pred             hcCCCEEEEECCCCCCHHHHHHHHHhhcCcC-----CCcEEEEecc
Confidence            6789999999999999999999887654321     1456666653

>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=97.57  E-value=0.00031  Score=65.62  Aligned_cols=113  Identities=13%  Similarity=0.091  Sum_probs=58.3

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCCH
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTY  203 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~  203 (352)
                      .+..-++|+||||+|||+++..++...         +...++++...-+..                +           .
T Consensus       115 ~~~~~vLl~GppGtGKT~la~aia~~~---------~~~~~~i~~~~l~~~----------------~-----------~  158 (357)
T 3d8b_A          115 GPPKGILLFGPPGTGKTLIGKCIASQS---------GATFFSISASSLTSK----------------W-----------V  158 (357)
T ss_dssp             SCCSEEEEESSTTSSHHHHHHHHHHHT---------TCEEEEEEGGGGCCS----------------S-----------T
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHc---------CCeEEEEehHHhhcc----------------c-----------c
Confidence            345679999999999999999887652         446677765421110                0           0


Q ss_pred             HHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHH--hCcEEEEEcc
Q 047388          204 EHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEE--FNVAVYMTNQ  274 (352)
Q Consensus       204 ~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~--~~~~viv~~h  274 (352)
                      ......+..+........+.+|+||++..+....-.+......  ..+.+++..|..+...  .++.||.+++
T Consensus       159 g~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~--~~~~~lL~~l~~~~~~~~~~v~vI~atn  229 (357)
T 3d8b_A          159 GEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSR--RIKTEFLVQLDGATTSSEDRILVVGATN  229 (357)
T ss_dssp             THHHHHHHHHHHHHHHTCSEEEEEETHHHHTBC------CHHH--HHHHHHHHHHHC----CCCCEEEEEEES
T ss_pred             chHHHHHHHHHHHHHhcCCeEEEEeCchhhhccCCCCcchHHH--HHHHHHHHHHhcccccCCCCEEEEEecC
Confidence            0111122222233334578999999998886532111111121  2234555555544332  2455555544

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=97.56  E-value=0.00032  Score=67.49  Aligned_cols=121  Identities=17%  Similarity=0.138  Sum_probs=69.5

Q ss_pred             cccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHH
Q 047388          104 AVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAER  183 (352)
Q Consensus       104 ~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~  183 (352)
                      ..+.+.||+..+|.+.  -+-+|+.+.|+|+||+|||+|+..++.+....     .+.-++|...-..  .....++.+.
T Consensus       131 ~~e~l~TGir~ID~L~--pi~kGq~~~i~G~sGvGKTtL~~~l~~~~~~~-----~~~i~V~~~iGer--ttev~el~~~  201 (473)
T 1sky_E          131 EVEILETGIKVVDLLA--PYIKGGKIGLFGGAGVGKTVLIQELIHNIAQE-----HGGISVFAGVGER--TREGNDLYHE  201 (473)
T ss_dssp             SCCEECCSCHHHHHHS--CEETTCEEEEECCSSSCHHHHHHHHHHHHHHH-----TCCCEEEEEESSC--HHHHHHHHHH
T ss_pred             cCccccccchHHHHHh--hhccCCEEEEECCCCCCccHHHHHHHhhhhhc-----cCcEEEEeeeccC--chHHHHHHHH
Confidence            3467999999999876  46688999999999999999999988775431     2334555543222  3445555443


Q ss_pred             cCCCccccccc-EEEE-ecCCHHHHHH----HHHHHHHHhhc-CC-ceEEEEcccccchh
Q 047388          184 FGMDPGAVLDN-IIYA-RAYTYEHQYN----LLLGLAAKMSE-EP-FRLLIVDSVIALFR  235 (352)
Q Consensus       184 ~~~~~~~~~~~-i~~~-~~~~~~~~~~----~l~~l~~~l~~-~~-~~lvvIDsl~~l~~  235 (352)
                      +.-  ...+++ +.++ ...+......    .-..+.+.+.. .+ --++++|+++.+-.
T Consensus       202 l~~--~~~l~~tvvv~~~~~d~pg~r~~~~~~~ltiAEyFrd~~G~~VLl~~D~itR~a~  259 (473)
T 1sky_E          202 MKD--SGVISKTAMVFGQMNEPPGARMRVALTGLTMAEYFRDEQGQDGLLFIDNIFRFTQ  259 (473)
T ss_dssp             HHH--TSGGGGEEEEEECTTSCHHHHHHHHHHHHHHHHHHHHHSCCEEEEEEECTHHHHH
T ss_pred             hhh--cCCcceeEEEEEcCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHHHHHH
Confidence            310  112333 2232 2222221111    01133344443 33 34667899987643

>3pih_A Uvrabc system protein A; hydrolase, ABC ATPase, DNA repair, nucleotide excision repai hydrolase-DNA complex; HET: DNA; 2.90A {Thermotoga maritima}

Probab=97.54  E-value=0.00033  Score=73.04  Aligned_cols=44  Identities=14%  Similarity=0.186  Sum_probs=31.4

Q ss_pred             CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          221 PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       221 ~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      +++++|+|+.++-+..        ..+    ..++..|+++++ .|.|||+++|-..
T Consensus       826 ~p~LLILDEPTsGLD~--------~~~----~~L~~lL~~L~~-~G~TVIvI~HdL~  869 (916)
T 3pih_A          826 GRTLYILDEPTVGLHF--------EDV----RKLVEVLHRLVD-RGNTVIVIEHNLD  869 (916)
T ss_dssp             SSEEEEEESTTTTCCH--------HHH----HHHHHHHHHHHH-TTCEEEEECCCHH
T ss_pred             CCCEEEEECCCCCCCH--------HHH----HHHHHHHHHHHh-cCCEEEEEeCCHH
Confidence            4689999998877532        222    367777777765 5899999999543

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=97.54  E-value=0.0003  Score=63.26  Aligned_cols=38  Identities=18%  Similarity=0.092  Sum_probs=27.9

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      -+++|  +.|+||||+|||+|+..++...         +.+.++++...
T Consensus        42 ~~~~G--vlL~Gp~GtGKTtLakala~~~---------~~~~i~i~g~~   79 (274)
T 2x8a_A           42 VTPAG--VLLAGPPGCGKTLLAKAVANES---------GLNFISVKGPE   79 (274)
T ss_dssp             CCCSE--EEEESSTTSCHHHHHHHHHHHT---------TCEEEEEETTT
T ss_pred             CCCCe--EEEECCCCCcHHHHHHHHHHHc---------CCCEEEEEcHH
Confidence            34555  9999999999999999887642         22467776543

>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=97.53  E-value=0.00033  Score=66.93  Aligned_cols=89  Identities=19%  Similarity=0.161  Sum_probs=55.6

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhh---HHHHHHHcCCCcccccccEEEEec-
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDR---IVPIAERFGMDPGAVLDNIIYARA-  200 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~r---l~~~~~~~~~~~~~~~~~i~~~~~-  200 (352)
                      ++.++.++|++|+||||++..++.....      .+++|++++... +.+..   +....+..+++         ++.. 
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l~~------~g~~Vllvd~D~-~r~aa~~qL~~~~~~~gv~---------v~~~~  160 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKG------KGRRPLLVAADT-QRPAAREQLRLLGEKVGVP---------VLEVM  160 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHT------TTCCEEEEECCS-SCHHHHHHHHHHHHHHTCC---------EEECC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH------cCCeEEEeeccc-cCchhHHHHHHhcccCCcc---------EEecC
Confidence            6889999999999999999999987765      678899999853 34332   23334444432         2221 


Q ss_pred             --CCHHHHHHHHHHHHHHhhcCCceEEEEccccc
Q 047388          201 --YTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIA  232 (352)
Q Consensus       201 --~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~  232 (352)
                        .++...   +......+...+.++||||....
T Consensus       161 ~~~~p~~i---~~~~l~~~~~~~~DvVIIDTaG~  191 (425)
T 2ffh_A          161 DGESPESI---RRRVEEKARLEARDLILVDTAGR  191 (425)
T ss_dssp             TTCCHHHH---HHHHHHHHHHTTCSEEEEECCCC
T ss_pred             CCCCHHHH---HHHHHHHHHHCCCCEEEEcCCCc
Confidence              122222   22222233334678999997644

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=97.52  E-value=0.00049  Score=63.17  Aligned_cols=40  Identities=18%  Similarity=0.164  Sum_probs=31.8

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      ..+..+.|+||||+|||+|+..++.....      .+.+++|++.+
T Consensus        35 ~~~~~lll~G~~GtGKT~la~~i~~~~~~------~~~~~~~i~~~   74 (324)
T 1l8q_A           35 SLYNPIFIYGSVGTGKTHLLQAAGNEAKK------RGYRVIYSSAD   74 (324)
T ss_dssp             TSCSSEEEECSSSSSHHHHHHHHHHHHHH------TTCCEEEEEHH
T ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHHHHH------CCCEEEEEEHH
Confidence            35678999999999999999988876543      35678888764

>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=97.51  E-value=0.00056  Score=66.00  Aligned_cols=122  Identities=14%  Similarity=0.125  Sum_probs=72.1

Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHc
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERF  184 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~  184 (352)
                      .+.+.||+..+|-++  -+-+|.-+.|+|++|+|||+|+..++.+....     .+.-++|...-..  .+....+.+.+
T Consensus       146 ~e~l~TGirvID~l~--pigkGqr~gIfgg~GvGKT~L~~~l~~~~a~~-----~~~v~V~~~iGER--~rEv~e~~~~~  216 (498)
T 1fx0_B          146 LSIFETGIKVVNLLA--PYRRGGKIGLFGGAGVGKTVLIMELINNIAKA-----HGGVSVFGGVGER--TREGNDLYMEM  216 (498)
T ss_dssp             CCCCCCSCTTHHHHS--CCCTTCCEEEEECSSSSHHHHHHHHHHHTTTT-----CSSCEEEEEESCC--SHHHHHHHHHH
T ss_pred             ccccccceeEeeeec--ccccCCeEEeecCCCCCchHHHHHHHHHHHhh-----CCCEEEEEEcccC--cHHHHHHHHhh
Confidence            467999999999887  57799999999999999999999999886542     2345666643322  23344443332


Q ss_pred             ----CCCccccc--ccEEEEecCCHHHHHH-----HHHHHHHHhhc-CCce-EEEEcccccchh
Q 047388          185 ----GMDPGAVL--DNIIYARAYTYEHQYN-----LLLGLAAKMSE-EPFR-LLIVDSVIALFR  235 (352)
Q Consensus       185 ----~~~~~~~~--~~i~~~~~~~~~~~~~-----~l~~l~~~l~~-~~~~-lvvIDsl~~l~~  235 (352)
                          ++++..++  .-+.++...+..-...     .-..+.+.+.. .+-+ ++++||++.+..
T Consensus       217 ~~~~~l~~~~l~~~rtvvV~~t~d~p~~~R~~~~~~altiAEyfrd~~G~dVLl~~DsitR~A~  280 (498)
T 1fx0_B          217 KESGVINEQNIAESKVALVYGQMNEPPGARMRVGLTALTMAEYFRDVNEQDVLLFIDNIFRFVQ  280 (498)
T ss_dssp             HHTTSSCSSTTCCCCEEEEEECTTSCHHHHTTHHHHHHHTHHHHTTTSCCEEEEEEECSHHHHH
T ss_pred             hcccccccccccccceEEEEeCCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHHHHHH
Confidence                23322222  1233433322111111     11123344454 4444 556799987753

>2r6f_A Excinuclease ABC subunit A; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, at cassette, DNA damage, DNA excision; HET: ADP; 3.20A {Geobacillus stearothermophilus} PDB: 3uwx_A

Probab=97.51  E-value=0.00029  Score=73.29  Aligned_cols=26  Identities=27%  Similarity=0.349  Sum_probs=23.6

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la  147 (352)
                      -|+.|+++.|+|++|||||||+..++
T Consensus       646 ~I~~Geiv~I~G~nGSGKSTLl~~ll  671 (972)
T 2r6f_A          646 KIPLGTFVAVTGVSGSGKSTLVNEVL  671 (972)
T ss_dssp             EEESSSEEECCBCTTSSHHHHHTTTH
T ss_pred             EEcCCCEEEEEcCCCCCHHHHHHHHH
Confidence            47899999999999999999998754

>1e69_A Chromosome segregation SMC protein; structural maintenance of chromosomes, coiled coil; 3.1A {Thermotoga maritima} SCOP: c.37.1.12

Probab=97.50  E-value=0.00041  Score=63.87  Aligned_cols=25  Identities=20%  Similarity=0.291  Sum_probs=21.4

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      |.+| ++.|+|++|+|||+|+..+..
T Consensus        22 ~~~g-~~~i~G~NGsGKS~ll~ai~~   46 (322)
T 1e69_A           22 FSDR-VTAIVGPNGSGKSNIIDAIKW   46 (322)
T ss_dssp             CCSS-EEEEECCTTTCSTHHHHHHHH
T ss_pred             cCCC-cEEEECCCCCcHHHHHHHHHH
Confidence            4566 999999999999999987654

>2o8b_B DNA mismatch repair protein MSH6; DNA damage response, somatic hypermutat protein-DNA complex, DNA mispair, cancer; HET: DNA ADP; 2.75A {Homo sapiens} PDB: 2o8c_B* 2o8d_B* 2o8e_B* 2o8f_B*

Probab=97.50  E-value=0.00067  Score=71.73  Aligned_cols=47  Identities=11%  Similarity=0.116  Sum_probs=31.9

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      .++++|++|+++.-..+        ..+.   ..+...|+.++++.++++|+++|-..
T Consensus       867 ~~~sLlLLDEp~~Gtd~--------~dg~---~~~~~il~~L~~~~g~~vl~~TH~~e  913 (1022)
T 2o8b_B          867 TAHSLVLVDELGRGTAT--------FDGT---AIANAVVKELAETIKCRTLFSTHYHS  913 (1022)
T ss_dssp             CTTCEEEEECTTTTSCH--------HHHH---HHHHHHHHHHHHTSCCEEEEECCCHH
T ss_pred             CCCcEEEEECCCCCCCh--------HHHH---HHHHHHHHHHHhcCCCEEEEEeCCHH
Confidence            37899999999765321        1221   23456667777666999999999654

>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=97.49  E-value=0.001  Score=63.93  Aligned_cols=123  Identities=15%  Similarity=0.117  Sum_probs=72.2

Q ss_pred             cccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHH
Q 047388          104 AVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAER  183 (352)
Q Consensus       104 ~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~  183 (352)
                      ..+.+.||+..+|-++  -+-+|+-..|+|++|+|||+|+..++.+....     .+.-++|......  .+.+..+.+.
T Consensus       133 ~~e~l~TGir~ID~l~--pigkGQr~~Ifgg~G~GKT~L~~~i~~~~~~~-----~~~v~V~~~iGER--~rEv~e~~~~  203 (482)
T 2ck3_D          133 EQEILVTGIKVVDLLA--PYAKGGKIGLFGGAGVGKTVLIMELINNVAKA-----HGGYSVFAGVGER--TREGNDLYHE  203 (482)
T ss_dssp             CCCEECCSCHHHHHHS--CEETTCEEEEEECTTSSHHHHHHHHHHHTTTT-----CSSEEEEEEESCC--HHHHHHHHHH
T ss_pred             cCcCCccceEEEeccc--ccccCCeeeeecCCCCChHHHHHHHHHhhHhh-----CCCEEEEEECCCc--chHHHHHHHH
Confidence            3467999999999887  57789999999999999999999999886542     2345666543322  3344444443


Q ss_pred             c----CCCccccccc-EEEEecCCH-H--HHH--HHHHHHHHHhhc-CCc-eEEEEcccccchh
Q 047388          184 F----GMDPGAVLDN-IIYARAYTY-E--HQY--NLLLGLAAKMSE-EPF-RLLIVDSVIALFR  235 (352)
Q Consensus       184 ~----~~~~~~~~~~-i~~~~~~~~-~--~~~--~~l~~l~~~l~~-~~~-~lvvIDsl~~l~~  235 (352)
                      +    ++++..-..+ +.++...+. .  +..  ..-..+.+.+.. .+- =++++||++.+..
T Consensus       204 ~~~~~~l~~~~~~~rtvvV~~t~d~p~~~r~~~~~~a~tiAEyfrd~~G~dVLll~DsitR~A~  267 (482)
T 2ck3_D          204 MIESGVINLKDATSKVALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIFRFTQ  267 (482)
T ss_dssp             HHHHTSSCSSSSCCCEEEEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECTHHHHH
T ss_pred             hhhccccccccCCceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHHHHHH
Confidence            3    2321110113 333333221 1  111  111123344444 444 4667899987754

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=97.49  E-value=0.00013  Score=70.28  Aligned_cols=41  Identities=22%  Similarity=0.190  Sum_probs=30.6

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      |+..+..-++|+||||+|||+|+..++...        .+...++++..
T Consensus       162 ~~~~~~~~vLL~GppGtGKT~lA~aia~~~--------~~~~~~~v~~~  202 (444)
T 2zan_A          162 GKRTPWRGILLFGPPGTGKSYLAKAVATEA--------NNSTFFSISSS  202 (444)
T ss_dssp             GGGCCCSEEEEECSTTSSHHHHHHHHHHHC--------CSSEEEEECCC
T ss_pred             ccCCCCceEEEECCCCCCHHHHHHHHHHHc--------CCCCEEEEeHH
Confidence            455666789999999999999999887653        13456666654

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=97.48  E-value=0.00033  Score=58.21  Aligned_cols=26  Identities=27%  Similarity=0.197  Sum_probs=22.1

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      .+..+.|+|++|+|||+++..++...
T Consensus        42 ~~~~~ll~G~~G~GKT~l~~~~~~~~   67 (195)
T 1jbk_A           42 TKNNPVLIGEPGVGKTAIVEGLAQRI   67 (195)
T ss_dssp             SSCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHHH
Confidence            34568999999999999999888764

>1wb9_A DNA mismatch repair protein MUTS; DNA-binding, ATP-binding, DNA binding, DNA repair, mismatch recognition; HET: DNA ADP; 2.10A {Escherichia coli} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1wbb_A* 1e3m_A* 1oh5_A* 1oh6_A* 1oh7_A* 1oh8_A* 1w7a_A* 2wtu_A* 1wbd_A* 1ng9_A* 3k0s_A*

Probab=97.48  E-value=0.00032  Score=72.36  Aligned_cols=27  Identities=11%  Similarity=0.086  Sum_probs=24.5

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ++|+++.|+||+|+|||||+.+++...
T Consensus       605 ~~g~i~~ItGpNGsGKSTlLr~iagl~  631 (800)
T 1wb9_A          605 PQRRMLIITGPNMGGKSTYMRQTALIA  631 (800)
T ss_dssp             SSSCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCChHHHHHHHHHHH
Confidence            689999999999999999999988654

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=97.48  E-value=0.00024  Score=58.90  Aligned_cols=26  Identities=19%  Similarity=0.188  Sum_probs=22.1

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhc
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQ  151 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~  151 (352)
                      +..+.|+|++|+|||+++..++....
T Consensus        43 ~~~vll~G~~G~GKT~la~~~~~~~~   68 (187)
T 2p65_A           43 KNNPILLGDPGVGKTAIVEGLAIKIV   68 (187)
T ss_dssp             SCEEEEESCGGGCHHHHHHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHH
Confidence            45679999999999999998887653

>2vf7_A UVRA2, excinuclease ABC, subunit A.; DNA-binding protein, nucleotide-binding, zinc-binding domain, SOS response, metal-binding; HET: ADP; 2.30A {Deinococcus radiodurans} PDB: 2vf8_A*

Probab=97.47  E-value=0.00023  Score=73.55  Aligned_cols=24  Identities=29%  Similarity=0.367  Sum_probs=22.5

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHT  145 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~  145 (352)
                      -|++|+++.|+|++|||||||+..
T Consensus       519 ~i~~Geiv~I~G~nGSGKSTLl~~  542 (842)
T 2vf7_A          519 RFPLGVMTSVTGVSGSGKSTLVSQ  542 (842)
T ss_dssp             EEESSSEEEEECCTTSSHHHHCCC
T ss_pred             EEcCCCEEEEEcCCCcCHHHHHHH
Confidence            589999999999999999999985

>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=97.44  E-value=0.00043  Score=64.14  Aligned_cols=24  Identities=17%  Similarity=0.056  Sum_probs=20.8

Q ss_pred             EEEecCCCCChhHHHHHHHHHhcC
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCTQL  152 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~~~  152 (352)
                      +.|+||+|+||||++..++.....
T Consensus        39 ~ll~Gp~G~GKTtl~~~la~~l~~   62 (354)
T 1sxj_E           39 LLLYGPNGTGKKTRCMALLESIFG   62 (354)
T ss_dssp             EEEECSTTSSHHHHHHTHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHcC
Confidence            899999999999999988875543

>3oaa_A ATP synthase subunit alpha; rossmann fold, hydrolase, hydrolase-transport PROT complex; HET: ANP ADP; 3.26A {Escherichia coli DH1} PDB: 2a7u_A

Probab=97.43  E-value=0.00067  Score=65.41  Aligned_cols=119  Identities=19%  Similarity=0.224  Sum_probs=70.1

Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHc
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERF  184 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~  184 (352)
                      .+.+.||+..+|-++  -+-+|+-..|+|++|+|||++++....+...      .+..|+|...-..  ...+..+.+.+
T Consensus       143 ~epl~TGikaID~l~--PigrGQR~~Ifg~~g~GKT~l~l~~I~n~~~------~dv~~V~~~IGeR--~~ev~e~~~~l  212 (513)
T 3oaa_A          143 DQPVQTGYKAVDSMI--PIGRGQRELIIGDRQTGKTALAIDAIINQRD------SGIKCIYVAIGQK--ASTISNVVRKL  212 (513)
T ss_dssp             CCBCCCSCHHHHHHS--CCBTTCBCEEEESSSSSHHHHHHHHHHTTSS------SSCEEEEEEESCC--HHHHHHHHHHH
T ss_pred             Ccccccceeeecccc--ccccCCEEEeecCCCCCcchHHHHHHHhhcc------CCceEEEEEecCC--hHHHHHHHHHH
Confidence            467999999999987  5678999999999999999998766555322      3456778765433  34445544443


Q ss_pred             CCCccccccc-EEEEecC-CHHH-HHHH---HHHHHHHhhcCCc-eEEEEcccccchh
Q 047388          185 GMDPGAVLDN-IIYARAY-TYEH-QYNL---LLGLAAKMSEEPF-RLLIVDSVIALFR  235 (352)
Q Consensus       185 ~~~~~~~~~~-i~~~~~~-~~~~-~~~~---l~~l~~~l~~~~~-~lvvIDsl~~l~~  235 (352)
                      .  ....+++ +.+.... .+.. ....   -..+.+.+...+- -++++||++.+..
T Consensus       213 ~--~~g~m~~tvvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~Dsltr~A~  268 (513)
T 3oaa_A          213 E--EHGALANTIVVVATASESAALQYLAPYAGCAMGEYFRDRGEDALIIYDDLSKQAV  268 (513)
T ss_dssp             H--HHSCSTTEEEEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEETHHHHHH
T ss_pred             h--hcCcccceEEEEECCCCChHHHHHHHHHHHHHHHHHHhcCCCEEEEecChHHHHH
Confidence            1  0112334 3333322 2211 1111   1123344444444 4667899987643

>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=97.40  E-value=0.00048  Score=64.44  Aligned_cols=98  Identities=13%  Similarity=0.128  Sum_probs=53.2

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcCCCc-cCCC-CCeEEEEeCCCCC-Chh-hHHHHHHHc-CCCcccccccEEEEec
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTN-MRGG-NGKVAYIDTEGTF-RPD-RIVPIAERF-GMDPGAVLDNIIYARA  200 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~~~~-~gg~-~~~vl~i~~e~~~-~~~-rl~~~~~~~-~~~~~~~~~~i~~~~~  200 (352)
                      +..+.|+||||+|||+++..++........ ..+. +..++|++..... ++. -+..+...+ +.....        ..
T Consensus        45 ~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~l~~~l~~~~~~~--------~~  116 (384)
T 2qby_B           45 KFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQAVLSSLAGKLTGFSVPK--------HG  116 (384)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSCHHHHHHHHHHHHHCSCCCS--------SS
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCCHHHHHHHHHHHhcCCCCCC--------CC
Confidence            458999999999999999988766422100 0002 5678888854322 222 233334443 322100        01


Q ss_pred             CCHHHHHHHHHHHHHHhhcCCceEEEEcccccchh
Q 047388          201 YTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFR  235 (352)
Q Consensus       201 ~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~  235 (352)
                      .+...   .+..+...+...+. +|+||++..+..
T Consensus       117 ~~~~~---~~~~l~~~l~~~~~-vlilDEi~~l~~  147 (384)
T 2qby_B          117 INLGE---YIDKIKNGTRNIRA-IIYLDEVDTLVK  147 (384)
T ss_dssp             SCTHH---HHHHHHHHHSSSCE-EEEEETTHHHHH
T ss_pred             CCHHH---HHHHHHHHhccCCC-EEEEECHHHhcc
Confidence            11122   23333444444444 999999987743

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=97.39  E-value=0.00062  Score=65.29  Aligned_cols=39  Identities=21%  Similarity=0.103  Sum_probs=34.1

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcCCCccCCC-CCeEEEEeCCC
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGG-NGKVAYIDTEG  170 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~-~~~vl~i~~e~  170 (352)
                      ..++.++|++|+||||++..+|.....      . +.+|+.++...
T Consensus       100 ~~vI~ivG~~GvGKTT~a~~LA~~l~~------~~G~kVllvd~D~  139 (433)
T 2xxa_A          100 PAVVLMAGLQGAGKTTSVGKLGKFLRE------KHKKKVLVVSADV  139 (433)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHHHHH------TSCCCEEEEECCC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHH------hcCCeEEEEecCC
Confidence            468889999999999999999988776      5 78999999874

>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, JOI for structural genomics, JCSG, protein structure initiative ATP synthesis; HET: ATP PG4; 2.10A {Thermotoga maritima MSB8}

Probab=97.36  E-value=0.00078  Score=65.16  Aligned_cols=119  Identities=15%  Similarity=0.170  Sum_probs=70.3

Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHc
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERF  184 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~  184 (352)
                      .+.+.||+..+|-++  -+-+|+-..|+|++|+|||+|++....+...      .+..|+|......  .+.+..+.+.+
T Consensus       156 ~epl~TGiraID~l~--PigrGQR~~I~g~~g~GKT~Lal~~I~~~~~------~dv~~V~~~IGeR--~~Ev~e~~~~~  225 (515)
T 2r9v_A          156 DTPLQTGIKAIDSMI--PIGRGQRELIIGDRQTGKTAIAIDTIINQKG------QGVYCIYVAIGQK--KSAIARIIDKL  225 (515)
T ss_dssp             CSEECCSCHHHHHHS--CEETTCBEEEEEETTSSHHHHHHHHHHTTTT------TTEEEEEEEESCC--HHHHHHHHHHH
T ss_pred             CcchhcCcccccccc--ccccCCEEEEEcCCCCCccHHHHHHHHHhhc------CCcEEEEEEcCCC--cHHHHHHHHHH
Confidence            457999999999987  5778999999999999999997755555432      3345677765433  44455554443


Q ss_pred             CCCccccccc-EEEEecCC-HH-HHHH---HHHHHHHHhhcCCc-eEEEEcccccchh
Q 047388          185 GMDPGAVLDN-IIYARAYT-YE-HQYN---LLLGLAAKMSEEPF-RLLIVDSVIALFR  235 (352)
Q Consensus       185 ~~~~~~~~~~-i~~~~~~~-~~-~~~~---~l~~l~~~l~~~~~-~lvvIDsl~~l~~  235 (352)
                      .  ....+++ +.+....+ +. ....   .-..+.+.+...+- -++++||++.+..
T Consensus       226 ~--~~g~m~rtvvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~DslTr~A~  281 (515)
T 2r9v_A          226 R--QYGAMEYTTVVVASASDPASLQYIAPYAGCAMGEYFAYSGRDALVVYDDLSKHAV  281 (515)
T ss_dssp             H--HTTGGGGEEEEEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEETHHHHHH
T ss_pred             H--hCCCcceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEeccHHHHHH
Confidence            1  1123344 33333222 11 1111   11123344444444 4667899987654

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=97.36  E-value=0.00027  Score=67.87  Aligned_cols=55  Identities=24%  Similarity=0.245  Sum_probs=43.4

Q ss_pred             cccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          106 IKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       106 ~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      ..+.||...||.++  -+.+|+++.|+|++|||||||+..++.....       ...++.+..+
T Consensus       139 ~~~~tg~~vld~vl--~i~~Gq~~~IvG~sGsGKSTLl~~Iag~~~~-------~~G~i~~~G~  193 (438)
T 2dpy_A          139 HVLDTGVRAINALL--TVGRGQRMGLFAGSGVGKSVLLGMMARYTRA-------DVIVVGLIGE  193 (438)
T ss_dssp             SBCCCSCHHHHHHS--CCBTTCEEEEEECTTSSHHHHHHHHHHHSCC-------SEEEEEEESC
T ss_pred             eecCCCceEEeeeE--EecCCCEEEEECCCCCCHHHHHHHHhcccCC-------CeEEEEEece
Confidence            34667899999985  6899999999999999999999877765432       3446666665

>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=97.33  E-value=0.00011  Score=63.06  Aligned_cols=28  Identities=18%  Similarity=0.163  Sum_probs=23.0

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++|+++.|.||||||||||+..++..
T Consensus        16 ~i~~Gei~~l~GpnGsGKSTLl~~l~gl   43 (207)
T 1znw_A           16 PAAVGRVVVLSGPSAVGKSTVVRCLRER   43 (207)
T ss_dssp             ---CCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            4788999999999999999999977654

>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=97.33  E-value=0.00015  Score=59.65  Aligned_cols=29  Identities=21%  Similarity=0.253  Sum_probs=25.9

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      -+++|+++.|.||+|+|||||+..++...
T Consensus        29 ~i~~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           29 HTEKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             CCSSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             ccCCCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            46899999999999999999999887654

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=97.31  E-value=0.00036  Score=61.64  Aligned_cols=26  Identities=31%  Similarity=0.293  Sum_probs=21.8

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++|  +.|+||||+|||+|+..++..
T Consensus        47 ~~~~g--~ll~G~~G~GKTtl~~~i~~~   72 (254)
T 1ixz_A           47 RIPKG--VLLVGPPGVGKTHLARAVAGE   72 (254)
T ss_dssp             CCCSE--EEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCCe--EEEECCCCCCHHHHHHHHHHH
Confidence            34566  899999999999999988764

>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=97.31  E-value=0.0021  Score=54.48  Aligned_cols=22  Identities=27%  Similarity=0.051  Sum_probs=20.0

Q ss_pred             EEEecCCCCChhHHHHHHHHHh
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      +.|+||+|+|||+++..++...
T Consensus        41 ~ll~G~~G~GKT~l~~~l~~~~   62 (226)
T 2chg_A           41 LLFSGPPGTGKTATAIALARDL   62 (226)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            8999999999999999887654

>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=97.30  E-value=0.0013  Score=64.53  Aligned_cols=41  Identities=15%  Similarity=0.029  Sum_probs=32.0

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCC
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFR  173 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~  173 (352)
                      ++...+.|+||||+|||+++..++...         +..+++++......
T Consensus        75 ~~~~~lLL~GppGtGKTtla~~la~~l---------~~~~i~in~s~~~~  115 (516)
T 1sxj_A           75 GVFRAAMLYGPPGIGKTTAAHLVAQEL---------GYDILEQNASDVRS  115 (516)
T ss_dssp             TSCSEEEEECSTTSSHHHHHHHHHHHT---------TCEEEEECTTSCCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHc---------CCCEEEEeCCCcch
Confidence            456789999999999999999887653         45788887765433

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=97.28  E-value=0.00015  Score=60.85  Aligned_cols=28  Identities=18%  Similarity=0.254  Sum_probs=23.5

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      |-.+|.++.|+||||||||||+..++..
T Consensus         1 ~~~~g~~i~i~GpsGsGKSTL~~~L~~~   28 (180)
T 1kgd_A            1 GSHMRKTLVLLGAHGVGRRHIKNTLITK   28 (180)
T ss_dssp             --CCCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            4467899999999999999999987764

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=97.28  E-value=0.0013  Score=63.63  Aligned_cols=119  Identities=15%  Similarity=0.170  Sum_probs=69.9

Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHc
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERF  184 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~  184 (352)
                      .+.+.||+..+|-++  -+-+|+-..|+|++|+|||+|++....+...      .+..++|......  .+.+..+.+.+
T Consensus       143 ~epl~TGiraID~l~--PigrGQR~~Ifg~~g~GKT~Lal~~I~~~~~------~dv~~V~~~iGeR--~~Ev~~~~~~~  212 (502)
T 2qe7_A          143 HEPLQTGIKAIDSMI--PIGRGQRELIIGDRQTGKTTIAIDTIINQKG------QDVICIYVAIGQK--QSTVAGVVETL  212 (502)
T ss_dssp             CSBCCCSCHHHHHSS--CCBTTCBCEEEECSSSCHHHHHHHHHHGGGS------CSEEEEEEEESCC--HHHHHHHHHHH
T ss_pred             CCccccceeeccccc--ccccCCEEEEECCCCCCchHHHHHHHHHhhc------CCcEEEEEECCCc--chHHHHHHHHH
Confidence            457999999999887  5779999999999999999998765555442      3445677764433  44444444433


Q ss_pred             CCCccccccc-EEEEecCCHHHHHHH-----HHHHHHHhhcCCce-EEEEcccccchh
Q 047388          185 GMDPGAVLDN-IIYARAYTYEHQYNL-----LLGLAAKMSEEPFR-LLIVDSVIALFR  235 (352)
Q Consensus       185 ~~~~~~~~~~-i~~~~~~~~~~~~~~-----l~~l~~~l~~~~~~-lvvIDsl~~l~~  235 (352)
                      .-  ...+++ +.+....+..-....     -..+.+.+...+-+ ++++||++.+..
T Consensus       213 ~~--~g~m~~tvvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLl~~Dsltr~A~  268 (502)
T 2qe7_A          213 RQ--HDALDYTIVVTASASEPAPLLYLAPYAGCAMGEYFMYKGKHALVVYDDLSKQAA  268 (502)
T ss_dssp             HH--TTCSTTEEEEEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEECHHHHHH
T ss_pred             hh--CCCcceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEecHHHHHH
Confidence            10  122334 333333221111111     11233444444444 667899987654

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=97.27  E-value=0.00048  Score=67.22  Aligned_cols=38  Identities=21%  Similarity=0.146  Sum_probs=28.5

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      .-+++|  +.|+||||+|||+|+..++...         +.+.++++..
T Consensus        61 ~~ip~G--vLL~GppGtGKTtLaraIa~~~---------~~~~i~i~g~   98 (499)
T 2dhr_A           61 ARIPKG--VLLVGPPGVGKTHLARAVAGEA---------RVPFITASGS   98 (499)
T ss_dssp             CCCCSE--EEEECSSSSSHHHHHHHHHHHT---------TCCEEEEEGG
T ss_pred             CCCCce--EEEECCCCCCHHHHHHHHHHHh---------CCCEEEEehh
Confidence            345566  8999999999999999887653         2456777654

>3vr4_A V-type sodium ATPase catalytic subunit A; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_A* 3vr2_A* 3vr5_A 3vr6_A*

Probab=97.27  E-value=0.0024  Score=62.54  Aligned_cols=119  Identities=16%  Similarity=0.314  Sum_probs=72.8

Q ss_pred             cccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHH
Q 047388          104 AVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAER  183 (352)
Q Consensus       104 ~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~  183 (352)
                      ..+.+.||+..+|-++  -+-+|.-..|+|++|+|||+|+.+++.+..        ..-++|...-..  ...+..+.+.
T Consensus       212 ~~epl~TGirvID~l~--PigrGqr~~Ifgg~g~GKT~L~~~ia~~~~--------~~v~V~~~iGER--~~Ev~e~~~~  279 (600)
T 3vr4_A          212 PDVPMITGQRVIDTFF--PVTKGGAAAVPGPFGAGKTVVQHQIAKWSD--------VDLVVYVGCGER--GNEMTDVVNE  279 (600)
T ss_dssp             CCSBCCCCCHHHHHHS--CCBTTCEEEEECCTTSCHHHHHHHHHHHSS--------CSEEEEEEEEEC--HHHHHHHHHH
T ss_pred             CCceecccchhhhccC--CccCCCEEeeecCCCccHHHHHHHHHhccC--------CCEEEEEEeccc--HHHHHHHHHH
Confidence            3467999999999987  577899999999999999999999876532        235666654332  4556666666


Q ss_pred             cCC--Cc---cccccc-EEEEec-CCHHH-HHH---HHHHHHHHhhcCCce-EEEEcccccch
Q 047388          184 FGM--DP---GAVLDN-IIYARA-YTYEH-QYN---LLLGLAAKMSEEPFR-LLIVDSVIALF  234 (352)
Q Consensus       184 ~~~--~~---~~~~~~-i~~~~~-~~~~~-~~~---~l~~l~~~l~~~~~~-lvvIDsl~~l~  234 (352)
                      +.-  ++   ...+++ +.+... ..+.. ...   .-..+.+.+...+-+ ++++||++.+.
T Consensus       280 ~~el~d~~~G~~~m~rtvvV~~tsd~p~~~R~~~~~~altiAEyfrd~G~dVLl~~Ds~tR~A  342 (600)
T 3vr4_A          280 FPELIDPNTGESLMERTVLIANTSNMPVAAREASIYTGITIAEYFRDMGYDVAIMADSTSRWA  342 (600)
T ss_dssp             TTTCBCTTTCSBGGGGEEEEEEETTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEECHHHHH
T ss_pred             HHhhcccccccccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEecchHHHH
Confidence            532  11   234555 333322 22211 111   111233444444445 45679998654

>3mfy_A V-type ATP synthase alpha chain; A-type ATP synthase, P loop, phenylalanine mutant, hydrolase; 2.35A {Pyrococcus horikoshii} PDB: 3i4l_A* 3i72_A 3i73_A* 3p20_A 3ikj_A 3qg1_A 3nd8_A 3nd9_A 1vdz_A 3qia_A 3qjy_A 3m4y_A 3se0_A 3sdz_A

Probab=97.25  E-value=0.0019  Score=63.02  Aligned_cols=119  Identities=18%  Similarity=0.249  Sum_probs=73.1

Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHc
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERF  184 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~  184 (352)
                      .+.+.||+..+|-++  -+-+|.-..|+|++|+|||+|+.+++.+.        ...-++|...-..  .+.+..+.+.+
T Consensus       208 ~epl~TGirvID~l~--PigkGqr~~I~g~~g~GKT~L~~~ia~~~--------~~~~~V~~~iGER--~~Ev~e~~~~~  275 (588)
T 3mfy_A          208 EVPLITGQRVIDTFF--PQAKGGTAAIPGPAGSGKTVTQHQLAKWS--------DAQVVIYIGCGER--GNEMTDVLEEF  275 (588)
T ss_dssp             CSEECCSCHHHHHHS--CEETTCEEEECSCCSHHHHHHHHHHHHHS--------SCSEEEEEECCSS--SSHHHHHHHHT
T ss_pred             CcccccCcchhhccC--CcccCCeEEeecCCCCCHHHHHHHHHhcc--------CCCEEEEEEeccc--HHHHHHHHHHH
Confidence            457889999999987  56789999999999999999999987652        2346777765443  34466666665


Q ss_pred             CC-----CcccccccEE-EEecCC-H-H-HHHH--HHHHHHHHhhcCCce-EEEEcccccchh
Q 047388          185 GM-----DPGAVLDNII-YARAYT-Y-E-HQYN--LLLGLAAKMSEEPFR-LLIVDSVIALFR  235 (352)
Q Consensus       185 ~~-----~~~~~~~~i~-~~~~~~-~-~-~~~~--~l~~l~~~l~~~~~~-lvvIDsl~~l~~  235 (352)
                      .-     .-...+++-. +....+ + . ....  .-..+.+.+...+-+ ++++||++.+..
T Consensus       276 ~el~d~~~g~~~m~rtvvV~~tsd~p~~~r~~~~~~a~tiAEyfrd~G~dVLl~~DsltR~A~  338 (588)
T 3mfy_A          276 PKLKDPKTGKPLMERTVLIANTSNMPVAAREASIYTGITIAEYFRDMGYDVALMADSTSRWAE  338 (588)
T ss_dssp             TTCEETTTTEEGGGGEEEEECCTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECTTTCCC
T ss_pred             HHhcccccccccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEeecchHHHHH
Confidence            32     1123455533 332222 1 1 1111  111233444444444 456799987654

>2ius_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- binding, cell division, transmembrane, inner membrane; HET: DNA; 2.7A {Escherichia coli} PDB: 2j5p_A*

Probab=97.23  E-value=0.0017  Score=63.41  Aligned_cols=46  Identities=11%  Similarity=0.049  Sum_probs=32.1

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      +..+.-++|+|.+|||||+++..++..++.....  ..-.++.+|..+
T Consensus       164 L~~~pHlLIaG~TGSGKSt~L~~li~sLl~~~~p--~~v~l~liDpK~  209 (512)
T 2ius_A          164 LAKMPHLLVAGTTGSGASVGVNAMILSMLYKAQP--EDVRFIMIDPKM  209 (512)
T ss_dssp             GGGSCSEEEECCTTSSHHHHHHHHHHHHHTTCCT--TTEEEEEECCSS
T ss_pred             cccCceEEEECCCCCCHHHHHHHHHHHHHHhCCC--ceEEEEEECCch
Confidence            5567889999999999999999988765542111  123455566553

>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=97.23  E-value=0.0019  Score=61.89  Aligned_cols=38  Identities=29%  Similarity=0.179  Sum_probs=32.6

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      .++.|+|++|+||||++..++.....      .+.+|++++...
T Consensus       100 ~vI~ivG~~GvGKTTla~~La~~l~~------~G~kVllv~~D~  137 (432)
T 2v3c_C          100 NVILLVGIQGSGKTTTAAKLARYIQK------RGLKPALIAADT  137 (432)
T ss_dssp             CCEEEECCSSSSTTHHHHHHHHHHHH------HHCCEEEECCSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH------cCCeEEEEeccc
Confidence            58999999999999999999987764      567899998763

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=97.23  E-value=0.0006  Score=65.59  Aligned_cols=40  Identities=23%  Similarity=0.217  Sum_probs=30.4

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      +..+.|+||||+|||+|+..++......    ..+.+++|++.+
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~~l~~~----~~~~~v~~v~~~  169 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGNYVVQN----EPDLRVMYITSE  169 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHHHHHHH----CCSSCEEEEEHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHh----CCCCeEEEeeHH
Confidence            5679999999999999999887655321    025678888765

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=97.22  E-value=0.00018  Score=61.20  Aligned_cols=26  Identities=19%  Similarity=0.174  Sum_probs=23.4

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ++|+++.|+|||||||||++..++..
T Consensus         5 ~~g~ii~l~Gp~GsGKSTl~~~L~~~   30 (205)
T 3tr0_A            5 NKANLFIISAPSGAGKTSLVRALVKA   30 (205)
T ss_dssp             CCCCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCcEEEEECcCCCCHHHHHHHHHhh
Confidence            57999999999999999999987764

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=97.20  E-value=0.0026  Score=59.13  Aligned_cols=34  Identities=21%  Similarity=0.251  Sum_probs=28.3

Q ss_pred             hhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhc
Q 047388          118 LLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQ  151 (352)
Q Consensus       118 ~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~  151 (352)
                      .+..|..+|..+.|+||||+|||+++..++....
T Consensus        62 ~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l~   95 (368)
T 3uk6_A           62 MIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALG   95 (368)
T ss_dssp             HHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             HHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHhc
Confidence            3346777788999999999999999998887654

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=97.20  E-value=0.0003  Score=59.92  Aligned_cols=40  Identities=23%  Similarity=0.183  Sum_probs=30.9

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      ++|.++.|.|+|||||||++..++.....      .+..++|++++
T Consensus        23 ~~g~~i~l~G~sGsGKSTl~~~La~~l~~------~G~~~~~~d~d   62 (200)
T 3uie_A           23 QKGCVIWVTGLSGSGKSTLACALNQMLYQ------KGKLCYILDGD   62 (200)
T ss_dssp             SCCEEEEEECSTTSSHHHHHHHHHHHHHH------TTCCEEEEEHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHh------cCceEEEecCc
Confidence            67999999999999999999988765432      23345677754

>3vr4_D V-type sodium ATPase subunit D; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_D* 3vr2_D* 3vr5_D 3vr6_D*

Probab=97.20  E-value=0.0011  Score=63.50  Aligned_cols=123  Identities=16%  Similarity=0.163  Sum_probs=71.0

Q ss_pred             cccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHH
Q 047388          104 AVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAER  183 (352)
Q Consensus       104 ~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~  183 (352)
                      ..+.+.||+..+|-++  -+-+|+-..|+|++|+|||+|+.+++.......+  +.+--++|...-..  ...+..+.+.
T Consensus       131 ~~e~l~TGiraID~l~--pigrGQr~~Ifgg~G~GKt~L~~~Ia~~~~~~~d--~~~~~~V~~~iGeR--~~Ev~e~~~~  204 (465)
T 3vr4_D          131 PDEFIQTGISAIDHLN--TLVRGQKLPVFSGSGLPHKELAAQIARQATVLDS--SDDFAVVFAAIGIT--FEEAEFFMED  204 (465)
T ss_dssp             CCCBCBCSCHHHHTTS--CCBTTCBCCEEECTTSCHHHHHHHHHHHCBCSSC--SSCEEEEEEEEEEC--HHHHHHHHHH
T ss_pred             cccccccCceEEeccc--ccccCCEEEEeCCCCcChHHHHHHHHHHHHhccC--CCceEEEEEEecCC--cHHHHHHHHH
Confidence            3457999999999887  5678999999999999999999988876543100  12225666654322  3344444443


Q ss_pred             cCCCccccccc-EEEEe-cCCHH-HHHH---HHHHHHHHhhc-CCceEE-EEcccccch
Q 047388          184 FGMDPGAVLDN-IIYAR-AYTYE-HQYN---LLLGLAAKMSE-EPFRLL-IVDSVIALF  234 (352)
Q Consensus       184 ~~~~~~~~~~~-i~~~~-~~~~~-~~~~---~l~~l~~~l~~-~~~~lv-vIDsl~~l~  234 (352)
                      +.-  ...+++ +.+.. ...+. ....   .-..+.+.+.. .+-+++ ++|+++.+.
T Consensus       205 ~~~--~g~~~rtvvV~atsd~p~~~r~~a~~~a~tiAEyfrd~~G~~VLl~~DslTr~A  261 (465)
T 3vr4_D          205 FRQ--TGAIDRSVMFMNLANDPAIERIATPRMALTAAEYLAYEKGMHVLVIMTDMTNYA  261 (465)
T ss_dssp             HHH--HTGGGGEEEEEEETTSCHHHHHHHHHHHHHHHHHHHHTTCCEEEEEEECHHHHH
T ss_pred             Hhh--cCCccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEcChHHHH
Confidence            311  123344 33332 22221 1111   11133445554 355655 579998764

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=97.19  E-value=0.00018  Score=62.37  Aligned_cols=28  Identities=18%  Similarity=0.019  Sum_probs=23.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++|+++.|+||||||||||+..++..
T Consensus        19 ~i~~G~~~~lvGpsGsGKSTLl~~L~g~   46 (218)
T 1z6g_A           19 SMNNIYPLVICGPSGVGKGTLIKKLLNE   46 (218)
T ss_dssp             ---CCCCEEEECSTTSSHHHHHHHHHHH
T ss_pred             ecCCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            4788999999999999999999987764

>1ewq_A DNA mismatch repair protein MUTS; multiple domains of protein, mostly mixed alpha-beta structures, one domain is entirely helical; HET: DNA; 2.20A {Thermus aquaticus} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1nne_A* 1fw6_A* 1ewr_A*

Probab=97.16  E-value=0.00036  Score=71.50  Aligned_cols=26  Identities=12%  Similarity=0.125  Sum_probs=23.4

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhc
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQ  151 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~  151 (352)
                      |+++.|+||+|+|||||+.+++....
T Consensus       576 g~i~~I~GpNGsGKSTlLr~iagl~~  601 (765)
T 1ewq_A          576 HELVLITGPNMAGKSTFLRQTALIAL  601 (765)
T ss_dssp             SCEEEEESCSSSSHHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCChHHHHHHHHhhhh
Confidence            89999999999999999999887543

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.13  E-value=0.00027  Score=60.64  Aligned_cols=28  Identities=21%  Similarity=0.235  Sum_probs=24.7

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      .++|+++.|.|+||||||||+..++...
T Consensus        19 ~~~g~~v~I~G~sGsGKSTl~~~l~~~~   46 (208)
T 3c8u_A           19 QPGRQLVALSGAPGSGKSTLSNPLAAAL   46 (208)
T ss_dssp             CCSCEEEEEECCTTSCTHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            5789999999999999999999877654

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=97.12  E-value=0.00027  Score=60.16  Aligned_cols=27  Identities=19%  Similarity=0.139  Sum_probs=23.4

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      +++|.++.|+|+|||||||++..++..
T Consensus         3 i~~g~~i~l~G~~GsGKSTl~~~L~~~   29 (207)
T 2j41_A            3 NEKGLLIVLSGPSGVGKGTVRKRIFED   29 (207)
T ss_dssp             -CCCCEEEEECSTTSCHHHHHHHHHHC
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            568999999999999999999977654

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=97.12  E-value=0.0016  Score=58.98  Aligned_cols=42  Identities=14%  Similarity=0.063  Sum_probs=28.6

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeC
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDT  168 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~  168 (352)
                      ++.-+.|+||||+|||+++..++........  .....+++++.
T Consensus        66 ~~~~vll~G~~GtGKT~la~~la~~l~~~~~--~~~~~~~~~~~  107 (309)
T 3syl_A           66 PTLHMSFTGNPGTGKTTVALKMAGLLHRLGY--VRKGHLVSVTR  107 (309)
T ss_dssp             CCCEEEEEECTTSSHHHHHHHHHHHHHHTTS--SSSCCEEEECG
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHHhcCC--cCCCcEEEEcH
Confidence            4557999999999999999988766532100  02345677664

>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=97.12  E-value=0.0004  Score=57.90  Aligned_cols=39  Identities=18%  Similarity=0.026  Sum_probs=29.1

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeC
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDT  168 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~  168 (352)
                      ++|.++.|+|++||||||++..++.....      .+.++++++.
T Consensus         3 ~~g~~i~l~G~~GsGKST~~~~L~~~l~~------~g~~~i~~d~   41 (179)
T 2pez_A            3 MRGCTVWLTGLSGAGKTTVSMALEEYLVC------HGIPCYTLDG   41 (179)
T ss_dssp             -CCEEEEEECCTTSSHHHHHHHHHHHHHH------TTCCEEEEEH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHhh------CCCcEEEECC
Confidence            67999999999999999999988764321      2445666663

>1fx0_A ATP synthase alpha chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_A*

Probab=97.11  E-value=0.0024  Score=61.79  Aligned_cols=118  Identities=18%  Similarity=0.191  Sum_probs=70.5

Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHc
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERF  184 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~  184 (352)
                      .+.+.||+..+|-++  -+-+|+-..|+|++|+|||+|++....+...      .+..++|......  .+.+..+.+.+
T Consensus       144 ~epl~TGiraID~l~--PigrGQR~~Ifg~~g~GKT~Lal~~I~~~~~------~dv~~V~~~iGeR--~~Ev~~~~~~~  213 (507)
T 1fx0_A          144 YEPLQTGLIAIDAMI--PVGRGQRELIIGDRQTGKTAVATDTILNQQG------QNVICVYVAIGQK--ASSVAQVVTNF  213 (507)
T ss_dssp             CSBCCCSCTTTTTTS--CCBTTCBCBEEESSSSSHHHHHHHHHHTCCT------TTCEEEEEEESCC--HHHHHHHHHHT
T ss_pred             CCcccccceeccccc--ccccCCEEEEecCCCCCccHHHHHHHHHhhc------CCcEEEEEEcCCC--chHHHHHHHHH
Confidence            356999999999887  5779999999999999999998766555442      3456777765433  44556665554


Q ss_pred             CCCccccccc-EEEEecCCH---HHHH--HHHHHHHHHhhcCCc-eEEEEcccccch
Q 047388          185 GMDPGAVLDN-IIYARAYTY---EHQY--NLLLGLAAKMSEEPF-RLLIVDSVIALF  234 (352)
Q Consensus       185 ~~~~~~~~~~-i~~~~~~~~---~~~~--~~l~~l~~~l~~~~~-~lvvIDsl~~l~  234 (352)
                      .  ....+++ +.+....+.   .+..  ..-..+.+.+...+- -++++||++.+.
T Consensus       214 ~--~~g~m~rtvvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~Dsltr~A  268 (507)
T 1fx0_A          214 Q--ERGAMEYTIVVAETADSPATLQYLAPYTGAALAEYFMYRERHTLIIYDDLSKQA  268 (507)
T ss_dssp             G--GGTGGGSEEEEEECTTSCGGGTTHHHHHHHHHHHHHHHTTCEEEEEEECHHHHH
T ss_pred             H--hcCccccceEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEecHHHHH
Confidence            2  1223344 333322211   1111  111123333444444 466779988763

>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=97.11  E-value=0.0041  Score=53.35  Aligned_cols=25  Identities=24%  Similarity=0.097  Sum_probs=21.7

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhc
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQ  151 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~  151 (352)
                      ..+.|+|++|+|||+++..++....
T Consensus        46 ~~~ll~G~~G~GKT~l~~~~~~~~~   70 (250)
T 1njg_A           46 HAYLFSGTRGVGKTSIARLLAKGLN   70 (250)
T ss_dssp             SEEEEECSTTSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhc
Confidence            3899999999999999998876654

>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=97.11  E-value=0.00027  Score=61.36  Aligned_cols=29  Identities=17%  Similarity=0.192  Sum_probs=23.0

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .-.++|+++.|+||||||||||+..++..
T Consensus        11 ~~~~~G~ii~l~GpsGsGKSTLlk~L~g~   39 (219)
T 1s96_A           11 HHMAQGTLYIVSAPSGAGKSSLIQALLKT   39 (219)
T ss_dssp             ----CCCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             ccCCCCcEEEEECCCCCCHHHHHHHHhcc
Confidence            35789999999999999999999977654

>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=97.09  E-value=0.0025  Score=59.96  Aligned_cols=99  Identities=18%  Similarity=0.149  Sum_probs=55.5

Q ss_pred             CCcEEEE--ecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChh-hHHHHHHHcCCCcccccccEEEEecC
Q 047388          125 TGAITEA--FGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPD-RIVPIAERFGMDPGAVLDNIIYARAY  201 (352)
Q Consensus       125 ~G~i~~I--~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~-rl~~~~~~~~~~~~~~~~~i~~~~~~  201 (352)
                      .+..+.|  +|++|+|||+++..++..........+.+..++|++........ -+..++..++.....        ...
T Consensus        49 ~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~--------~~~  120 (412)
T 1w5s_A           49 SDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQTGYPIQV--------RGA  120 (412)
T ss_dssp             CCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHHHHHHHHHHHHTCCCCC--------TTC
T ss_pred             CCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCCCHHHHHHHHHHHhCCCCCC--------CCC
Confidence            4567888  99999999999998876543200000124578899864333332 344556666543210        011


Q ss_pred             CHHHHHHHHHHHHHHhh-cCCceEEEEcccccch
Q 047388          202 TYEHQYNLLLGLAAKMS-EEPFRLLIVDSVIALF  234 (352)
Q Consensus       202 ~~~~~~~~l~~l~~~l~-~~~~~lvvIDsl~~l~  234 (352)
                      +.....   ..+...+. ..++-+||||++..+.
T Consensus       121 ~~~~~~---~~l~~~l~~~~~~~llvlDe~~~l~  151 (412)
T 1w5s_A          121 PALDIL---KALVDNLYVENHYLLVILDEFQSML  151 (412)
T ss_dssp             CHHHHH---HHHHHHHHHHTCEEEEEEESTHHHH
T ss_pred             CHHHHH---HHHHHHHHhcCCeEEEEEeCHHHHh
Confidence            222222   22333332 2357799999998774

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=97.09  E-value=0.00053  Score=58.43  Aligned_cols=41  Identities=24%  Similarity=0.168  Sum_probs=31.9

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      .++|.++.|+|++||||||++..++.....      .++.+.+++..
T Consensus        19 ~~~~~~i~i~G~~GsGKstl~~~l~~~~~~------~~~~v~~~~~d   59 (201)
T 1rz3_A           19 TAGRLVLGIDGLSRSGKTTLANQLSQTLRE------QGISVCVFHMD   59 (201)
T ss_dssp             CSSSEEEEEEECTTSSHHHHHHHHHHHHHH------TTCCEEEEEGG
T ss_pred             cCCCeEEEEECCCCCCHHHHHHHHHHHHhh------cCCeEEEeccC
Confidence            567899999999999999999988765432      35667777554

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=97.08  E-value=0.003  Score=57.89  Aligned_cols=33  Identities=24%  Similarity=0.189  Sum_probs=27.0

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      |.++.|+|++|+|||+|+.+++...           +++|++..
T Consensus        31 ~~~v~i~G~~G~GKT~Ll~~~~~~~-----------~~~~~~~~   63 (350)
T 2qen_A           31 YPLTLLLGIRRVGKSSLLRAFLNER-----------PGILIDCR   63 (350)
T ss_dssp             CSEEEEECCTTSSHHHHHHHHHHHS-----------SEEEEEHH
T ss_pred             CCeEEEECCCcCCHHHHHHHHHHHc-----------CcEEEEee
Confidence            3699999999999999999887541           17888764

>2c61_A A-type ATP synthase non-catalytic subunit B; hydrolase, H+ ATPase, A1AO, ATP synthesis, hydrogen ION transport, ION transport; 1.5A {Methanosarcina mazei GO1} PDB: 3dsr_A* 3b2q_A* 2rkw_A* 3eiu_A*

Probab=97.08  E-value=0.0015  Score=62.64  Aligned_cols=123  Identities=14%  Similarity=0.139  Sum_probs=71.4

Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHc
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERF  184 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~  184 (352)
                      .+.+.||+..+|-++  -+-+|+-..|+|++|+|||+|+.++|.+......  +.+.-++|...-..  .+.+..+.+.+
T Consensus       133 ~e~l~TGir~ID~l~--pigrGQr~~Ifgg~G~GKt~Ll~~Ia~~~~~n~~--~~~~~~V~~~iGER--~~Ev~e~~~~~  206 (469)
T 2c61_A          133 KDFIQTGISTIDGTN--TLVRGQKLPIFSASGLPHNEIALQIARQASVPGS--ESAFAVVFAAMGIT--NEEAQYFMSDF  206 (469)
T ss_dssp             CSBCBCSCHHHHTTS--CCBTTCBCCEEECTTSCHHHHHHHHHHHCBCTTC--SSCEEEEEEEEEEC--HHHHHHHHHHH
T ss_pred             ccccceeeEeeeeee--ccccCCEEEEECCCCCCHHHHHHHHHHHHhhccC--CCCcEEEEEEccCC--cHHHHHHHHHH
Confidence            357999999999887  5778999999999999999999999987654210  01235666654322  33344444433


Q ss_pred             CCCccccccc-EEEEec-CCHH-HHHH---HHHHHHHHhh-cC-CceEEEEcccccchh
Q 047388          185 GMDPGAVLDN-IIYARA-YTYE-HQYN---LLLGLAAKMS-EE-PFRLLIVDSVIALFR  235 (352)
Q Consensus       185 ~~~~~~~~~~-i~~~~~-~~~~-~~~~---~l~~l~~~l~-~~-~~~lvvIDsl~~l~~  235 (352)
                      .  ....+++ +.+... ..+. ....   .-..+.+.+. +. +-=++++||++.+..
T Consensus       207 ~--~~g~m~rtvvV~~tsd~p~~~r~~~~~~a~tiAEyfrdd~G~dVLl~~DsltR~A~  263 (469)
T 2c61_A          207 E--KTGALERAVVFLNLADDPAVERIVTPRMALTAAEYLAYEHGMHVLVILTDITNYAE  263 (469)
T ss_dssp             H--HHSGGGGEEEEEEETTSCHHHHHHHHHHHHHHHHHHHHHHCCEEEEEEECHHHHHH
T ss_pred             H--hccCccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEeCHHHHHH
Confidence            1  1123344 333322 2221 1111   1112334444 23 344667899987754

>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=97.06  E-value=0.00033  Score=63.92  Aligned_cols=36  Identities=28%  Similarity=0.296  Sum_probs=29.3

Q ss_pred             hhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          114 ALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       114 ~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      .|+.+. =.+++|+++.|+||||||||||+..++...
T Consensus       115 vL~~vs-l~i~~Ge~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          115 ALKLWL-KGIPKKNCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             HHHHHH-HTCTTCSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             hhccce-EEecCCCEEEEECCCCCcHHHHHHHHhhhc
Confidence            344433 379999999999999999999999877653

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=97.06  E-value=0.00017  Score=62.21  Aligned_cols=27  Identities=41%  Similarity=0.415  Sum_probs=24.2

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      +++|+++.|.||+|||||||+..++..
T Consensus        19 i~~Ge~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           19 IDTNTIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             HHHCSEEEEECCTTSSTTHHHHHHHHH
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            588999999999999999999977654

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=97.01  E-value=0.0006  Score=57.18  Aligned_cols=39  Identities=31%  Similarity=0.254  Sum_probs=31.8

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeC
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDT  168 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~  168 (352)
                      .+|.++.|.|++||||||++..++.....      .+.++.+++.
T Consensus        11 ~~~~~i~l~G~~GsGKsT~~~~L~~~l~~------~~~~~~~~~~   49 (186)
T 2yvu_A           11 EKGIVVWLTGLPGSGKTTIATRLADLLQK------EGYRVEVLDG   49 (186)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHHHHHH------TTCCEEEEEH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHHHHh------cCCeEEEeeH
Confidence            57899999999999999999988876543      4566777764

>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=97.01  E-value=0.00058  Score=62.44  Aligned_cols=43  Identities=26%  Similarity=0.302  Sum_probs=32.4

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHhcC-CCccCCCCCeEEEEeCCC
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCTQL-PTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~~~-~~~~gg~~~~vl~i~~e~  170 (352)
                      ..+|+++.|+|++|||||||+..++..... |     ..+.+.+++..+
T Consensus        77 ~~~g~iigI~G~~GsGKSTl~~~L~~~l~~~~-----~~G~i~vi~~d~  120 (308)
T 1sq5_A           77 QRIPYIISIAGSVAVGKSTTARVLQALLSRWP-----EHRRVELITTDG  120 (308)
T ss_dssp             CCCCEEEEEEECTTSSHHHHHHHHHHHHTTST-----TCCCEEEEEGGG
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHhhCC-----CCCeEEEEecCC
Confidence            367899999999999999999977654331 2     356677776654

>3gqb_A V-type ATP synthase alpha chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_A* 3a5d_A 3j0j_A* 1um2_C

Probab=97.01  E-value=0.0025  Score=62.17  Aligned_cols=119  Identities=20%  Similarity=0.314  Sum_probs=70.9

Q ss_pred             cccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHH
Q 047388          104 AVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAER  183 (352)
Q Consensus       104 ~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~  183 (352)
                      ..+.+.||+..+|-++  -+-+|.-..|+|++|+|||+|+.+++.+..        ..-++|...-..  ...+..+.+.
T Consensus       201 ~~epl~TGirvID~l~--PigrGqr~~Ifg~~g~GKT~l~~~ia~~~~--------~~v~V~~~iGER--~~Ev~e~~~~  268 (578)
T 3gqb_A          201 PNTPFLTGMRILDVLF--PVAMGGTAAIPGPFGSGKSVTQQSLAKWSN--------ADVVVYVGSGER--GNEMTDVLVE  268 (578)
T ss_dssp             SCSEECCSCHHHHTTS--CEETTCEEEECCCTTSCHHHHHHHHHHHSS--------CSEEEEEEEEEC--HHHHHHHHTT
T ss_pred             CCCcccccchhhhhcc--cccCCCEEeeeCCCCccHHHHHHHHHhccC--------CCEEEEEEeccc--HHHHHHHHHH
Confidence            3467999999999877  577899999999999999999999876532        235666654332  4445555554


Q ss_pred             cCC--Cc---ccccccE-EEEec-CCHHH-HHH---HHHHHHHHhhcCCceE-EEEcccccch
Q 047388          184 FGM--DP---GAVLDNI-IYARA-YTYEH-QYN---LLLGLAAKMSEEPFRL-LIVDSVIALF  234 (352)
Q Consensus       184 ~~~--~~---~~~~~~i-~~~~~-~~~~~-~~~---~l~~l~~~l~~~~~~l-vvIDsl~~l~  234 (352)
                      +.-  ++   ...+++- .+... ..+.. ...   .-..+.+.+...+-++ +++||++.+.
T Consensus       269 ~~el~d~~~G~~~~~rtvvv~~tsd~p~~~R~~~~~~altiAEyfrd~G~dVLl~~Ds~tR~A  331 (578)
T 3gqb_A          269 FPELTDPKTGGPLMHRTVLIANTSNMPVAAREASIYVGVTIAEYFRDQGFSVALMADSTSRWA  331 (578)
T ss_dssp             GGGCBCTTTSSBSGGGEEEEEEETTSCHHHHHHHHHHHHHHHHHHHHTTCEEEECCSCHHHHH
T ss_pred             HHhhcccccccccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEecChHHHH
Confidence            421  11   2345553 33322 22221 111   1112334444455554 4569998654

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=97.00  E-value=0.00023  Score=73.08  Aligned_cols=116  Identities=18%  Similarity=0.206  Sum_probs=62.8

Q ss_pred             cCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHc-CCCcccccccEEEE
Q 047388          120 GGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERF-GMDPGAVLDNIIYA  198 (352)
Q Consensus       120 ~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~-~~~~~~~~~~i~~~  198 (352)
                      ..|+++..-++++||||+|||.++..+|...-         ..  |+....   +    .+...+ |-            
T Consensus       505 ~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~---------~~--f~~v~~---~----~l~s~~vGe------------  554 (806)
T 3cf2_A          505 KFGMTPSKGVLFYGPPGCGKTLLAKAIANECQ---------AN--FISIKG---P----ELLTMWFGE------------  554 (806)
T ss_dssp             SSCCCCCSCCEEESSTTSSHHHHHHHHHHTTT---------CE--EEECCH---H----HHHTTTCSS------------
T ss_pred             hcCCCCCceEEEecCCCCCchHHHHHHHHHhC---------Cc--eEEecc---c----hhhccccch------------
Confidence            35777777799999999999999998876532         22  333321   1    111111 11            


Q ss_pred             ecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCC-cchHHHHHHHHHHHHHHHHHHHHhCcEEEEE
Q 047388          199 RAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGR-GELADRQQKLGQMLSRLTKISEEFNVAVYMT  272 (352)
Q Consensus       199 ~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~-g~~~~r~~~l~~i~~~L~~la~~~~~~viv~  272 (352)
                          .+   ..+.++....+...+.+|+||++-++....-.+. ++.....+.+.+++..|..+....++.||.+
T Consensus       555 ----se---~~vr~lF~~Ar~~~P~IifiDEiDsl~~~R~~~~~~~~~~~~rv~~~lL~~mdg~~~~~~V~vi~a  622 (806)
T 3cf2_A          555 ----SE---ANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGA  622 (806)
T ss_dssp             ----CH---HHHHHHHHHHHTTCSEEEECSCGGGCC--------------CHHHHHHHHHHHSSCSSSSEEEECC
T ss_pred             ----HH---HHHHHHHHHHHHcCCceeechhhhHHhhccCCCCCCCchHHHHHHHHHHHHHhCCCCCCCEEEEEe
Confidence                11   1223333344556789999999999876421110 1111122345677777776655556555543

>3gqb_B V-type ATP synthase beta chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_D* 3a5d_D 3j0j_D*

Probab=96.99  E-value=0.0015  Score=62.42  Aligned_cols=126  Identities=13%  Similarity=0.135  Sum_probs=71.6

Q ss_pred             cccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCC----ccC-CCCCeEEEEeCCCCCChhhHH
Q 047388          104 AVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPT----NMR-GGNGKVAYIDTEGTFRPDRIV  178 (352)
Q Consensus       104 ~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~----~~g-g~~~~vl~i~~e~~~~~~rl~  178 (352)
                      ..+.+.||+..+|-++  -+-+|+-..|+|++|+|||+|+.+++.......    ..| +.+--++|...-..  .+.+.
T Consensus       127 ~~e~l~TGiraID~l~--pigrGQr~~Ifgg~G~GKt~L~~~Ia~~~~a~~~~~~~~~d~~~~~~V~~~iGeR--~~Ev~  202 (464)
T 3gqb_B          127 PEQFIQTGISTIDVMN--TLVRGQKLPIFSGSGLPANEIAAQIARQATVRPDLSGEGEKEEPFAVVFAAMGIT--QRELS  202 (464)
T ss_dssp             CCCBCBCSCHHHHTTS--CCBTTCBCCEEEETTSCHHHHHHHHHHHCBCCHHHHCCCSTTCCEEEEEEEEEEC--HHHHH
T ss_pred             ccccccCcceeeeccc--ccccCCEEEEecCCCCCchHHHHHHHHHHHhcccccccccCCCceEEEEEEecCc--hHHHH
Confidence            3467999999999887  577899999999999999999998877654310    000 12225666654322  33444


Q ss_pred             HHHHHcCCCccccccc-EEEEec-CCH--HHHHH--HHHHHHHHhhc-CCceEE-EEcccccchh
Q 047388          179 PIAERFGMDPGAVLDN-IIYARA-YTY--EHQYN--LLLGLAAKMSE-EPFRLL-IVDSVIALFR  235 (352)
Q Consensus       179 ~~~~~~~~~~~~~~~~-i~~~~~-~~~--~~~~~--~l~~l~~~l~~-~~~~lv-vIDsl~~l~~  235 (352)
                      .+.+.+.-  ...+++ +.+... ..+  .+...  .-..+.+.+.. .+-+++ ++|+++.+..
T Consensus       203 e~~~~l~~--~g~~~rtvvv~~t~d~p~~~r~~~~~~a~tiAEyfrd~~G~~VLl~~DdlTr~A~  265 (464)
T 3gqb_B          203 YFIQEFER--TGALSRSVLFLNKADDPTIERILTPRMALTVAEYLAFEHDYHVLVILTDMTNYSE  265 (464)
T ss_dssp             HHHHHHHH--TSGGGGEEEEEEETTSCTHHHHHHHHHHHHHHHHHHHTTCCEEEEEEETHHHHHH
T ss_pred             HHHHHhhh--cccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEcChHHHHH
Confidence            44444321  123344 333322 221  22111  11233445553 355655 5799987643

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=96.99  E-value=0.0011  Score=53.33  Aligned_cols=24  Identities=17%  Similarity=0.102  Sum_probs=20.3

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      +.-+.|.|+||+|||+++..++..
T Consensus        24 ~~~vll~G~~GtGKt~lA~~i~~~   47 (145)
T 3n70_A           24 DIAVWLYGAPGTGRMTGARYLHQF   47 (145)
T ss_dssp             CSCEEEESSTTSSHHHHHHHHHHS
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHh
Confidence            445899999999999999977654

>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=96.97  E-value=0.004  Score=55.40  Aligned_cols=27  Identities=26%  Similarity=0.063  Sum_probs=23.0

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -++..-+.|+||||+|||+++..++..
T Consensus        61 ~~~~~~vLl~G~~GtGKT~la~~ia~~   87 (272)
T 1d2n_A           61 RTPLVSVLLEGPPHSGKTALAAKIAEE   87 (272)
T ss_dssp             SCSEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCcHHHHHHHHHHH
Confidence            455567899999999999999988775

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=96.96  E-value=0.00038  Score=59.33  Aligned_cols=26  Identities=19%  Similarity=0.068  Sum_probs=21.1

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ++|.++.|+||||+|||||+..++..
T Consensus         2 ~~g~~i~lvGpsGaGKSTLl~~L~~~   27 (198)
T 1lvg_A            2 AGPRPVVLSGPSGAGKSTLLKKLFQE   27 (198)
T ss_dssp             ---CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            57899999999999999999987764

>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=96.94  E-value=0.00048  Score=59.08  Aligned_cols=26  Identities=19%  Similarity=0.174  Sum_probs=23.4

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ++|.++.|+||||+||||++..++..
T Consensus         6 ~~g~~i~l~GpsGsGKsTl~~~L~~~   31 (208)
T 3tau_A            6 ERGLLIVLSGPSGVGKGTVREAVFKD   31 (208)
T ss_dssp             CCCCEEEEECCTTSCHHHHHHHHHHS
T ss_pred             CCCcEEEEECcCCCCHHHHHHHHHhh
Confidence            57999999999999999999987754

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.93  E-value=0.00048  Score=58.62  Aligned_cols=37  Identities=24%  Similarity=0.302  Sum_probs=28.6

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT  171 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~  171 (352)
                      ++|.++.|+|+|||||||++..++...           +.+++++..-
T Consensus        27 ~~g~~i~l~G~~GsGKSTl~~~L~~~~-----------g~~~i~~d~~   63 (200)
T 4eun_A           27 EPTRHVVVMGVSGSGKTTIAHGVADET-----------GLEFAEADAF   63 (200)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHH-----------CCEEEEGGGG
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHhh-----------CCeEEccccc
Confidence            579999999999999999999887542           2467776543

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=96.93  E-value=0.00028  Score=61.55  Aligned_cols=25  Identities=28%  Similarity=0.243  Sum_probs=19.2

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHH
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la  147 (352)
                      +++|+++.|+||+||||||++..++
T Consensus        24 v~~G~ii~l~Gp~GsGKSTl~~~L~   48 (231)
T 3lnc_A           24 KSVGVILVLSSPSGCGKTTVANKLL   48 (231)
T ss_dssp             EECCCEEEEECSCC----CHHHHHH
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHH
Confidence            6789999999999999999999776

>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=96.93  E-value=0.0082  Score=54.74  Aligned_cols=35  Identities=23%  Similarity=0.333  Sum_probs=27.7

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      .++.++||||+|||+++..++...         +..+++++...
T Consensus        49 ~~~L~~G~~G~GKT~la~~la~~l---------~~~~~~i~~~~   83 (324)
T 3u61_B           49 HIILHSPSPGTGKTTVAKALCHDV---------NADMMFVNGSD   83 (324)
T ss_dssp             SEEEECSSTTSSHHHHHHHHHHHT---------TEEEEEEETTT
T ss_pred             eEEEeeCcCCCCHHHHHHHHHHHh---------CCCEEEEcccc
Confidence            578999999999999999887653         45678887543

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.93  E-value=0.0028  Score=58.23  Aligned_cols=40  Identities=23%  Similarity=0.206  Sum_probs=29.2

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT  171 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~  171 (352)
                      ++.|.|++|||||||+..++......+    .++.+.+++.++-
T Consensus        94 iigI~GpsGSGKSTl~~~L~~ll~~~~----~~~~v~~i~~D~f  133 (321)
T 3tqc_A           94 IIGIAGSVAVGKSTTSRVLKALLSRWP----DHPNVEVITTDGF  133 (321)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTTST----TCCCEEEEEGGGG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhcccC----CCCeEEEEeeccc
Confidence            899999999999999997765433200    2456777877653

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.89  E-value=0.00051  Score=60.52  Aligned_cols=28  Identities=14%  Similarity=0.093  Sum_probs=23.8

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++|.++.|.||+|||||||+..++..
T Consensus        21 ~i~~g~iigI~G~~GsGKSTl~k~L~~~   48 (245)
T 2jeo_A           21 QSMRPFLIGVSGGTASGKSTVCEKIMEL   48 (245)
T ss_dssp             --CCSEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cCCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            5788999999999999999999987664

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=96.88  E-value=0.0014  Score=61.40  Aligned_cols=58  Identities=10%  Similarity=0.020  Sum_probs=45.2

Q ss_pred             cccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          106 IKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       106 ~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      +.+.||+..+|-++  -+-+|+-..|+|++|+|||+|+.+++.++...    +.+-.|+|....
T Consensus       157 e~~~tGiraID~l~--PigrGQR~lIfg~~g~GKT~Ll~~Ia~~i~~~----~~dv~~V~~lIG  214 (427)
T 3l0o_A          157 DPKIYSTRLIDLFA--PIGKGQRGMIVAPPKAGKTTILKEIANGIAEN----HPDTIRIILLID  214 (427)
T ss_dssp             STTCHHHHHHHHHS--CCBTTCEEEEEECTTCCHHHHHHHHHHHHHHH----CTTSEEEEEECS
T ss_pred             cchhccchhhhhcc--cccCCceEEEecCCCCChhHHHHHHHHHHhhc----CCCeEEEEEEec
Confidence            46789999999887  46689999999999999999999888765431    023456776554

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=96.88  E-value=0.00053  Score=58.66  Aligned_cols=37  Identities=19%  Similarity=0.197  Sum_probs=31.1

Q ss_pred             ChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          112 SQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       112 ~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      +..|...+. |+|+...++|+||||+|||++|+.++..
T Consensus        45 ~~~l~~~~~-~iPkkn~ili~GPPGtGKTt~a~ala~~   81 (212)
T 1tue_A           45 LGALKSFLK-GTPKKNCLVFCGPANTGKSYFGMSFIHF   81 (212)
T ss_dssp             HHHHHHHHH-TCTTCSEEEEESCGGGCHHHHHHHHHHH
T ss_pred             HHHHHHHHh-cCCcccEEEEECCCCCCHHHHHHHHHHH
Confidence            556777774 6998888999999999999999988765

>2ck3_A ATP synthase subunit alpha\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A* 1ohh_A* 1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2wss_A* 2w6j_A 2w6e_A 2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* ...

Probab=96.87  E-value=0.0045  Score=59.90  Aligned_cols=125  Identities=16%  Similarity=0.173  Sum_probs=69.6

Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccC--CCCCeEEEEeCCCCCChhhHHHHHH
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMR--GGNGKVAYIDTEGTFRPDRIVPIAE  182 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~g--g~~~~vl~i~~e~~~~~~rl~~~~~  182 (352)
                      .+.+.||+..+|-++  -+-+|+-..|+|++|+|||+|++....+......-+  ..+..|+|......  .+.+..+.+
T Consensus       143 ~epl~TGiraID~l~--PigrGQR~~I~g~~g~GKT~Lal~~I~~q~~~~~~~~~~~d~~~V~~~IGeR--~~Ev~~~~~  218 (510)
T 2ck3_A          143 REPMQTGIKAVDSLV--PIGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQK--RSTVAQLVK  218 (510)
T ss_dssp             CSBCCCSCHHHHHHS--CCBTTCBCEEEESTTSSHHHHHHHHHHHTHHHHTSCCTTTCCEEEEEEESCC--HHHHHHHHH
T ss_pred             Cccccccceeecccc--ccccCCEEEEecCCCCCchHHHHHHHHHHHhhccccccCCCeEEEEEECCCC--cHHHHHHHH
Confidence            457999999999987  577999999999999999999765554433200000  02335777765433  444555444


Q ss_pred             HcCCCccccccc-EEEEecCC-HH-HHHH---HHHHHHHHhhcCCc-eEEEEcccccchh
Q 047388          183 RFGMDPGAVLDN-IIYARAYT-YE-HQYN---LLLGLAAKMSEEPF-RLLIVDSVIALFR  235 (352)
Q Consensus       183 ~~~~~~~~~~~~-i~~~~~~~-~~-~~~~---~l~~l~~~l~~~~~-~lvvIDsl~~l~~  235 (352)
                      .+.-  ...+++ +.+....+ +. ....   .-..+.+.+...+- -++++||++.+..
T Consensus       219 ~~~~--~g~m~~tvvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~Dsltr~A~  276 (510)
T 2ck3_A          219 RLTD--ADAMKYTIVVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAV  276 (510)
T ss_dssp             HHHH--TTCGGGEEEEEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEETHHHHHH
T ss_pred             HHHh--cCCcccceEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEcCHHHHHH
Confidence            3310  122344 33333222 11 1111   11123344444444 4667899987754

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.86  E-value=0.00056  Score=58.51  Aligned_cols=26  Identities=31%  Similarity=0.284  Sum_probs=22.6

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ++|+++.|.|++|||||||+..++..
T Consensus         4 ~~~~~i~i~G~~GsGKSTl~~~l~~~   29 (211)
T 3asz_A            4 PKPFVIGIAGGTASGKTTLAQALART   29 (211)
T ss_dssp             -CCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHH
Confidence            57899999999999999999977654

>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=96.84  E-value=0.00065  Score=57.01  Aligned_cols=28  Identities=32%  Similarity=0.445  Sum_probs=24.7

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      |.+.+.++.|+|+|||||||++..++..
T Consensus         1 ~~~~~~~I~l~G~~GsGKST~~~~L~~~   28 (193)
T 2rhm_A            1 GMQTPALIIVTGHPATGKTTLSQALATG   28 (193)
T ss_dssp             CCSCCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            5677889999999999999999988764

>3iqw_A Tail-anchored protein targeting factor GET3; ATPase, Zn binding, protein transport; HET: ANP; 3.00A {Chaetomium thermophilum} PDB: 3iqx_A* 3ibg_A*

Probab=96.81  E-value=0.0088  Score=55.21  Aligned_cols=49  Identities=18%  Similarity=0.107  Sum_probs=39.5

Q ss_pred             hhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          114 ALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       114 ~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      .|+.++.+.  .-.++.+.|..|+||||++.++|...+.      .+.+|+.+|++.
T Consensus         6 ~l~~~l~~~--~~~i~~~sgkGGvGKTt~a~~lA~~la~------~g~~vllid~D~   54 (334)
T 3iqw_A            6 TLQSILDQR--SLRWIFVGGKGGVGKTTTSCSLAIQLAK------VRRSVLLLSTDP   54 (334)
T ss_dssp             SSHHHHHCT--TCCEEEEECSTTSSHHHHHHHHHHHHTT------SSSCEEEEECCS
T ss_pred             cHHHHhcCC--CeEEEEEeCCCCccHHHHHHHHHHHHHh------CCCcEEEEECCC
Confidence            455556432  3468899999999999999999988876      688999999984

>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=96.81  E-value=0.00069  Score=62.07  Aligned_cols=45  Identities=20%  Similarity=0.154  Sum_probs=32.9

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT  171 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~  171 (352)
                      +++|+++.|.|++|||||||+..++.....  ..|  ...+.|+..+..
T Consensus        87 ~~~g~ivgI~G~sGsGKSTL~~~L~gll~~--~~G--~~~v~~v~qd~~  131 (312)
T 3aez_A           87 RPVPFIIGVAGSVAVGKSTTARVLQALLAR--WDH--HPRVDLVTTDGF  131 (312)
T ss_dssp             SCCCEEEEEECCTTSCHHHHHHHHHHHHHT--STT--CCCEEEEEGGGG
T ss_pred             CCCCEEEEEECCCCchHHHHHHHHHhhccc--cCC--CCeEEEEecCcc
Confidence            689999999999999999999977654332  111  145777776544

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.81  E-value=0.0014  Score=59.17  Aligned_cols=26  Identities=27%  Similarity=0.143  Sum_probs=22.5

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ..+.++.|+|+|||||||++..++..
T Consensus        31 ~~~~livl~G~sGsGKSTla~~L~~~   56 (287)
T 1gvn_B           31 ESPTAFLLGGQPGSGKTSLRSAIFEE   56 (287)
T ss_dssp             SSCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            34679999999999999999988754

>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=96.79  E-value=0.0058  Score=60.31  Aligned_cols=98  Identities=15%  Similarity=0.147  Sum_probs=55.0

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHH--HhcCCCccCCCCCeEEEEeCCCCC--Ch-hhHHHHHHHcCCCcc-cccccEEEE
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCV--CTQLPTNMRGGNGKVAYIDTEGTF--RP-DRIVPIAERFGMDPG-AVLDNIIYA  198 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~--~~~~~~~~gg~~~~vl~i~~e~~~--~~-~rl~~~~~~~~~~~~-~~~~~i~~~  198 (352)
                      ...++.|+|..|+||||||.+++.  .....    ..-..++|++.....  +. .-+..+++.++.... ....+   .
T Consensus       151 ~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~----~~F~~~~wv~vs~~~~~~~~~~~~~il~~l~~~~~~~~~~~---~  223 (549)
T 2a5y_B          151 DSFFLFLHGRAGSGKSVIASQALSKSDQLIG----INYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPS---V  223 (549)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHCSSTBT----TTBSEEEEEECCCCSTTHHHHHHHHHHHHHTTTSCCTTCCC---C
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHhhhHHHh----ccCCcEEEEEECCCCCCCHHHHHHHHHHHHhcCcccccccc---c
Confidence            457999999999999999998774  11111    133578899876542  22 334556666664321 00010   0


Q ss_pred             ecCCHHHHHHHHHHHHHHhhcCCceEEEEccccc
Q 047388          199 RAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIA  232 (352)
Q Consensus       199 ~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~  232 (352)
                      ...+..   .+...+...+...+--+||+|.+..
T Consensus       224 ~~~~~~---~l~~~l~~~L~~~kr~LlVLDdv~~  254 (549)
T 2a5y_B          224 EHVTSV---VLKRMICNALIDRPNTLFVFDDVVQ  254 (549)
T ss_dssp             TTCCHH---HHHHHHHHHHTTSTTEEEEEEEECC
T ss_pred             ccccHH---HHHHHHHHHHcCCCcEEEEEECCCC
Confidence            111122   2233444455443356899998754

>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane protein; HET: ADP; 2.11A {Methanothermobacter thermautotrophicusorganism_taxid}

Probab=96.78  E-value=0.0057  Score=56.17  Aligned_cols=38  Identities=18%  Similarity=0.125  Sum_probs=34.4

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      .++.+.|..|+||||++.++|...+.      .+.+|+.+|++.
T Consensus        15 ~i~v~sgKGGvGKTTvA~~LA~~lA~------~G~rVLlvD~D~   52 (324)
T 3zq6_A           15 TFVFIGGKGGVGKTTISAATALWMAR------SGKKTLVISTDP   52 (324)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHHH------TTCCEEEEECCS
T ss_pred             EEEEEeCCCCchHHHHHHHHHHHHHH------CCCcEEEEeCCC
Confidence            68889999999999999999998876      688999999985

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.78  E-value=0.00075  Score=57.34  Aligned_cols=29  Identities=17%  Similarity=0.060  Sum_probs=23.5

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      -+++|.++.|+|+|||||||++..++...
T Consensus        21 ~~~~~~~i~l~G~~GsGKsTl~~~La~~l   49 (199)
T 3vaa_A           21 QSNAMVRIFLTGYMGAGKTTLGKAFARKL   49 (199)
T ss_dssp             ---CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ecCCCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            35688999999999999999999887653

>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=96.77  E-value=0.00076  Score=55.81  Aligned_cols=26  Identities=23%  Similarity=0.192  Sum_probs=22.7

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .+|.++.|+|+|||||||++..++..
T Consensus         6 ~~g~~i~l~G~~GsGKSTl~~~l~~~   31 (175)
T 1knq_A            6 HDHHIYVLMGVSGSGKSAVASEVAHQ   31 (175)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHh
Confidence            46889999999999999999987653

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=96.76  E-value=0.009  Score=54.79  Aligned_cols=22  Identities=27%  Similarity=0.125  Sum_probs=19.6

Q ss_pred             EEEEecCCCCChhHHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .+.|+||||+|||+++..++..
T Consensus        57 ~vll~G~~GtGKT~la~~ia~~   78 (338)
T 3pfi_A           57 HILFSGPAGLGKTTLANIISYE   78 (338)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEECcCCCCHHHHHHHHHHH
Confidence            4799999999999999988665

>3llm_A ATP-dependent RNA helicase A; alpha-beta-alpha, structural genomics, structural genomics consortium, SGC, activator, ATP-binding, DNA-binding; HET: ADP; 2.80A {Homo sapiens}

Probab=96.75  E-value=0.0056  Score=53.30  Aligned_cols=44  Identities=9%  Similarity=0.117  Sum_probs=28.4

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      .|+.+.+.|++|||||+++..++......... +.+.++++....
T Consensus        75 ~g~~~~i~g~TGsGKTt~~~~~~~~~~~~~~~-~~~~~~l~~~p~  118 (235)
T 3llm_A           75 QNSVVIIRGATGCGKTTQVPQFILDDFIQNDR-AAECNIVVTQPR  118 (235)
T ss_dssp             HCSEEEEECCTTSSHHHHHHHHHHHHHHHTTC-GGGCEEEEEESS
T ss_pred             cCCEEEEEeCCCCCcHHhHHHHHhcchhhcCC-CCceEEEEeccc
Confidence            46899999999999998776665543321100 013367776654

>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=96.73  E-value=0.0015  Score=62.35  Aligned_cols=45  Identities=13%  Similarity=0.084  Sum_probs=33.1

Q ss_pred             hHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeC
Q 047388          115 LDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDT  168 (352)
Q Consensus       115 LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~  168 (352)
                      |..++   ..+|+++.|+||+|||||||+..++.....      ..+.++++..
T Consensus       159 L~~l~---~~~ggii~I~GpnGSGKTTlL~allg~l~~------~~g~I~~~ed  203 (418)
T 1p9r_A          159 FRRLI---KRPHGIILVTGPTGSGKSTTLYAGLQELNS------SERNILTVED  203 (418)
T ss_dssp             HHHHH---TSSSEEEEEECSTTSCHHHHHHHHHHHHCC------TTSCEEEEES
T ss_pred             HHHHH---HhcCCeEEEECCCCCCHHHHHHHHHhhcCC------CCCEEEEecc
Confidence            44444   368999999999999999999987665432      3456776653

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=96.73  E-value=0.0016  Score=55.26  Aligned_cols=37  Identities=19%  Similarity=0.055  Sum_probs=30.1

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      ..+.|+|++|+|||+|+..++.....      .+.+++|++..
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~~~~------~~~~~~~~~~~   91 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANELAK------RNVSSLIVYVP   91 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHT------TTCCEEEEEHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHH------cCCeEEEEEhH
Confidence            57899999999999999988876654      46678888653

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=96.73  E-value=0.0048  Score=56.49  Aligned_cols=106  Identities=12%  Similarity=-0.022  Sum_probs=58.9

Q ss_pred             hHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCC-CCeEEEEeCCCCCCh-hhHHHHHHHcCCCccccc
Q 047388          115 LDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGG-NGKVAYIDTEGTFRP-DRIVPIAERFGMDPGAVL  192 (352)
Q Consensus       115 LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~-~~~vl~i~~e~~~~~-~rl~~~~~~~~~~~~~~~  192 (352)
                      |...+.+|  ++..+.|+||||+|||+++..++.........++. .-.++|+++....++ ..+..+++++.-.     
T Consensus        36 L~~~i~~~--~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~~I~~~L~g~-----  108 (318)
T 3te6_A           36 IYDSLMSS--QNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEKIWFAISKE-----  108 (318)
T ss_dssp             HHHHHHTT--CCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHHHHHHHHSCC-----
T ss_pred             HHHHhcCC--CCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHHHHHHHhcCC-----
Confidence            44455454  56678999999999999999888766432111111 347889987654343 3345566655211     


Q ss_pred             ccEEEEecCCHHHHHHHHHHHHHHh--hcCCceEEEEcccccch
Q 047388          193 DNIIYARAYTYEHQYNLLLGLAAKM--SEEPFRLLIVDSVIALF  234 (352)
Q Consensus       193 ~~i~~~~~~~~~~~~~~l~~l~~~l--~~~~~~lvvIDsl~~l~  234 (352)
                       +.  .......    .+..+...+  ....+-+|++|++..+.
T Consensus       109 -~~--~~~~~~~----~L~~~f~~~~~~~~~~~ii~lDE~d~l~  145 (318)
T 3te6_A          109 -NL--CGDISLE----ALNFYITNVPKAKKRKTLILIQNPENLL  145 (318)
T ss_dssp             -C----CCCCHH----HHHHHHHHSCGGGSCEEEEEEECCSSSC
T ss_pred             -CC--CchHHHH----HHHHHHHHhhhccCCceEEEEecHHHhh
Confidence             11  1111122    222222222  23456788999998774

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=96.72  E-value=0.00059  Score=65.96  Aligned_cols=28  Identities=32%  Similarity=0.432  Sum_probs=24.6

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++|+++.|.||+|||||||+..++..
T Consensus       134 ~i~~Ge~v~IvGpnGsGKSTLlr~L~Gl  161 (460)
T 2npi_A          134 SNFEGPRVVIVGGSQTGKTSLSRTLCSY  161 (460)
T ss_dssp             HSSSCCCEEEEESTTSSHHHHHHHHHHT
T ss_pred             EeCCCCEEEEECCCCCCHHHHHHHHhCc
Confidence            3679999999999999999999977654

>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=96.71  E-value=0.012  Score=54.42  Aligned_cols=25  Identities=24%  Similarity=0.097  Sum_probs=21.7

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhc
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQ  151 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~  151 (352)
                      ..+.|+||+|+|||+++..++....
T Consensus        39 ~~~ll~G~~G~GKT~la~~la~~l~   63 (373)
T 1jr3_A           39 HAYLFSGTRGVGKTSIARLLAKGLN   63 (373)
T ss_dssp             SEEEEESCTTSSHHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3789999999999999998877654

>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=96.71  E-value=0.005  Score=55.80  Aligned_cols=22  Identities=27%  Similarity=0.080  Sum_probs=20.1

Q ss_pred             EEEecCCCCChhHHHHHHHHHh
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      +.|+||+|+|||+++..++...
T Consensus        45 ~ll~G~~G~GKt~la~~l~~~l   66 (323)
T 1sxj_B           45 MIISGMPGIGKTTSVHCLAHEL   66 (323)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHh
Confidence            8999999999999999888764

>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=96.68  E-value=0.00074  Score=56.70  Aligned_cols=23  Identities=17%  Similarity=0.161  Sum_probs=20.9

Q ss_pred             CcEEEEecCCCCChhHHHHHHHH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      |+++.|+|+|||||||++..++.
T Consensus         2 g~ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            2 KKLYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHhc
Confidence            67899999999999999998864

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=96.68  E-value=0.0014  Score=60.77  Aligned_cols=42  Identities=17%  Similarity=0.079  Sum_probs=32.3

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      -+.+|.++.|.|+||+|||||+..++.....      .++++.+++.+
T Consensus        51 ~~~~g~~v~i~G~~GaGKSTLl~~l~g~~~~------~~g~v~i~~~d   92 (337)
T 2qm8_A           51 QTGRAIRVGITGVPGVGKSTTIDALGSLLTA------AGHKVAVLAVD   92 (337)
T ss_dssp             GCCCSEEEEEECCTTSCHHHHHHHHHHHHHH------TTCCEEEEEEC
T ss_pred             ccCCCeEEEEECCCCCCHHHHHHHHHHhhhh------CCCEEEEEEEc
Confidence            3567999999999999999999988765433      45667766543

>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine kinase domain, signaling protein, transferase, inner membrane, membrane; 2.50A {Escherichia coli}

Probab=96.67  E-value=0.011  Score=53.74  Aligned_cols=40  Identities=30%  Similarity=0.328  Sum_probs=33.9

Q ss_pred             CCcEEEEecC-CCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          125 TGAITEAFGE-FRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       125 ~G~i~~I~G~-~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      .+.++.|++. +|+||||++.++|...+.      .+.+|+.||.+.
T Consensus       103 ~~kvI~vts~kgG~GKTtva~nLA~~lA~------~G~rVLLID~D~  143 (299)
T 3cio_A          103 ENNILMITGATPDSGKTFVSSTLAAVIAQ------SDQKVLFIDADL  143 (299)
T ss_dssp             SCCEEEEEESSSSSCHHHHHHHHHHHHHH------TTCCEEEEECCT
T ss_pred             CCeEEEEECCCCCCChHHHHHHHHHHHHh------CCCcEEEEECCC
Confidence            4567888875 899999999999998876      678999999885

>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=96.67  E-value=0.00097  Score=56.87  Aligned_cols=28  Identities=32%  Similarity=0.163  Sum_probs=24.2

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      --+++|.++.|+|+|||||||++..++.
T Consensus        16 ~~~~~~~~i~i~G~~GsGKSTl~~~L~~   43 (207)
T 2qt1_A           16 PRGSKTFIIGISGVTNSGKTTLAKNLQK   43 (207)
T ss_dssp             CCSCCCEEEEEEESTTSSHHHHHHHHHT
T ss_pred             ccCCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3567899999999999999999997753

>3gfk_B DNA-directed RNA polymerase subunit alpha; protein-protein complex, cytoplasm, redox-active center, stress response, transcription; 2.30A {Bacillus subtilis} SCOP: a.60.3.1

Probab=96.67  E-value=0.002  Score=45.96  Aligned_cols=56  Identities=21%  Similarity=0.312  Sum_probs=47.4

Q ss_pred             hhhcHHHHHhCCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHH
Q 047388           27 LFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAE   85 (352)
Q Consensus        27 ~~~~~~~l~~~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~   85 (352)
                      +.++|+.   .+|++.....|+++||.|+.+++..+..+|.++.++....+.+|.+...
T Consensus        14 l~~~Ie~---L~LS~Ra~NcLk~agI~Tv~dL~~~se~dLlki~n~G~kSl~EI~~~L~   69 (79)
T 3gfk_B           14 LEMTIEE---LDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKAKLE   69 (79)
T ss_dssp             GGCBGGG---SCCBHHHHHHHHHTTCCBHHHHTTCCHHHHTTSTTCHHHHHHHHHHHHH
T ss_pred             hcCcHHH---hCCCHHHHHHHHHhCCCCHHHHHhCCHHHHHHcCCCCHhHHHHHHHHHH
Confidence            3445544   5899999999999999999999999999999999999887777765544

>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase; HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP: c.37.1.20 PDB: 1s9h_A

Probab=96.66  E-value=0.0084  Score=53.33  Aligned_cols=107  Identities=17%  Similarity=0.138  Sum_probs=61.3

Q ss_pred             HHHHHHHHcCCCchhhhhcCChhhHHhhh--CCCHHHHHHHHHHHHHHhhcCCCchhhhHHhh-----------------
Q 047388           42 GDVKKLQDAGIYTCNGLMMHTKKHLTGIK--GLSEAKVEKICEAAEKIVNFGYITGSDALLRR-----------------  102 (352)
Q Consensus        42 ~~~~~l~~~g~~t~~~~~~~~~~~l~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------  102 (352)
                      ..++-+-++|+.+-++++..++..-...+  .-....+.+++..++.... .-.++.+.....                 
T Consensus         3 ~mVqw~~d~~i~~e~~~~~~~~d~~~a~l~~~~~~~~vk~~~~m~r~~~~-~~~s~~~~i~~~~~~~~~~~n~i~~~l~~   81 (267)
T 1u0j_A            3 ELVGWLVDKGITSEKQWIQEDQASYISFNAASNSRSQIKAALDNAGKIMS-LTKTAPDYLVGQQPVEDISSNRIYKILEL   81 (267)
T ss_dssp             HHHHHHHHHTCCSHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHH-HHCCHHHHHSCSSCCSCGGGCHHHHHHHH
T ss_pred             HHHHHHHHcCCCCHHHHHhcCHHHHHHHhhcccchhHHHHHHHHHHHHHH-ccCCHHHHhcccCCCCCCchHHHHHHHHH
Confidence            45677889999999998866665333222  2234445555555554431 111222221110                 


Q ss_pred             hcccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          103 KAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       103 ~~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      .....+.. ...|...+.|..++...+.|+||||+|||.|+..+|...
T Consensus        82 qg~~~~~~-~~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~~  128 (267)
T 1u0j_A           82 NGYDPQYA-ASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             TTCCHHHH-HHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             cCCCHHHH-HHHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhhh
Confidence            11111111 112455565655777889999999999999999887653

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=96.65  E-value=0.01  Score=57.02  Aligned_cols=23  Identities=26%  Similarity=0.280  Sum_probs=20.4

Q ss_pred             cEEEEecCCCCChhHHHHHHHHH
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ..+.|+||||+|||+++..++..
T Consensus        51 ~~vLL~GppGtGKTtlAr~ia~~   73 (447)
T 3pvs_A           51 HSMILWGPPGTGKTTLAEVIARY   73 (447)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHH
Confidence            45899999999999999988765

>2iut_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- cell division, DNA translocation, KOPS, membrane; HET: DNA SAP; 2.25A {Pseudomonas aeruginosa} PDB: 2iuu_A*

Probab=96.64  E-value=0.0092  Score=58.76  Aligned_cols=43  Identities=14%  Similarity=0.118  Sum_probs=30.7

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      +-=++|+|.+|||||+++..++..++.....  ..-+++.||..+
T Consensus       214 ~pHlLIaG~TGSGKS~~L~tlI~sLl~~~sP--~ev~lilIDpKg  256 (574)
T 2iut_A          214 MPHLLVAGTTGSGKSVGVNAMLLSILFKSTP--SEARLIMIDPKM  256 (574)
T ss_dssp             SCCEEEECCTTSSHHHHHHHHHHHHHTTCCT--TTEEEEEECSSS
T ss_pred             CCeeEEECCCCCCHHHHHHHHHHHHHHhCCC--cceEEEEeCCCh
Confidence            4457999999999999999988876642110  234566677664

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.63  E-value=0.00095  Score=55.00  Aligned_cols=25  Identities=16%  Similarity=0.181  Sum_probs=21.7

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHH
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .|.++.|+|+|||||||++..++..
T Consensus         3 ~~~~i~l~G~~GsGKSTl~~~La~~   27 (173)
T 1kag_A            3 EKRNIFLVGPMGAGKSTIGRQLAQQ   27 (173)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHH
Confidence            3678999999999999999987654

>1z3e_B DNA-directed RNA polymerase alpha chain; bacterial transcription regulation, disulfide stress; 1.50A {Bacillus subtilis} SCOP: a.60.3.1 PDB: 3ihq_B

Probab=96.57  E-value=0.0056  Score=43.06  Aligned_cols=52  Identities=19%  Similarity=0.286  Sum_probs=46.1

Q ss_pred             HhCCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHHH
Q 047388           35 ISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEK   86 (352)
Q Consensus        35 ~~~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~   86 (352)
                      ...+|++.....|+++||+|+.|++..+..+|.++.++..+.+.++.+...+
T Consensus        12 e~L~LS~Ra~NcLkragI~Tv~dL~~~s~~dLlki~n~G~kSl~EI~~~L~~   63 (73)
T 1z3e_B           12 EELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKAKLEE   63 (73)
T ss_dssp             GGSCCBHHHHHHHHHTTCCBHHHHHTSCHHHHHTSTTCCHHHHHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHcCCCcHHHHHcCCHHHHHHcCCCCHHHHHHHHHHHHH
Confidence            4468999999999999999999999999999999999999888777665543

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.54  E-value=0.0013  Score=56.00  Aligned_cols=28  Identities=14%  Similarity=-0.002  Sum_probs=24.3

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ..+|.++.|+|+|||||||++..++...
T Consensus         9 ~~~~~~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A            9 MARIPPLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CCCCCCEEEECCTTSCHHHHHHHHHHHC
T ss_pred             cccCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            4578899999999999999999887653

>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=96.51  E-value=0.0015  Score=61.35  Aligned_cols=29  Identities=31%  Similarity=0.143  Sum_probs=26.1

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -++++|+++.|.||||+|||||+..++..
T Consensus       164 ~~i~~~~~i~l~G~~GsGKSTl~~~l~~~  192 (377)
T 1svm_A          164 YNIPKKRYWLFKGPIDSGKTTLAAALLEL  192 (377)
T ss_dssp             HCCTTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cccCCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            38999999999999999999999987753

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=96.51  E-value=0.0012  Score=61.66  Aligned_cols=39  Identities=26%  Similarity=0.343  Sum_probs=29.0

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeC
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDT  168 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~  168 (352)
                      +++|+++.|+|++|||||||+..++..  .+     ...+.+.++.
T Consensus       172 i~~G~~i~ivG~sGsGKSTll~~l~~~--~~-----~~~g~I~ie~  210 (361)
T 2gza_A          172 VQLERVIVVAGETGSGKTTLMKALMQE--IP-----FDQRLITIED  210 (361)
T ss_dssp             HHTTCCEEEEESSSSCHHHHHHHHHTT--SC-----TTSCEEEEES
T ss_pred             HhcCCEEEEECCCCCCHHHHHHHHHhc--CC-----CCceEEEECC
Confidence            568999999999999999999976543  22     2345566653

>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=96.50  E-value=0.0018  Score=55.54  Aligned_cols=41  Identities=22%  Similarity=0.030  Sum_probs=30.6

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeC
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDT  168 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~  168 (352)
                      +++|.++.|.|++||||||++..++......     .+.++++++.
T Consensus        22 ~~~~~~i~~~G~~GsGKsT~~~~l~~~l~~~-----~g~~~~~~~~   62 (211)
T 1m7g_A           22 NQRGLTIWLTGLSASGKSTLAVELEHQLVRD-----RRVHAYRLDG   62 (211)
T ss_dssp             TSSCEEEEEECSTTSSHHHHHHHHHHHHHHH-----HCCCEEEECH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHHHhccc-----cCCcEEEECC
Confidence            5678999999999999999999887654310     2334777763

>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=96.50  E-value=0.0016  Score=55.50  Aligned_cols=26  Identities=12%  Similarity=0.160  Sum_probs=23.2

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .+|.++.|+||||+|||||+..++..
T Consensus        17 ~~g~~ivl~GPSGaGKsTL~~~L~~~   42 (197)
T 3ney_A           17 QGRKTLVLIGASGVGRSHIKNALLSQ   42 (197)
T ss_dssp             CSCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCCEEEEECcCCCCHHHHHHHHHhh
Confidence            36899999999999999999988765

>3bfv_A CAPA1, CAPB2, membrane protein CAPA1, protein tyrosine kinase; chimerical protein, P-loop protein, capsule biogenesis/degradation; HET: ADP; 1.80A {Staphylococcus aureus} PDB: 2ved_A*

Probab=96.47  E-value=0.022  Score=50.87  Aligned_cols=41  Identities=20%  Similarity=0.123  Sum_probs=34.0

Q ss_pred             CCcEEEEecC-CCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC
Q 047388          125 TGAITEAFGE-FRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT  171 (352)
Q Consensus       125 ~G~i~~I~G~-~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~  171 (352)
                      ...++.|+++ +|+||||++.++|...+.      .+.+|++||.+..
T Consensus        81 ~~kvI~vts~kgG~GKTt~a~nLA~~lA~------~G~rVLLID~D~~  122 (271)
T 3bfv_A           81 AVQSIVITSEAPGAGKSTIAANLAVAYAQ------AGYKTLIVDGDMR  122 (271)
T ss_dssp             CCCEEEEECSSTTSSHHHHHHHHHHHHHH------TTCCEEEEECCSS
T ss_pred             CCeEEEEECCCCCCcHHHHHHHHHHHHHh------CCCeEEEEeCCCC
Confidence            4567777765 899999999999998876      6789999999853

>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=96.46  E-value=0.0017  Score=53.72  Aligned_cols=24  Identities=17%  Similarity=0.155  Sum_probs=21.6

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      +.++.|+|+|||||||++..++..
T Consensus         3 ~~~i~l~G~~GsGKST~a~~La~~   26 (178)
T 1qhx_A            3 TRMIILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHh
Confidence            568999999999999999988765

>3ug7_A Arsenical pump-driving ATPase; tail-anchored, membrane protein, targeting factor, ATP-bindi TRC40, ARSA, nucleotide-binding; HET: ADP; 2.90A {Methanocaldococcus jannaschii} PDB: 3ug6_A*

Probab=96.46  E-value=0.012  Score=54.56  Aligned_cols=42  Identities=19%  Similarity=0.060  Sum_probs=36.3

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      -+...++.+.|..|+||||++.++|...+.      .+.+|+.+|++.
T Consensus        23 ~~~~~i~v~sgKGGvGKTTvA~~LA~~lA~------~G~rVLlvD~D~   64 (349)
T 3ug7_A           23 KDGTKYIMFGGKGGVGKTTMSAATGVYLAE------KGLKVVIVSTDP   64 (349)
T ss_dssp             SCSCEEEEEECSSSTTHHHHHHHHHHHHHH------SSCCEEEEECCT
T ss_pred             cCCCEEEEEeCCCCccHHHHHHHHHHHHHH------CCCeEEEEeCCC
Confidence            355678888999999999999999988876      688999999985

>1hyq_A MIND, cell division inhibitor (MIND-1); MINC, FTSZ, bacterial cell division, cell cycle; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.10

Probab=96.46  E-value=0.019  Score=50.60  Aligned_cols=37  Identities=30%  Similarity=0.276  Sum_probs=31.0

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      |....+..|+||||++.++|...+.      .+.+|+++|.+.
T Consensus         5 I~v~s~kgGvGKTt~a~~LA~~la~------~g~~VlliD~D~   41 (263)
T 1hyq_A            5 ITVASGKGGTGKTTITANLGVALAQ------LGHDVTIVDADI   41 (263)
T ss_dssp             EEEEESSSCSCHHHHHHHHHHHHHH------TTCCEEEEECCC
T ss_pred             EEEECCCCCCCHHHHHHHHHHHHHh------CCCcEEEEECCC
Confidence            4455788899999999999988776      578999999875

>3k4g_A DNA-directed RNA polymerase subunit alpha; bacterial transcription regulation, DNA-directed RNA polymer nucleotidyltransferase; HET: MLY; 2.05A {Escherichia coli k-12} SCOP: a.60.3.1 PDB: 3n4m_B* 1lb2_B* 3n97_B* 1xs9_D

Probab=96.46  E-value=0.0066  Score=43.96  Aligned_cols=59  Identities=17%  Similarity=0.227  Sum_probs=49.6

Q ss_pred             chhhhcHHHHHhCCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHHH
Q 047388           25 EDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEK   86 (352)
Q Consensus        25 ~~~~~~~~~l~~~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~   86 (352)
                      ..+.++|+.|   +|++....-|+++||.|+.+++..+..+|.++.+++.+.+.+|.+...+
T Consensus         8 ~~l~~~I~~L---~LSvRa~NcLkragI~Tv~dL~~~se~dLlki~n~G~KSl~EI~~~L~~   66 (86)
T 3k4g_A            8 PILLRPVDDL---ELTVRSANCLXAEAIHYIGDLVQRTEVELLXTPNLGXXSLTEIXDVLAS   66 (86)
T ss_dssp             GGGGSBGGGG---CCCHHHHHHHHHTTCCBHHHHHHSCHHHHHTSTTCCHHHHHHHHHHHHT
T ss_pred             HHHhCcHHHh---CCCHHHHHHHHHcCCCcHHHHHhCCHHHHhhccccCcccHHHHHHHHHH
Confidence            3345566554   8999999999999999999999999999999999999888777665543

>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=96.45  E-value=0.012  Score=53.43  Aligned_cols=25  Identities=32%  Similarity=0.215  Sum_probs=21.1

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHh
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ...+.|+||||+|||+++..++...
T Consensus        38 ~~~vll~G~~GtGKT~la~~i~~~~   62 (324)
T 1hqc_A           38 LEHLLLFGPPGLGKTTLAHVIAHEL   62 (324)
T ss_dssp             CCCCEEECCTTCCCHHHHHHHHHHH
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHh
Confidence            3568999999999999999887653

>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=96.43  E-value=0.011  Score=54.74  Aligned_cols=42  Identities=17%  Similarity=0.067  Sum_probs=33.3

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      ...|.++.|+|+||+|||||+..++.....      .++++..++.+.
T Consensus        53 ~~~~~~i~i~G~~g~GKSTl~~~l~~~~~~------~~~~v~v~~~d~   94 (341)
T 2p67_A           53 CGNTLRLGVTGTPGAGKSTFLEAFGMLLIR------EGLKVAVIAVDP   94 (341)
T ss_dssp             CSCSEEEEEEECTTSCHHHHHHHHHHHHHH------TTCCEEEEEECC
T ss_pred             cCCCEEEEEEcCCCCCHHHHHHHHHHHHHh------cCCeEEEEeecC
Confidence            356889999999999999999988876554      466777777653

>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=96.42  E-value=0.01  Score=55.11  Aligned_cols=39  Identities=15%  Similarity=0.071  Sum_probs=31.9

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      .-++.|+|.||+|||||+..++.....      .+.+|..++.+.
T Consensus        79 ~~~I~i~G~~G~GKSTl~~~L~~~l~~------~g~kV~vi~~Dp  117 (355)
T 3p32_A           79 AHRVGITGVPGVGKSTAIEALGMHLIE------RGHRVAVLAVDP  117 (355)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHHHT------TTCCEEEEEEC-
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHHh------CCCceEEEecCC
Confidence            458999999999999999999887654      567888888763

>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=96.40  E-value=0.027  Score=51.25  Aligned_cols=24  Identities=21%  Similarity=-0.015  Sum_probs=21.2

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .-.+.++||+|+|||+++..++..
T Consensus        18 ~~~~Lf~Gp~G~GKtt~a~~la~~   41 (305)
T 2gno_A           18 GISILINGEDLSYPREVSLELPEY   41 (305)
T ss_dssp             SEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHh
Confidence            458999999999999999988764

>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=96.40  E-value=0.0018  Score=56.83  Aligned_cols=25  Identities=16%  Similarity=0.102  Sum_probs=22.2

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHH
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      +++++.|.|+|||||||++..++..
T Consensus        26 ~~~~i~l~G~~GsGKSTl~k~La~~   50 (246)
T 2bbw_A           26 KLLRAVILGPPGSGKGTVCQRIAQN   50 (246)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            4689999999999999999988744

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=96.38  E-value=0.0018  Score=54.81  Aligned_cols=25  Identities=24%  Similarity=0.109  Sum_probs=22.2

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHh
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      |+++.|+|++|+|||||+..++...
T Consensus         1 G~~i~i~G~nG~GKTTll~~l~g~~   25 (189)
T 2i3b_A            1 ARHVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CCCEEEESCCSSCHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCChHHHHHHHHHhhc
Confidence            6889999999999999999877654

>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=96.38  E-value=0.0022  Score=57.00  Aligned_cols=38  Identities=16%  Similarity=0.081  Sum_probs=28.1

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeC
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDT  168 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~  168 (352)
                      ++.++.|+|+|||||||++..++.....      .+..+++++.
T Consensus         3 ~~~lIvl~G~pGSGKSTla~~La~~L~~------~g~~~i~~~~   40 (260)
T 3a4m_A            3 DIMLIILTGLPGVGKSTFSKNLAKILSK------NNIDVIVLGS   40 (260)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHH------TTCCEEEECT
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHh------CCCEEEEECc
Confidence            4668999999999999999988865332      2345555554

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.38  E-value=0.0018  Score=57.24  Aligned_cols=37  Identities=19%  Similarity=0.161  Sum_probs=28.2

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      ..+.++.|+|+|||||||++..++...         +..+++++.+
T Consensus        30 ~~~~~i~l~G~~GsGKSTla~~L~~~l---------~~~~~~~~~D   66 (253)
T 2p5t_B           30 KQPIAILLGGQSGAGKTTIHRIKQKEF---------QGNIVIIDGD   66 (253)
T ss_dssp             SSCEEEEEESCGGGTTHHHHHHHHHHT---------TTCCEEECGG
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHhc---------CCCcEEEecH
Confidence            456799999999999999999887642         2245666665

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.36  E-value=0.0032  Score=52.48  Aligned_cols=34  Identities=15%  Similarity=-0.011  Sum_probs=26.3

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEe
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYID  167 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~  167 (352)
                      ++.|.|+|||||||++..++.....      .+..+.+++
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~~l~~------~g~~~~~~~   36 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKEILDN------QGINNKIIN   36 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHT------TTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHh------cCceEEEEE
Confidence            6899999999999999988775432      344567775

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.36  E-value=0.002  Score=56.96  Aligned_cols=26  Identities=19%  Similarity=0.241  Sum_probs=23.4

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ++|.++.|.|++||||||++..++..
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            67899999999999999999988744

>1oft_A SULA, hypothetical protein PA3008; bacterial cell division inhibitor, FTSZ, SULA protein; 2.9A {Pseudomonas aeruginosa} SCOP: c.37.1.22

Probab=96.35  E-value=0.084  Score=42.99  Aligned_cols=134  Identities=9%  Similarity=-0.025  Sum_probs=71.6

Q ss_pred             cccccCChhhHHhh-cCCCCCCcEEEEec-CCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHH
Q 047388          106 IKITTGSQALDELL-GGGIETGAITEAFG-EFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAER  183 (352)
Q Consensus       106 ~~i~TG~~~LD~~L-~GGl~~G~i~~I~G-~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~  183 (352)
                      ..++.|.+.+|.-+ +||++.|.++||.. .+|.|=..|+.-++.....    ...++.++||........    .....
T Consensus        23 ~~~p~~~~~~~~~~~~~~~~~G~l~Ell~~~~g~gel~LL~P~La~l~~----~~~~r~vlwI~Pp~~l~~----~~L~~   94 (161)
T 1oft_A           23 NGAPLLDDVIDSPSSASIEEPAAFSELSLSGLPGHCLTLLAPILRELSE----EQDARWLTLIAPPASLTH----EWLRR   94 (161)
T ss_dssp             --------------------CCSEEEEEEESCHHHHHHHHHHHHHHHHT----CSSSSEEEEESCCTTSCH----HHHHH
T ss_pred             ccCCCCcccccccCCCCCCCCcceEEEccCCCcHHHHHHHHHHHHHhcc----cccCccEEEECCCCCCCH----HHHHH
Confidence            45799999999877 78999999999984 5677766555544443221    013678999988664333    35667


Q ss_pred             cCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHH
Q 047388          184 FGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISE  263 (352)
Q Consensus       184 ~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~  263 (352)
                      .|+++    +++.+++..+..+..-   .+++.++...+..||.. +..+         +.        .-.+.|.--|+
T Consensus        95 ~Gl~~----~rll~v~~~~~~daLw---a~EqALrsG~~~aVl~W-l~~l---------~~--------~~~RRLqlAAe  149 (161)
T 1oft_A           95 AGLNR----ERILLLQAKDNAAALA---LSCEALRLGRSHTVVSW-LEPL---------SR--------AARKQLSRAAQ  149 (161)
T ss_dssp             TTCCG----GGEEEECCSSTTHHHH---HHHHHHHTTCEEEEEEC-CSSC---------CH--------HHHHHHHHHHH
T ss_pred             cCCCH----HHEEEEECCChHHHHH---HHHHHHhcCCccEEEEC-CCcC---------Ch--------HHHHHHHHHHH
Confidence            89998    7888888876654443   34456666677888765 2221         11        22455666666


Q ss_pred             HhCcEEEEE
Q 047388          264 EFNVAVYMT  272 (352)
Q Consensus       264 ~~~~~viv~  272 (352)
                      .-++..+++
T Consensus       150 ~g~~~~fll  158 (161)
T 1oft_A          150 LGQAQSLNI  158 (161)
T ss_dssp             HTTCEEEEE
T ss_pred             hCCCeEEEe
Confidence            666666654

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.34  E-value=0.0017  Score=54.18  Aligned_cols=25  Identities=24%  Similarity=0.190  Sum_probs=22.1

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHH
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      +|.++.|+|+|||||||++..++..
T Consensus         3 ~g~~I~l~G~~GsGKST~~~~La~~   27 (186)
T 3cm0_A            3 VGQAVIFLGPPGAGKGTQASRLAQE   27 (186)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            5778999999999999999988754

>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=96.33  E-value=0.0023  Score=53.15  Aligned_cols=26  Identities=23%  Similarity=0.426  Sum_probs=21.8

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      +.+| ++.|+|++||||||++..++..
T Consensus        24 ~~~g-~~~i~G~NGsGKStll~ai~~~   49 (182)
T 3kta_A           24 FSKG-FTAIVGANGSGKSNIGDAILFV   49 (182)
T ss_dssp             CCSS-EEEEEECTTSSHHHHHHHHHHH
T ss_pred             cCCC-cEEEECCCCCCHHHHHHHHHHH
Confidence            4466 9999999999999999876553

>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=96.30  E-value=0.0022  Score=53.46  Aligned_cols=25  Identities=12%  Similarity=-0.024  Sum_probs=22.0

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHh
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      |.++.|+|+|||||||++..++...
T Consensus         3 ~~~I~i~G~~GsGKsT~~~~L~~~l   27 (192)
T 1kht_A            3 NKVVVVTGVPGVGSTTSSQLAMDNL   27 (192)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            5689999999999999999887643

>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=96.29  E-value=0.17  Score=40.21  Aligned_cols=23  Identities=22%  Similarity=0.203  Sum_probs=19.8

Q ss_pred             EEEEecCCCCChhHHHHHHHHHh
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      -+.|+|++|+|||+|+..++...
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            37899999999999999887653

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*

Probab=96.29  E-value=0.014  Score=49.16  Aligned_cols=84  Identities=15%  Similarity=0.101  Sum_probs=50.8

Q ss_pred             EEEEe-cCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCCHHHH
Q 047388          128 ITEAF-GEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQ  206 (352)
Q Consensus       128 i~~I~-G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~~~  206 (352)
                      ++.|+ +..|+||||++.++|.....      .+.+|+++|.+..   ..+..+..   ...    .++.+..... ..+
T Consensus         3 vi~v~s~kgG~GKTt~a~~la~~la~------~g~~vlliD~D~~---~~~~~~~~---~~~----~~~~~~~~~~-~~l   65 (206)
T 4dzz_A            3 VISFLNPKGGSGKTTAVINIATALSR------SGYNIAVVDTDPQ---MSLTNWSK---AGK----AAFDVFTAAS-EKD   65 (206)
T ss_dssp             EEEECCSSTTSSHHHHHHHHHHHHHH------TTCCEEEEECCTT---CHHHHHHT---TSC----CSSEEEECCS-HHH
T ss_pred             EEEEEeCCCCccHHHHHHHHHHHHHH------CCCeEEEEECCCC---CCHHHHHh---cCC----CCCcEEecCc-HHH
Confidence            34444 77899999999999998876      6789999999743   22223322   222    2344444333 233


Q ss_pred             HHHHHHHHHHhhcCCceEEEEcccccc
Q 047388          207 YNLLLGLAAKMSEEPFRLLIVDSVIAL  233 (352)
Q Consensus       207 ~~~l~~l~~~l~~~~~~lvvIDsl~~l  233 (352)
                      .+.+..    +. ...++||||....+
T Consensus        66 ~~~l~~----l~-~~yD~viiD~~~~~   87 (206)
T 4dzz_A           66 VYGIRK----DL-ADYDFAIVDGAGSL   87 (206)
T ss_dssp             HHTHHH----HT-TTSSEEEEECCSSS
T ss_pred             HHHHHH----hc-CCCCEEEEECCCCC
Confidence            333322    22 25799999976543

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.28  E-value=0.0048  Score=52.28  Aligned_cols=27  Identities=26%  Similarity=0.156  Sum_probs=23.2

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhc
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQ  151 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~  151 (352)
                      +|.++.|.|+|||||||++..++....
T Consensus         3 ~~~~I~i~G~~GsGKsT~~~~L~~~l~   29 (213)
T 2plr_A            3 KGVLIAFEGIDGSGKSSQATLLKDWIE   29 (213)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHh
Confidence            367899999999999999998887543

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.28  E-value=0.0022  Score=52.95  Aligned_cols=22  Identities=27%  Similarity=0.264  Sum_probs=19.9

Q ss_pred             cEEEEecCCCCChhHHHHHHHH
Q 047388          127 AITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      .++.|+|+|||||||++..++.
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            4789999999999999998875

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=96.26  E-value=0.0037  Score=57.07  Aligned_cols=37  Identities=11%  Similarity=0.066  Sum_probs=31.0

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhc-CCCccCCCCCeEEEEeC
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQ-LPTNMRGGNGKVAYIDT  168 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~-~~~~~gg~~~~vl~i~~  168 (352)
                      +.-+.|+||||+|||+|+..++..+. .      .+.+++|++.
T Consensus       152 ~~~lll~G~~GtGKT~La~aia~~~~~~------~g~~v~~~~~  189 (308)
T 2qgz_A          152 QKGLYLYGDMGIGKSYLLAAMAHELSEK------KGVSTTLLHF  189 (308)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHHHH------SCCCEEEEEH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHh------cCCcEEEEEH
Confidence            67899999999999999998887766 4      4677888865

>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=96.26  E-value=0.0023  Score=53.55  Aligned_cols=23  Identities=26%  Similarity=0.154  Sum_probs=20.0

Q ss_pred             EEEEecCCCCChhHHHHHHHHHh
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      .+.|.||||||||||+..++...
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l   24 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            57899999999999999887654

>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=96.24  E-value=0.0029  Score=52.95  Aligned_cols=27  Identities=22%  Similarity=0.192  Sum_probs=23.3

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .+++.++.|+|++||||||++..++..
T Consensus         7 ~~~~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A            7 QPKGINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             CCSSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            456789999999999999999988754

>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=96.24  E-value=0.0024  Score=52.35  Aligned_cols=23  Identities=17%  Similarity=-0.042  Sum_probs=20.3

Q ss_pred             cEEEEecCCCCChhHHHHHHHHH
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .++.|+|+|||||||++..++..
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~~   24 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSKE   24 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            37899999999999999988765

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=96.21  E-value=0.0094  Score=61.21  Aligned_cols=36  Identities=25%  Similarity=0.180  Sum_probs=29.3

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      .+.|+||||+|||+++..++.....      .+.+.++++..
T Consensus       523 ~~Ll~Gp~GtGKT~lA~ala~~l~~------~~~~~i~i~~s  558 (758)
T 3pxi_A          523 SFIFLGPTGVGKTELARALAESIFG------DEESMIRIDMS  558 (758)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHHHS------CTTCEEEEEGG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhcC------CCcceEEEech
Confidence            5899999999999999988876533      45678888764

>2ph1_A Nucleotide-binding protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; 2.70A {Archaeoglobus fulgidus dsm 4304} PDB: 3kb1_A*

Probab=96.20  E-value=0.021  Score=50.43  Aligned_cols=38  Identities=24%  Similarity=0.201  Sum_probs=31.3

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT  171 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~  171 (352)
                      |....+..|+||||++.++|...+.      .+.+|+++|....
T Consensus        21 I~v~s~kGGvGKTT~a~nLA~~la~------~G~~VlliD~D~~   58 (262)
T 2ph1_A           21 IAVMSGKGGVGKSTVTALLAVHYAR------QGKKVGILDADFL   58 (262)
T ss_dssp             EEEECSSSCTTHHHHHHHHHHHHHH------TTCCEEEEECCSS
T ss_pred             EEEEcCCCCCCHHHHHHHHHHHHHH------CCCeEEEEeCCCC
Confidence            4445678899999999999988776      6789999998854

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.18  E-value=0.0042  Score=55.54  Aligned_cols=26  Identities=31%  Similarity=0.293  Sum_probs=21.8

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++|  +.|+||||+|||+|+..++..
T Consensus        71 ~~~~g--vll~Gp~GtGKTtl~~~i~~~   96 (278)
T 1iy2_A           71 RIPKG--VLLVGPPGVGKTHLARAVAGE   96 (278)
T ss_dssp             CCCCE--EEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCCe--EEEECCCcChHHHHHHHHHHH
Confidence            34556  899999999999999988764

>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=96.15  E-value=0.0052  Score=51.18  Aligned_cols=28  Identities=18%  Similarity=0.001  Sum_probs=22.4

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ...-.++.|+|++|+|||||+..++...
T Consensus         3 ~~~~~~i~i~G~sGsGKTTl~~~l~~~l   30 (174)
T 1np6_A            3 KTMIPLLAFAAWSGTGKTTLLKKLIPAL   30 (174)
T ss_dssp             --CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCcceEEEEEeCCCCCHHHHHHHHHHhc
Confidence            3445689999999999999999887654

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=96.14  E-value=0.0026  Score=51.96  Aligned_cols=19  Identities=32%  Similarity=0.342  Sum_probs=17.9

Q ss_pred             EEEEecCCCCChhHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTL  146 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~l  146 (352)
                      ++.|+|+|||||||++..+
T Consensus         3 ~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            3 VILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            7899999999999999977

>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=96.14  E-value=0.002  Score=56.04  Aligned_cols=26  Identities=19%  Similarity=0.045  Sum_probs=23.0

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la  147 (352)
                      ..++|.++.|.|++||||||++..++
T Consensus        16 ~~~~g~~i~i~G~~GsGKSTl~~~L~   41 (230)
T 2vp4_A           16 EGTQPFTVLIEGNIGSGKTTYLNHFE   41 (230)
T ss_dssp             TTCCCEEEEEECSTTSCHHHHHHTTG
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHH
Confidence            45789999999999999999998664

>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=96.12  E-value=0.003  Score=60.16  Aligned_cols=28  Identities=29%  Similarity=0.323  Sum_probs=24.2

Q ss_pred             CCCCCcE--EEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAI--TEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i--~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++|++  +.|+|+||+|||||+..++..
T Consensus        36 ~i~~Gei~~vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           36 SVSQGFCFNILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             SCC-CCEEEEEEECSTTSSSHHHHHHHHTS
T ss_pred             EecCCCeeEEEEECCCCCCHHHHHHHHhCc
Confidence            5889999  999999999999999977654

>1g3q_A MIND ATPase, cell division inhibitor; alpha-beta-alpha layered, protein-ADP complex, cell cycle, hydrolase; HET: ADP; 2.00A {Pyrococcus furiosus} SCOP: c.37.1.10 PDB: 1g3r_A* 1ion_A*

Probab=96.09  E-value=0.03  Score=48.34  Aligned_cols=36  Identities=25%  Similarity=0.205  Sum_probs=29.9

Q ss_pred             EEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      ....+..|+||||++.++|...+.      .+.+|+++|...
T Consensus         6 ~v~s~kgGvGKTt~a~~LA~~la~------~g~~VlliD~D~   41 (237)
T 1g3q_A            6 SIVSGKGGTGKTTVTANLSVALGD------RGRKVLAVDGDL   41 (237)
T ss_dssp             EEECSSTTSSHHHHHHHHHHHHHH------TTCCEEEEECCT
T ss_pred             EEecCCCCCCHHHHHHHHHHHHHh------cCCeEEEEeCCC
Confidence            344567899999999999988776      578999999875

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=96.07  E-value=0.0063  Score=55.02  Aligned_cols=40  Identities=25%  Similarity=0.130  Sum_probs=31.2

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      +...+.|+||||+|||+++..++.....      .+.++++++...
T Consensus        46 ~~~~~ll~G~~GtGKt~la~~la~~~~~------~~~~~~~~~~~~   85 (311)
T 4fcw_A           46 PIGSFLFLGPTGVGKTELAKTLAATLFD------TEEAMIRIDMTE   85 (311)
T ss_dssp             CSEEEEEESCSSSSHHHHHHHHHHHHHS------CGGGEEEEEGGG
T ss_pred             CceEEEEECCCCcCHHHHHHHHHHHHcC------CCcceEEeeccc
Confidence            3457999999999999999988876543      456688887654

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.06  E-value=0.0036  Score=52.07  Aligned_cols=25  Identities=24%  Similarity=0.186  Sum_probs=21.8

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHh
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      +.++.|+|+|||||||++..++...
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l   29 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLT   29 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            5689999999999999999887653

>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=96.05  E-value=0.0036  Score=51.91  Aligned_cols=26  Identities=23%  Similarity=0.024  Sum_probs=22.5

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ..+.++.|+|+|||||||++..++..
T Consensus         9 ~~~~~i~i~G~~GsGKst~~~~l~~~   34 (180)
T 3iij_A            9 MLLPNILLTGTPGVGKTTLGKELASK   34 (180)
T ss_dssp             CCCCCEEEECSTTSSHHHHHHHHHHH
T ss_pred             ccCCeEEEEeCCCCCHHHHHHHHHHH
Confidence            45678999999999999999988754

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.05  E-value=0.0034  Score=53.21  Aligned_cols=24  Identities=17%  Similarity=0.225  Sum_probs=21.2

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ..++.|+|+|||||||++..++..
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~   41 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEA   41 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            458999999999999999988764

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=96.05  E-value=0.013  Score=60.97  Aligned_cols=38  Identities=26%  Similarity=0.176  Sum_probs=30.3

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      ..+.|+||||+|||+++..++.....      .+...++++...
T Consensus       589 ~~vLl~Gp~GtGKT~lA~~la~~~~~------~~~~~i~i~~~~  626 (854)
T 1qvr_A          589 GSFLFLGPTGVGKTELAKTLAATLFD------TEEAMIRIDMTE  626 (854)
T ss_dssp             EEEEEBSCSSSSHHHHHHHHHHHHHS------SGGGEEEECTTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhcC------CCCcEEEEechh
Confidence            47899999999999999988876543      356788888654

>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=96.04  E-value=0.0067  Score=50.24  Aligned_cols=37  Identities=19%  Similarity=0.196  Sum_probs=28.5

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      .++.|+|++|||||||+..++.....      .+.+|..+..+
T Consensus         5 ~~i~i~G~sGsGKTTl~~~L~~~l~~------~g~~v~~ik~~   41 (169)
T 1xjc_A            5 NVWQVVGYKHSGKTTLMEKWVAAAVR------EGWRVGTVKHH   41 (169)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHH------TTCCEEEEECC
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhhHh------cCCeeeEEEeC
Confidence            47899999999999999988876543      45566666644

>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=96.02  E-value=0.16  Score=41.27  Aligned_cols=23  Identities=17%  Similarity=0.070  Sum_probs=20.0

Q ss_pred             EEEEecCCCCChhHHHHHHHHHh
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      -+.|+|++|+|||+|+..++...
T Consensus        20 ki~v~G~~~~GKSsli~~l~~~~   42 (187)
T 2a9k_A           20 KVIMVGSGGVGKSALTLQFMYDE   42 (187)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhhCC
Confidence            47899999999999999887653

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.01  E-value=0.0039  Score=52.23  Aligned_cols=25  Identities=20%  Similarity=0.112  Sum_probs=22.2

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHH
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ++.++.|.|+|||||||++..++..
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~La~~   32 (196)
T 2c95_A            8 KTNIIFVVGGPGSGKGTQCEKIVQK   32 (196)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHH
Confidence            5679999999999999999988754

>3q9l_A Septum site-determining protein MIND; ATPase, bacterial cell division inhibitor, MINC, MINE, cell hydrolase; HET: ATP; 2.34A {Escherichia coli} PDB: 3r9i_A* 3r9j_A*

Probab=95.99  E-value=0.053  Score=47.40  Aligned_cols=37  Identities=22%  Similarity=0.102  Sum_probs=30.7

Q ss_pred             EEEE-ecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          128 ITEA-FGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       128 i~~I-~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      ++.| .+..|+||||++.++|...+.      .+.+|+++|...
T Consensus         4 vi~v~s~kgGvGKTt~a~~LA~~la~------~g~~VlliD~D~   41 (260)
T 3q9l_A            4 IIVVTSGKGGVGKTTSSAAIATGLAQ------KGKKTVVIDFAI   41 (260)
T ss_dssp             EEEEECSSTTSSHHHHHHHHHHHHHH------TTCCEEEEECCC
T ss_pred             EEEEECCCCCCcHHHHHHHHHHHHHh------CCCcEEEEECCC
Confidence            4444 677889999999999998876      678999999885

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=95.98  E-value=0.0038  Score=52.16  Aligned_cols=24  Identities=13%  Similarity=0.076  Sum_probs=21.2

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      +.++.|.|+|||||||++..++..
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~   26 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEK   26 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHH
Confidence            568999999999999999988754

>1coo_A RNA polymerase alpha subunit; transcription regulation, nucleotidyl transferase; NMR {Escherichia coli} SCOP: a.60.3.1 PDB: 2jzb_A

Probab=95.98  E-value=0.0042  Score=46.21  Aligned_cols=53  Identities=13%  Similarity=0.138  Sum_probs=46.4

Q ss_pred             HHhCCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHHH
Q 047388           34 LISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEK   86 (352)
Q Consensus        34 l~~~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~   86 (352)
                      +...+|++....-|+++||+|+.+++..+..+|.++.++..+.+..|.+...+
T Consensus        26 Ie~L~LSvRs~NcLkragI~Tv~dL~~~se~dLlki~n~G~KSl~EI~~~L~~   78 (98)
T 1coo_A           26 VDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS   78 (98)
T ss_dssp             GGGGTCCTTTHHHHHTTTCCBHHHHHTSCHHHHTTSTTCCHHHHHHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHcCCCcHHHHHhCCHHHHHhcCCCCHHHHHHHHHHHHH
Confidence            34458999999999999999999999999999999999999888877765543

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=95.97  E-value=0.0038  Score=61.58  Aligned_cols=42  Identities=21%  Similarity=0.125  Sum_probs=32.1

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCC-CeEEEEeCC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGN-GKVAYIDTE  169 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~-~~vl~i~~e  169 (352)
                      -+++|+++.|+|+|||||||++..++.....      .+ +.+.|++.+
T Consensus       365 ~~~~G~iI~LiG~sGSGKSTLar~La~~L~~------~~G~~i~~lDgD  407 (552)
T 3cr8_A          365 RERQGFTVFFTGLSGAGKSTLARALAARLME------MGGRCVTLLDGD  407 (552)
T ss_dssp             GGGSCEEEEEEESSCHHHHHHHHHHHHHHHT------TCSSCEEEESSH
T ss_pred             ccccceEEEEECCCCChHHHHHHHHHHhhcc------cCCceEEEECCc
Confidence            3568999999999999999999988765433      22 356677764

>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=95.96  E-value=0.005  Score=57.31  Aligned_cols=34  Identities=35%  Similarity=0.441  Sum_probs=27.0

Q ss_pred             cCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          110 TGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       110 TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      .|+..|...+     +|+++.|.|+||+|||||+..++.
T Consensus       204 ~gl~~L~~~~-----~G~~~~lvG~sG~GKSTLln~L~g  237 (358)
T 2rcn_A          204 DGLKPLEEAL-----TGRISIFAGQSGVGKSSLLNALLG  237 (358)
T ss_dssp             BTHHHHHHHH-----TTSEEEEECCTTSSHHHHHHHHHC
T ss_pred             cCHHHHHHhc-----CCCEEEEECCCCccHHHHHHHHhc
Confidence            3556666544     578999999999999999997764

>1wcv_1 SOJ, segregation protein; ATPase, bacterial, chromosome segregation; 1.6A {Thermus thermophilus} PDB: 2bej_A* 2bek_A*

Probab=95.96  E-value=0.033  Score=48.98  Aligned_cols=39  Identities=18%  Similarity=0.020  Sum_probs=32.4

Q ss_pred             CcEEEEe-cCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          126 GAITEAF-GEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       126 G~i~~I~-G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      +.++.|+ +..|+||||++.++|...+.      .+.+|+++|.+.
T Consensus         6 ~~vI~v~s~kGGvGKTt~a~~LA~~la~------~g~~VlliD~D~   45 (257)
T 1wcv_1            6 VRRIALANQKGGVGKTTTAINLAAYLAR------LGKRVLLVDLDP   45 (257)
T ss_dssp             CCEEEECCSSCCHHHHHHHHHHHHHHHH------TTCCEEEEECCT
T ss_pred             CEEEEEEeCCCCchHHHHHHHHHHHHHH------CCCCEEEEECCC
Confidence            4566665 67899999999999988776      678999999875

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=95.95  E-value=0.005  Score=52.33  Aligned_cols=28  Identities=25%  Similarity=0.172  Sum_probs=24.1

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ..+|.++.|+|++||||||++..++...
T Consensus         7 ~~~~~~I~l~G~~GsGKST~~~~L~~~l   34 (212)
T 2wwf_A            7 KKKGKFIVFEGLDRSGKSTQSKLLVEYL   34 (212)
T ss_dssp             CBCSCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             hhcCCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3467899999999999999999888653

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=95.91  E-value=0.0044  Score=54.79  Aligned_cols=23  Identities=26%  Similarity=0.316  Sum_probs=20.6

Q ss_pred             cEEEEecCCCCChhHHHHHHHHH
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .++.|+|+||||||||+..++..
T Consensus         2 ~li~I~G~~GSGKSTla~~La~~   24 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQE   24 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHhc
Confidence            37899999999999999998865

>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=95.90  E-value=0.024  Score=59.04  Aligned_cols=115  Identities=13%  Similarity=0.107  Sum_probs=51.4

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcCCCccCC-CCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCCHH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRG-GNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYE  204 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg-~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~  204 (352)
                      ..-+.|+||||+|||+++..++........... .+..+++++...-..           +..         + .    .
T Consensus       191 ~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l~~-----------g~~---------~-~----g  245 (854)
T 1qvr_A          191 KNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLA-----------GAK---------Y-R----G  245 (854)
T ss_dssp             CCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC------------------------------------
T ss_pred             CCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhc-----------cCc---------c-c----h
Confidence            345789999999999999988876532100000 255677776532110           000         0 0    0


Q ss_pred             HHHHHHHHHHHHhhc-CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcc
Q 047388          205 HQYNLLLGLAAKMSE-EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQ  274 (352)
Q Consensus       205 ~~~~~l~~l~~~l~~-~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h  274 (352)
                      +....+..+...+.. .++.+++||.+..+....-. .+        ...+.+.|+.+....++.+|.++.
T Consensus       246 ~~~~~l~~~~~~~~~~~~~~iL~IDEi~~l~~~~~~-~g--------~~~~~~~L~~~l~~~~i~~I~at~  307 (854)
T 1qvr_A          246 EFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKA-EG--------AVDAGNMLKPALARGELRLIGATT  307 (854)
T ss_dssp             CHHHHHHHHHHHHHTTCSSEEEEECCC----------------------------HHHHHTTCCCEEEEEC
T ss_pred             HHHHHHHHHHHHHHhcCCCeEEEEecHHHHhccCCc-cc--------hHHHHHHHHHHHhCCCeEEEEecC
Confidence            111122222223333 35779999999888542110 00        013444556655666777776544

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=95.88  E-value=0.0044  Score=53.63  Aligned_cols=27  Identities=15%  Similarity=0.073  Sum_probs=21.7

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ..++.++.|.|+|||||||++..++..
T Consensus         4 ~~~~~~I~l~G~~GsGKsT~a~~La~~   30 (227)
T 1zd8_A            4 SARLLRAVIMGAPGSGKGTVSSRITTH   30 (227)
T ss_dssp             ---CCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             cccCcEEEEECCCCCCHHHHHHHHHHH
Confidence            455678999999999999999988754

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=95.88  E-value=0.0048  Score=52.49  Aligned_cols=27  Identities=26%  Similarity=0.288  Sum_probs=23.5

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      .+|.++.|+|++||||||++..++...
T Consensus         7 ~~~~~I~l~G~~GsGKsT~~~~L~~~l   33 (215)
T 1nn5_A            7 RRGALIVLEGVDRAGKSTQSRKLVEAL   33 (215)
T ss_dssp             CCCCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            357899999999999999999888654

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=95.88  E-value=0.0049  Score=53.03  Aligned_cols=24  Identities=17%  Similarity=0.246  Sum_probs=21.1

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      +.++.|+|++||||||++..++..
T Consensus         5 ~~~i~i~G~~GsGKSTl~~~L~~~   28 (227)
T 1cke_A            5 APVITIDGPSGAGKGTLCKAMAEA   28 (227)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999988754

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=95.88  E-value=0.0037  Score=51.84  Aligned_cols=25  Identities=40%  Similarity=0.381  Sum_probs=17.5

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHH
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ++.++.|+|+|||||||++..++..
T Consensus         4 ~~~~I~l~G~~GsGKST~a~~La~~   28 (183)
T 2vli_A            4 RSPIIWINGPFGVGKTHTAHTLHER   28 (183)
T ss_dssp             -CCEEEEECCC----CHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHh
Confidence            4678999999999999999988754

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=95.87  E-value=0.0055  Score=59.92  Aligned_cols=39  Identities=31%  Similarity=0.404  Sum_probs=28.5

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeC
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDT  168 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~  168 (352)
                      ++.|.++.|+||+||||||++..++..  .+     ...+++.+..
T Consensus       257 v~~g~~i~I~GptGSGKTTlL~aL~~~--i~-----~~~giitied  295 (511)
T 2oap_1          257 IEHKFSAIVVGETASGKTTTLNAIMMF--IP-----PDAKVVSIED  295 (511)
T ss_dssp             HHTTCCEEEEESTTSSHHHHHHHHGGG--SC-----TTCCEEEEES
T ss_pred             HhCCCEEEEECCCCCCHHHHHHHHHhh--CC-----CCCCEEEEcC
Confidence            468999999999999999999966433  23     2345666643

>3igf_A ALL4481 protein; two-domained protein consisting of the N-terminal alpha-beta the C-terminal all beta domain., structural genomics; 2.00A {Nostoc SP}

Probab=95.87  E-value=0.017  Score=54.17  Aligned_cols=36  Identities=14%  Similarity=0.082  Sum_probs=32.1

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeC
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDT  168 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~  168 (352)
                      .++.+.|..|+||||++.++|...+.      .+.+|+.+|+
T Consensus         3 ~i~~~~gkGG~GKTt~a~~la~~la~------~g~~vllvd~   38 (374)
T 3igf_A            3 LILTFLGKSGVARTKIAIAAAKLLAS------QGKRVLLAGL   38 (374)
T ss_dssp             EEEEEECSBHHHHHHHHHHHHHHHHH------TTCCEEEEEC
T ss_pred             EEEEEeCCCCCcHHHHHHHHHHHHHH------CCCCeEEEeC
Confidence            46788999999999999999988776      6889999999

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=95.87  E-value=0.005  Score=51.97  Aligned_cols=25  Identities=28%  Similarity=0.236  Sum_probs=22.2

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHH
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      +|.++.|.|++||||||++..++..
T Consensus         3 ~~~~I~l~G~~GsGKsT~~~~L~~~   27 (204)
T 2v54_A            3 RGALIVFEGLDKSGKTTQCMNIMES   27 (204)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHT
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHH
Confidence            5779999999999999999988754

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=95.85  E-value=0.0051  Score=53.17  Aligned_cols=30  Identities=17%  Similarity=0.118  Sum_probs=25.7

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      .-++...++.|.|||||||+|.|..++...
T Consensus        24 ~~~~k~kiI~llGpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           24 QKLAKAKVIFVLGGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             CCTTSCEEEEEECCTTCCHHHHHHHHHHHH
T ss_pred             hhccCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            456778899999999999999999888653

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=95.84  E-value=0.0047  Score=56.18  Aligned_cols=24  Identities=25%  Similarity=0.227  Sum_probs=21.8

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHH
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la  147 (352)
                      ..|+++.|.|+||+|||||+..++
T Consensus       163 l~G~i~~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          163 LEGFICILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             TTTCEEEEECSTTSSHHHHHHHHH
T ss_pred             ccCcEEEEECCCCCCHHHHHHHHH
Confidence            458899999999999999999876

>4ag6_A VIRB4 ATPase, type IV secretory pathway VIRB4 components-like P; hydrolase, type IV secretion, conjugation; 2.35A {Thermoanaerobacter pseudethanolicus} PDB: 4ag5_A

Probab=95.83  E-value=0.01  Score=55.93  Aligned_cols=40  Identities=23%  Similarity=0.226  Sum_probs=29.8

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      ..+.-+.|+|++|+|||+++..++.....      .+..++++|..
T Consensus        33 ~~~~~~~i~G~~G~GKs~~~~~~~~~~~~------~~~~~~~~D~~   72 (392)
T 4ag6_A           33 RTNSNWTILAKPGAGKSFTAKMLLLREYM------QGSRVIIIDPE   72 (392)
T ss_dssp             BCCCCEEEECCTTSSHHHHHHHHHHHHHT------TTCCEEEEESS
T ss_pred             cccCceEEEcCCCCCHHHHHHHHHHHHHH------CCCEEEEEeCC
Confidence            35667899999999999999988876554      34556666543

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=95.83  E-value=0.0055  Score=55.40  Aligned_cols=28  Identities=14%  Similarity=-0.057  Sum_probs=23.7

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      -.++.++.|+|++|||||||+..++...
T Consensus        28 ~~~~~ii~I~G~sGsGKSTla~~L~~~l   55 (290)
T 1odf_A           28 NKCPLFIFFSGPQGSGKSFTSIQIYNHL   55 (290)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3467899999999999999998776654

>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=95.82  E-value=0.015  Score=53.59  Aligned_cols=24  Identities=29%  Similarity=0.176  Sum_probs=21.4

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHh
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      +.+.|+||||+|||||+..++...
T Consensus        52 ~~~ll~Gp~G~GKTTLa~~ia~~l   75 (334)
T 1in4_A           52 DHVLLAGPPGLGKTTLAHIIASEL   75 (334)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHh
Confidence            679999999999999999888764

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=95.81  E-value=0.0057  Score=51.71  Aligned_cols=25  Identities=20%  Similarity=0.066  Sum_probs=21.9

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHH
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .+.++.|+|+|||||||++..++..
T Consensus        19 ~~~~I~l~G~~GsGKST~a~~La~~   43 (201)
T 2cdn_A           19 SHMRVLLLGPPGAGKGTQAVKLAEK   43 (201)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4568999999999999999988764

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=95.80  E-value=0.0033  Score=52.85  Aligned_cols=25  Identities=24%  Similarity=0.109  Sum_probs=22.0

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHH
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .+.++.|+|+|||||||++..++..
T Consensus        11 ~~~~I~l~G~~GsGKsT~a~~L~~~   35 (199)
T 2bwj_A           11 KCKIIFIIGGPGSGKGTQCEKLVEK   35 (199)
T ss_dssp             HSCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHH
Confidence            4568999999999999999988764

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=95.78  E-value=0.0056  Score=52.60  Aligned_cols=25  Identities=20%  Similarity=0.045  Sum_probs=22.0

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHH
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      +|-++.|.|+|||||||++..++..
T Consensus         3 ~~~~I~l~G~~GsGKsT~a~~La~~   27 (220)
T 1aky_A            3 ESIRMVLIGPPGAGKGTQAPNLQER   27 (220)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            4678999999999999999988764

>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=95.78  E-value=0.24  Score=39.15  Aligned_cols=22  Identities=23%  Similarity=0.142  Sum_probs=19.4

Q ss_pred             EEEecCCCCChhHHHHHHHHHh
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      +.++|++|+|||+|+..++...
T Consensus         6 i~v~G~~~~GKssl~~~l~~~~   27 (166)
T 2ce2_X            6 LVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHhCc
Confidence            7899999999999999887653

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=95.77  E-value=0.0051  Score=52.23  Aligned_cols=21  Identities=33%  Similarity=0.379  Sum_probs=18.8

Q ss_pred             EEEEecCCCCChhHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~  148 (352)
                      ++.|+|++||||||++..++.
T Consensus         4 ~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            4 IVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999997753

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=95.77  E-value=0.24  Score=41.16  Aligned_cols=23  Identities=17%  Similarity=0.070  Sum_probs=19.9

Q ss_pred             EEEEecCCCCChhHHHHHHHHHh
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      -+.|+|++|+|||+|+..+...-
T Consensus        16 ki~v~G~~~~GKSsli~~l~~~~   38 (206)
T 2bov_A           16 KVIMVGSGGVGKSALTLQFMYDE   38 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999887653

>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=95.77  E-value=0.0048  Score=59.74  Aligned_cols=27  Identities=15%  Similarity=0.208  Sum_probs=23.6

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+++ +++.|.||+|||||||+..++..
T Consensus        26 ~i~~-e~~~liG~nGsGKSTLl~~l~Gl   52 (483)
T 3euj_A           26 DFDE-LVTTLSGGNGAGKSTTMAGFVTA   52 (483)
T ss_dssp             ECCS-SEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEcc-ceEEEECCCCCcHHHHHHHHhcC
Confidence            4678 99999999999999999977654

>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=95.76  E-value=0.24  Score=39.28  Aligned_cols=23  Identities=17%  Similarity=0.070  Sum_probs=19.7

Q ss_pred             EEEEecCCCCChhHHHHHHHHHh
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      -+.++|++|+|||+|+..++..-
T Consensus         6 ~i~v~G~~~~GKssl~~~l~~~~   28 (168)
T 1u8z_A            6 KVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            37899999999999999887653

>3la6_A Tyrosine-protein kinase WZC; P-loop protein, nucleotide binding domain, walker A motif, B protein kinase, oligomerization; HET: ADP; 3.20A {Escherichia coli}

Probab=95.70  E-value=0.08  Score=47.55  Aligned_cols=40  Identities=20%  Similarity=0.180  Sum_probs=32.5

Q ss_pred             CcEEEEec-CCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC
Q 047388          126 GAITEAFG-EFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT  171 (352)
Q Consensus       126 G~i~~I~G-~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~  171 (352)
                      ..++.|++ .+|.||||++.++|...+.      .+.+|++||.+..
T Consensus        92 ~kvI~vts~kgG~GKTtva~nLA~~lA~------~G~rVLLID~D~~  132 (286)
T 3la6_A           92 NNVLMMTGVSPSIGMTFVCANLAAVISQ------TNKRVLLIDCDMR  132 (286)
T ss_dssp             CCEEEEEESSSSSSHHHHHHHHHHHHHT------TTCCEEEEECCTT
T ss_pred             CeEEEEECCCCCCcHHHHHHHHHHHHHh------CCCCEEEEeccCC
Confidence            45565555 5899999999999998876      6789999999854

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=95.69  E-value=0.0041  Score=54.98  Aligned_cols=28  Identities=21%  Similarity=0.321  Sum_probs=24.1

Q ss_pred             CCCC---CcEEEEecCCCCChhHHHHHHHHH
Q 047388          122 GIET---GAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       122 Gl~~---G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+.+   |+++.|+|++||||||++..++..
T Consensus        41 ~i~~~l~g~~i~l~G~~GsGKSTl~~~La~~   71 (250)
T 3nwj_A           41 EVKPYLNGRSMYLVGMMGSGKTTVGKIMARS   71 (250)
T ss_dssp             TTHHHHTTCCEEEECSTTSCHHHHHHHHHHH
T ss_pred             hhhhhcCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            3455   899999999999999999988764

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=95.68  E-value=0.0066  Score=52.86  Aligned_cols=29  Identities=21%  Similarity=0.088  Sum_probs=25.0

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ...+|.++.|.|++||||||++..++...
T Consensus        22 ~~~~g~~i~i~G~~GsGKsT~~~~l~~~l   50 (229)
T 4eaq_A           22 SNAMSAFITFEGPEGSGKTTVINEVYHRL   50 (229)
T ss_dssp             CCCCCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ecCCCeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            45689999999999999999999887653

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=95.67  E-value=0.0095  Score=49.64  Aligned_cols=23  Identities=30%  Similarity=0.150  Sum_probs=20.4

Q ss_pred             EEEEecCCCCChhHHHHHHHHHh
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ++.|+|++||||||++..++...
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            68999999999999999887654

>2xau_A PRE-mRNA-splicing factor ATP-dependent RNA helica; hydrolase, ribosome biogenesis, ATPase, ATP-binding, OB-fold; HET: ADP; 1.90A {Saccharomyces cerevisiae} PDB: 3kx2_B*

Probab=95.66  E-value=0.072  Score=54.74  Aligned_cols=42  Identities=26%  Similarity=0.313  Sum_probs=27.7

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeC
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDT  168 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~  168 (352)
                      ..|+.+.|.||+|||||+++-.++.......   +.+..++++..
T Consensus       107 ~~~~~vii~gpTGSGKTtllp~ll~~~~~~~---~~g~~ilvl~P  148 (773)
T 2xau_A          107 QNNQIMVFVGETGSGKTTQIPQFVLFDEMPH---LENTQVACTQP  148 (773)
T ss_dssp             HHCSEEEEECCTTSSHHHHHHHHHHHHHCGG---GGTCEEEEEES
T ss_pred             hCCCeEEEECCCCCCHHHHHHHHHHHhcccc---CCCceEEecCc
Confidence            4478999999999999997766654433210   01345776653

>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=95.66  E-value=0.01  Score=52.44  Aligned_cols=38  Identities=18%  Similarity=0.173  Sum_probs=29.3

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      .-+.|+|+||+|||+++..++.....      .+.+.++++...
T Consensus        30 ~~vll~G~~GtGKt~la~~i~~~~~~------~~~~~~~v~~~~   67 (265)
T 2bjv_A           30 KPVLIIGERGTGKELIASRLHYLSSR------WQGPFISLNCAA   67 (265)
T ss_dssp             SCEEEECCTTSCHHHHHHHHHHTSTT------TTSCEEEEEGGG
T ss_pred             CCEEEECCCCCcHHHHHHHHHHhcCc------cCCCeEEEecCC
Confidence            46889999999999999987754332      356788888654

>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin nucleotide-binding; 2.30A {Sulfolobus solfataricus}

Probab=95.66  E-value=0.036  Score=56.34  Aligned_cols=42  Identities=24%  Similarity=0.211  Sum_probs=30.7

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      +..|..+.++||+|||||+.+...+......     .+.+++|+...
T Consensus        43 ~~~~~~~lv~apTGsGKT~~~~l~il~~~~~-----~~~~il~i~P~   84 (715)
T 2va8_A           43 LLEGNRLLLTSPTGSGKTLIAEMGIISFLLK-----NGGKAIYVTPL   84 (715)
T ss_dssp             TTTTCCEEEECCTTSCHHHHHHHHHHHHHHH-----SCSEEEEECSC
T ss_pred             hcCCCcEEEEcCCCCcHHHHHHHHHHHHHHH-----CCCeEEEEeCc
Confidence            3446789999999999999987666543321     35689988654

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=95.62  E-value=0.006  Score=51.62  Aligned_cols=21  Identities=19%  Similarity=0.230  Sum_probs=19.1

Q ss_pred             EEEEecCCCCChhHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~  148 (352)
                      ++.|+|++||||||++..++.
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHH
Confidence            689999999999999998865

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=95.61  E-value=0.0057  Score=50.48  Aligned_cols=22  Identities=32%  Similarity=0.265  Sum_probs=19.8

Q ss_pred             EEEEecCCCCChhHHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ++.|+|+|||||||++..++..
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~   27 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKD   27 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            6889999999999999988764

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=95.61  E-value=0.006  Score=50.69  Aligned_cols=23  Identities=22%  Similarity=0.224  Sum_probs=20.4

Q ss_pred             cEEEEecCCCCChhHHHHHHHHH
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .++.|+|+|||||||++..++..
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~   25 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAKA   25 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999988764

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=95.61  E-value=0.0067  Score=54.25  Aligned_cols=24  Identities=25%  Similarity=0.230  Sum_probs=20.3

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhc
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQ  151 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~  151 (352)
                      .+.|+||||+|||||+..++....
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~~~   27 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKSQV   27 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            478999999999999998876543

>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=95.61  E-value=0.23  Score=40.51  Aligned_cols=23  Identities=22%  Similarity=0.115  Sum_probs=19.7

Q ss_pred             EEEEecCCCCChhHHHHHHHHHh
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      -+.|+|++|+|||+|+..++...
T Consensus         6 ki~v~G~~~~GKSsli~~l~~~~   28 (189)
T 4dsu_A            6 KLVVVGADGVGKSALTIQLIQNH   28 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            37899999999999999887543

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=95.61  E-value=0.013  Score=53.92  Aligned_cols=26  Identities=19%  Similarity=0.299  Sum_probs=22.4

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      +.+.++.|+||+|+|||+|+..+|..
T Consensus        38 ~~~~lIvI~GPTgsGKTtLa~~LA~~   63 (339)
T 3a8t_A           38 RKEKLLVLMGATGTGKSRLSIDLAAH   63 (339)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHTT
T ss_pred             cCCceEEEECCCCCCHHHHHHHHHHH
Confidence            34569999999999999999988754

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=95.59  E-value=0.011  Score=54.75  Aligned_cols=40  Identities=10%  Similarity=0.037  Sum_probs=30.0

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      +.+.++.|+|+||+|||||+..++.....      .++++..+..+
T Consensus        72 ~~~~~v~lvG~pgaGKSTLln~L~~~~~~------~~~~v~V~~~d  111 (349)
T 2www_A           72 PLAFRVGLSGPPGAGKSTFIEYFGKMLTE------RGHKLSVLAVD  111 (349)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHHHH------TTCCEEEEECC
T ss_pred             cCceEEEEEcCCCCCHHHHHHHHHHHhhh------cCCeEEEEeec
Confidence            45779999999999999999988765433      34566665544

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=95.55  E-value=0.0069  Score=50.98  Aligned_cols=22  Identities=18%  Similarity=0.348  Sum_probs=19.9

Q ss_pred             EEEEecCCCCChhHHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ++.|.|++||||||++..++..
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~   23 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKK   23 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHHh
Confidence            6899999999999999988765

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=95.54  E-value=0.0078  Score=50.84  Aligned_cols=24  Identities=17%  Similarity=0.110  Sum_probs=21.0

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ..++.|+|++||||||++..++..
T Consensus        15 ~~~I~l~G~~GsGKsT~~~~L~~~   38 (203)
T 1ukz_A           15 VSVIFVLGGPGAGKGTQCEKLVKD   38 (203)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            458999999999999999988754

>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=95.53  E-value=0.097  Score=47.97  Aligned_cols=74  Identities=11%  Similarity=0.047  Sum_probs=43.7

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhcCCCcc-----C----------CCCCeEEEEeCC---CCCChhhHHHHHHHcCCCc
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQLPTNM-----R----------GGNGKVAYIDTE---GTFRPDRIVPIAERFGMDP  188 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~~~~~~-----g----------g~~~~vl~i~~e---~~~~~~rl~~~~~~~~~~~  188 (352)
                      ..+.++||+|+|||+++..++.........     |          +....+.+++.+   .......++.+.+.+...+
T Consensus        25 ~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~~~~i~~ir~l~~~~~~~~  104 (334)
T 1a5t_A           25 HALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGKNTLGVDAVREVTEKLNEHA  104 (334)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTCSSBCHHHHHHHHHHTTSCC
T ss_pred             eeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccccCCCCCHHHHHHHHHHHhhcc
Confidence            469999999999999999998776532211     0          011346667665   2234455667666655443


Q ss_pred             ccccccEEEEec
Q 047388          189 GAVLDNIIYARA  200 (352)
Q Consensus       189 ~~~~~~i~~~~~  200 (352)
                      ..--.++.+++.
T Consensus       105 ~~~~~kvviIde  116 (334)
T 1a5t_A          105 RLGGAKVVWVTD  116 (334)
T ss_dssp             TTSSCEEEEESC
T ss_pred             ccCCcEEEEECc
Confidence            211134555543

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=95.52  E-value=0.0075  Score=51.22  Aligned_cols=25  Identities=24%  Similarity=0.137  Sum_probs=21.9

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHH
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .|..++|+||||+|||+|+..++..
T Consensus        33 ~g~~ilI~GpsGsGKStLA~~La~~   57 (205)
T 2qmh_A           33 YGLGVLITGDSGVGKSETALELVQR   57 (205)
T ss_dssp             TTEEEEEECCCTTTTHHHHHHHHTT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHh
Confidence            3677999999999999999988754

>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=95.50  E-value=0.16  Score=41.11  Aligned_cols=22  Identities=18%  Similarity=0.238  Sum_probs=19.5

Q ss_pred             EEEEecCCCCChhHHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+.|+|++|+|||+|+..++..
T Consensus        14 ki~v~G~~~~GKSsli~~l~~~   35 (181)
T 2efe_B           14 KLVLLGDVGAGKSSLVLRFVKD   35 (181)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEEECcCCCCHHHHHHHHHcC
Confidence            4789999999999999988765

>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=95.48  E-value=0.0077  Score=51.58  Aligned_cols=23  Identities=26%  Similarity=0.186  Sum_probs=20.2

Q ss_pred             EEEEecCCCCChhHHHHHHHHHh
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ++.|.|||||||+|.|..++...
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~   24 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEK   24 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            57899999999999999888653

>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=95.47  E-value=0.0059  Score=54.07  Aligned_cols=22  Identities=27%  Similarity=0.211  Sum_probs=19.8

Q ss_pred             EEEecCCCCChhHHHHHHHHHh
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      +.|+||||+|||+++..++...
T Consensus        47 vll~G~~GtGKT~la~~la~~~   68 (268)
T 2r62_A           47 VLLVGPPGTGKTLLAKAVAGEA   68 (268)
T ss_dssp             CCCBCSSCSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHHh
Confidence            7899999999999999888764

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=95.47  E-value=0.0074  Score=51.90  Aligned_cols=25  Identities=16%  Similarity=-0.027  Sum_probs=21.8

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHH
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .+.++.|.|+|||||||++..++..
T Consensus         4 ~~~~I~l~G~~GsGKsT~~~~La~~   28 (222)
T 1zak_A            4 DPLKVMISGAPASGKGTQCELIKTK   28 (222)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4568999999999999999988765

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=95.44  E-value=0.0077  Score=50.11  Aligned_cols=24  Identities=17%  Similarity=0.106  Sum_probs=20.9

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ..++.|+|+|||||||++..++..
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~   29 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRD   29 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            358999999999999999988754

>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=95.44  E-value=0.0064  Score=56.05  Aligned_cols=23  Identities=22%  Similarity=0.114  Sum_probs=20.6

Q ss_pred             EEEecCCCCChhHHHHHHHHHhc
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCTQ  151 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~~  151 (352)
                      +.|+||||+|||+++..++....
T Consensus        49 ~ll~Gp~G~GKTtla~~la~~l~   71 (340)
T 1sxj_C           49 LLFYGPPGTGKTSTIVALAREIY   71 (340)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHc
Confidence            89999999999999998887654

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=95.40  E-value=0.0089  Score=50.32  Aligned_cols=22  Identities=23%  Similarity=0.157  Sum_probs=19.4

Q ss_pred             EEEEecCCCCChhHHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .++|+||||+|||||+..++..
T Consensus         3 pIVi~GPSG~GK~Tl~~~L~~~   24 (186)
T 1ex7_A            3 PIVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            4789999999999999988654

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=95.40  E-value=0.0042  Score=52.86  Aligned_cols=23  Identities=22%  Similarity=0.163  Sum_probs=20.5

Q ss_pred             EEEEecCCCCChhHHHHHHHHHh
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ++.|.|++||||||++..++...
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l   24 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAF   24 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHH
Confidence            68999999999999999887654

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=95.38  E-value=0.0096  Score=50.83  Aligned_cols=22  Identities=18%  Similarity=0.034  Sum_probs=19.3

Q ss_pred             EEEEecCCCCChhHHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .+.|+|+|||||||++..++..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~   23 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEK   23 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999988754

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=95.38  E-value=0.0078  Score=49.31  Aligned_cols=23  Identities=17%  Similarity=0.122  Sum_probs=20.3

Q ss_pred             cEEEEecCCCCChhHHHHHHHHH
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .++.|+|++||||||++..++..
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~   25 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARA   25 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            47899999999999999988764

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=95.37  E-value=0.0094  Score=52.26  Aligned_cols=25  Identities=20%  Similarity=0.053  Sum_probs=21.8

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHH
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ++-++.|+|+|||||||++..++..
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~~   52 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKKS   52 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            4568999999999999999988754

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=95.35  E-value=0.0095  Score=48.69  Aligned_cols=24  Identities=29%  Similarity=0.272  Sum_probs=20.8

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -.++.|.|.+||||||++..++..
T Consensus         7 ~~~i~l~G~~GsGKSTva~~La~~   30 (168)
T 1zuh_A            7 MQHLVLIGFMGSGKSSLAQELGLA   30 (168)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHHHH
T ss_pred             cceEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999988764

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=95.35  E-value=0.016  Score=49.35  Aligned_cols=25  Identities=24%  Similarity=0.131  Sum_probs=21.0

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHh
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ..++.++|+||+|||++|..++...
T Consensus         5 ~mi~l~tG~pGsGKT~~a~~~~~~~   29 (199)
T 2r2a_A            5 AEICLITGTPGSGKTLKMVSMMAND   29 (199)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             eeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            3489999999999999998876554

>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=95.31  E-value=0.022  Score=49.94  Aligned_cols=40  Identities=30%  Similarity=0.322  Sum_probs=32.6

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      .+.-++.+.|.+|+||||++.+++.... .      +.+++.++.+.
T Consensus        12 ~~~~i~~~~GkgGvGKTTl~~~La~~l~-~------g~~v~vvd~D~   51 (262)
T 1yrb_A           12 MASMIVVFVGTAGSGKTTLTGEFGRYLE-D------NYKVAYVNLDT   51 (262)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHHT-T------TSCEEEEECCS
T ss_pred             cceEEEEEeCCCCCCHHHHHHHHHHHHH-C------CCeEEEEeCCC
Confidence            3457899999999999999999987655 2      56888888764

>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=95.30  E-value=0.0044  Score=52.47  Aligned_cols=27  Identities=26%  Similarity=0.249  Sum_probs=23.5

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+++|..+.|+|++|+|||||+..++.
T Consensus        22 ~~~~~~~v~lvG~~g~GKSTLl~~l~g   48 (210)
T 1pui_A           22 PSDTGIEVAFAGRSNAGKSSALNTLTN   48 (210)
T ss_dssp             SCSCSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHhC
Confidence            467899999999999999999987653

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=95.29  E-value=0.0099  Score=51.01  Aligned_cols=25  Identities=16%  Similarity=-0.047  Sum_probs=21.9

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHH
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      +|-.+.|.|+|||||||++..++..
T Consensus         4 ~~~~I~l~G~~GsGKsT~a~~La~~   28 (217)
T 3be4_A            4 KKHNLILIGAPGSGKGTQCEFIKKE   28 (217)
T ss_dssp             GCCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHH
Confidence            4568999999999999999988765

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=95.27  E-value=0.0097  Score=50.82  Aligned_cols=22  Identities=14%  Similarity=0.009  Sum_probs=19.2

Q ss_pred             EEEEecCCCCChhHHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .+.|+|+|||||||++..++..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~   23 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEK   23 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999988754

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=95.26  E-value=0.0073  Score=54.58  Aligned_cols=40  Identities=18%  Similarity=0.171  Sum_probs=26.5

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT  171 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~  171 (352)
                      +-++.|+|++||||||++..++...-.      .+..+.++++..-
T Consensus         5 ~~iIgItG~sGSGKSTva~~L~~~lg~------~~~~~~vI~~D~~   44 (290)
T 1a7j_A            5 HPIISVTGSSGAGTSTVKHTFDQIFRR------EGVKAVSIEGDAF   44 (290)
T ss_dssp             SCEEEEESCC---CCTHHHHHHHHHHH------HTCCEEEEEGGGG
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHhh------cCCCeeEeecchh
Confidence            458999999999999999988754221      2344777887654

>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=95.24  E-value=0.0064  Score=57.77  Aligned_cols=24  Identities=29%  Similarity=0.227  Sum_probs=20.5

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHH
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      .+.++.|.|+||+|||||+..++.
T Consensus        68 ~~~~valvG~nGaGKSTLln~L~G   91 (413)
T 1tq4_A           68 SVLNVAVTGETGSGKSSFINTLRG   91 (413)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHhC
Confidence            344999999999999999997654

>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=95.22  E-value=0.037  Score=56.73  Aligned_cols=26  Identities=27%  Similarity=0.167  Sum_probs=22.6

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      .+.-+.|+||||+|||+++..++...
T Consensus       206 ~~~~vlL~G~~GtGKT~la~~la~~l  231 (758)
T 1r6b_X          206 RKNNPLLVGESGVGKTAIAEGLAWRI  231 (758)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCCeEEEcCCCCCHHHHHHHHHHHH
Confidence            56678999999999999999888764

>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=95.22  E-value=0.038  Score=56.63  Aligned_cols=35  Identities=17%  Similarity=0.073  Sum_probs=27.3

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      ..+.|+||||+|||+++..++...         +...++++...
T Consensus       489 ~~~ll~G~~GtGKT~la~~la~~l---------~~~~~~i~~s~  523 (758)
T 1r6b_X          489 GSFLFAGPTGVGKTEVTVQLSKAL---------GIELLRFDMSE  523 (758)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHH---------TCEEEEEEGGG
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHh---------cCCEEEEechh
Confidence            368999999999999999887653         34677777543

>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=95.22  E-value=0.3  Score=40.21  Aligned_cols=23  Identities=26%  Similarity=0.208  Sum_probs=20.0

Q ss_pred             EEEEecCCCCChhHHHHHHHHHh
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      -+.|+|++|+|||+|+..++...
T Consensus        27 ki~v~G~~~~GKSsLi~~l~~~~   49 (193)
T 2oil_A           27 KVVLIGESGVGKTNLLSRFTRNE   49 (193)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            47899999999999999887653

>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=95.19  E-value=0.014  Score=52.43  Aligned_cols=35  Identities=20%  Similarity=0.218  Sum_probs=26.6

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      +.-+.|+||||+|||+++..++...         +.++++++..
T Consensus        50 ~~~vll~G~~GtGKT~la~~la~~l---------~~~~~~i~~~   84 (310)
T 1ofh_A           50 PKNILMIGPTGVGKTEIARRLAKLA---------NAPFIKVEAT   84 (310)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHH---------TCCEEEEEGG
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHh---------CCCEEEEcch
Confidence            3467899999999999999887654         2356677654

>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=95.19  E-value=0.35  Score=38.94  Aligned_cols=22  Identities=18%  Similarity=0.101  Sum_probs=19.6

Q ss_pred             EEEEecCCCCChhHHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+.|+|++|+|||+|+..++..
T Consensus        11 ~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A           11 KLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999988765

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=95.19  E-value=0.12  Score=54.68  Aligned_cols=49  Identities=18%  Similarity=0.287  Sum_probs=34.1

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRI  177 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl  177 (352)
                      ..++.|+|+.|+|||||+.+++........   ...+++|++....++...+
T Consensus       150 ~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~---Fd~gV~WVsVs~~~d~~~I  198 (1221)
T 1vt4_I          150 AKNVLIDGVLGSGKTWVALDVCLSYKVQCK---MDFKIFWLNLKNCNSPETV  198 (1221)
T ss_dssp             SCEEEECCSTTSSHHHHHHHHHHHCHHHHH---HSSCEEEEECCCSSSHHHH
T ss_pred             CeEEEEEcCCCccHHHHHHHHHHhhHHHHh---CCCcEEEEEeCCCCCHHHH
Confidence            579999999999999999988743211000   2346899988766555443

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=95.18  E-value=0.011  Score=49.62  Aligned_cols=23  Identities=30%  Similarity=0.307  Sum_probs=20.4

Q ss_pred             CcEEEEecCCCCChhHHHHHHHH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      ..++.|+|++||||||++..++.
T Consensus         8 ~~~I~i~G~~GsGKST~~~~La~   30 (203)
T 1uf9_A            8 PIIIGITGNIGSGKSTVAALLRS   30 (203)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            45899999999999999998875

>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=95.17  E-value=0.14  Score=42.02  Aligned_cols=23  Identities=22%  Similarity=0.105  Sum_probs=20.1

Q ss_pred             EEEEecCCCCChhHHHHHHHHHh
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      -+.++|++|+|||+|+..++...
T Consensus        23 ki~vvG~~~~GKSsli~~l~~~~   45 (190)
T 3con_A           23 KLVVVGAGGVGKSALTIQLIQNH   45 (190)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            47899999999999999988653

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=95.17  E-value=0.013  Score=51.04  Aligned_cols=27  Identities=19%  Similarity=0.076  Sum_probs=23.0

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -++|.++.|+|++||||||++..++..
T Consensus        13 ~~~~~~i~i~G~~gsGKst~~~~l~~~   39 (236)
T 1q3t_A           13 KMKTIQIAIDGPASSGKSTVAKIIAKD   39 (236)
T ss_dssp             -CCCCEEEEECSSCSSHHHHHHHHHHH
T ss_pred             ccCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            457889999999999999999987753

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=95.17  E-value=0.17  Score=41.73  Aligned_cols=22  Identities=27%  Similarity=0.250  Sum_probs=19.7

Q ss_pred             EEEEecCCCCChhHHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+.|+|++|+|||+|+..++..
T Consensus         9 ki~v~G~~~~GKSsli~~l~~~   30 (208)
T 3clv_A            9 KTVLLGESSVGKSSIVLRLTKD   30 (208)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3789999999999999988765

>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=95.16  E-value=0.16  Score=40.53  Aligned_cols=21  Identities=19%  Similarity=0.172  Sum_probs=18.9

Q ss_pred             EEEecCCCCChhHHHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~  149 (352)
                      +.++|++|+|||+|+..++..
T Consensus         6 i~v~G~~~~GKssli~~l~~~   26 (167)
T 1c1y_A            6 LVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            689999999999999988764

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=95.14  E-value=0.012  Score=48.02  Aligned_cols=22  Identities=23%  Similarity=0.194  Sum_probs=19.6

Q ss_pred             EEEEecCCCCChhHHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ++.|.|++||||||++..++..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~   23 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRS   23 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999988764

>2woj_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; HET: ADP; 1.99A {Saccharomyces cerevisiae} PDB: 3h84_A 3zs8_A 3zs9_A* 3sja_A 3sjb_A 3sjc_A 3sjd_A* 3idq_A 3a36_A 3a37_A*

Probab=95.13  E-value=0.026  Score=52.40  Aligned_cols=51  Identities=20%  Similarity=0.154  Sum_probs=41.0

Q ss_pred             hhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhc--CCCccCCCCCeEEEEeCCCC
Q 047388          113 QALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQ--LPTNMRGGNGKVAYIDTEGT  171 (352)
Q Consensus       113 ~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~--~~~~~gg~~~~vl~i~~e~~  171 (352)
                      +.|+.++..  +...++...|..|+||||++.++|...+  .      .+.+|+.+|++..
T Consensus         7 ~~l~~l~~~--~~~~i~v~sgKGGvGKTTvaanLA~~lA~~~------~G~rVLLvD~D~~   59 (354)
T 2woj_A            7 PNLHSLITS--TTHKWIFVGGKGGVGKTTSSCSIAIQMALSQ------PNKQFLLISTDPA   59 (354)
T ss_dssp             SSCHHHHTC--SSCCEEEEEESTTSSHHHHHHHHHHHHHHHC------TTSCEEEEECCSS
T ss_pred             ccHHHHhcC--CCcEEEEEeCCCCCcHHHHHHHHHHHHHHhc------CCCeEEEEECCCC
Confidence            346676643  2346888889999999999999999887  6      6889999999853

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=95.12  E-value=0.012  Score=55.04  Aligned_cols=45  Identities=9%  Similarity=0.206  Sum_probs=31.4

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      .+|+++++|+.++.+.+        ..+    ..++..|+++.+ .|.+||+++|-..
T Consensus       302 ~~p~~lllDEpt~~LD~--------~~~----~~~~~~l~~l~~-~g~tvi~itH~~~  346 (365)
T 3qf7_A          302 GRLDAFFIDEGFSSLDT--------ENK----EKIASVLKELER-LNKVIVFITHDRE  346 (365)
T ss_dssp             TTCCEEEEESCCTTSCH--------HHH----HHHHHHHHGGGG-SSSEEEEEESCHH
T ss_pred             CCCCEEEEeCCCccCCH--------HHH----HHHHHHHHHHHh-CCCEEEEEecchH
Confidence            47899999988776432        222    366677777754 5899999999653

>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=95.12  E-value=0.22  Score=40.49  Aligned_cols=22  Identities=18%  Similarity=0.114  Sum_probs=19.5

Q ss_pred             EEEEecCCCCChhHHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+.|+|++|+|||+|+..++..
T Consensus        20 ki~v~G~~~~GKSsl~~~l~~~   41 (183)
T 3kkq_A           20 KLVVVGDGGVGKSALTIQFFQK   41 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999988755

>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=95.12  E-value=0.011  Score=51.51  Aligned_cols=24  Identities=17%  Similarity=0.267  Sum_probs=21.0

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .-++.|.|+|||||||++..++..
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~~   32 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLARA   32 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            458999999999999999988754

>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=95.10  E-value=0.022  Score=52.09  Aligned_cols=35  Identities=23%  Similarity=0.207  Sum_probs=28.2

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      .++.|.|++|+|||+|+.+++....         ..++|++...
T Consensus        31 ~~v~i~G~~G~GKT~L~~~~~~~~~---------~~~~~~~~~~   65 (357)
T 2fna_A           31 PITLVLGLRRTGKSSIIKIGINELN---------LPYIYLDLRK   65 (357)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHT---------CCEEEEEGGG
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhcC---------CCEEEEEchh
Confidence            5999999999999999998876532         2478888653

>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=95.10  E-value=0.25  Score=40.76  Aligned_cols=23  Identities=13%  Similarity=0.157  Sum_probs=19.9

Q ss_pred             EEEEecCCCCChhHHHHHHHHHh
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      -+.|+|++|+|||+|+..++..-
T Consensus        25 ki~vvG~~~~GKSsli~~l~~~~   47 (192)
T 2fg5_A           25 KVCLLGDTGVGKSSIVCRFVQDH   47 (192)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHCC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            47899999999999999887643

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=95.08  E-value=0.013  Score=50.13  Aligned_cols=23  Identities=26%  Similarity=0.325  Sum_probs=20.4

Q ss_pred             CcEEEEecCCCCChhHHHHHHHH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      +-++.|+|++||||||++..++.
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            46899999999999999998764

>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=95.08  E-value=0.43  Score=38.35  Aligned_cols=22  Identities=27%  Similarity=0.196  Sum_probs=19.3

Q ss_pred             EEEEecCCCCChhHHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+.|+|++|+|||+|+..++..
T Consensus        16 ~i~v~G~~~~GKssli~~l~~~   37 (179)
T 2y8e_A           16 KLVFLGEQSVGKTSLITRFMYD   37 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4789999999999999988754

>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=95.06  E-value=0.013  Score=57.78  Aligned_cols=26  Identities=31%  Similarity=0.321  Sum_probs=23.6

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      +|.++.|+||||+|||+|+..++...
T Consensus       107 ~g~~vll~Gp~GtGKTtlar~ia~~l  132 (543)
T 3m6a_A          107 KGPILCLAGPPGVGKTSLAKSIAKSL  132 (543)
T ss_dssp             CSCEEEEESSSSSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhc
Confidence            79999999999999999999887654

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=95.05  E-value=0.019  Score=50.69  Aligned_cols=38  Identities=11%  Similarity=0.132  Sum_probs=32.4

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT  171 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~  171 (352)
                      ++.|.|..|+||||++.++|...+.      .+.+|+.+|.+..
T Consensus         3 vI~vs~KGGvGKTT~a~nLA~~la~------~G~~VlliD~D~q   40 (269)
T 1cp2_A            3 QVAIYGKGGIGKSTTTQNLTSGLHA------MGKTIMVVGCDPK   40 (269)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHT------TTCCEEEEEECTT
T ss_pred             EEEEecCCCCcHHHHHHHHHHHHHH------CCCcEEEEcCCCC
Confidence            5666899999999999999988876      6789999998743

>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=95.05  E-value=0.023  Score=48.79  Aligned_cols=37  Identities=19%  Similarity=0.063  Sum_probs=28.2

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEE
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYI  166 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i  166 (352)
                      .+|.++.|.|++||||||++..++.....      .+.+|+..
T Consensus         4 m~g~~i~~eG~~gsGKsT~~~~l~~~l~~------~~~~v~~~   40 (213)
T 4edh_A            4 MTGLFVTLEGPEGAGKSTNRDYLAERLRE------RGIEVQLT   40 (213)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHHHT------TTCCEEEE
T ss_pred             CCceEEEEEcCCCCCHHHHHHHHHHHHHH------cCCCcccc
Confidence            35889999999999999999988765543      44566544

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=95.01  E-value=0.017  Score=55.52  Aligned_cols=30  Identities=23%  Similarity=0.138  Sum_probs=24.8

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      .|..++.-++|+||||+|||+++..++...
T Consensus        58 ~~~~~~~~iLl~GppGtGKT~la~ala~~l   87 (456)
T 2c9o_A           58 SKKMAGRAVLLAGPPGTGKTALALAIAQEL   87 (456)
T ss_dssp             TTCCTTCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             hCCCCCCeEEEECCCcCCHHHHHHHHHHHh
Confidence            455566678999999999999999888764

>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=95.00  E-value=0.019  Score=52.66  Aligned_cols=22  Identities=23%  Similarity=0.135  Sum_probs=20.0

Q ss_pred             EEEecCCCCChhHHHHHHHHHh
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      +.|+||||+|||+++..++...
T Consensus        61 ~ll~G~~G~GKT~la~~la~~l   82 (353)
T 1sxj_D           61 MLFYGPPGTGKTSTILALTKEL   82 (353)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            8999999999999999888764

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=95.00  E-value=0.0071  Score=50.20  Aligned_cols=39  Identities=23%  Similarity=0.141  Sum_probs=25.4

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      +++.|+|++|||||||+..++......    |.....+.++..
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~~~~----g~~~G~I~~dg~   41 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPILRER----GLRVAVVKRHAH   41 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHHHHT----TCCEEEEEC---
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhhhc----CCceEEEEEcCc
Confidence            578999999999999999877654421    012345565544

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=95.00  E-value=0.011  Score=53.78  Aligned_cols=26  Identities=23%  Similarity=0.252  Sum_probs=22.0

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      +..|+++.|.|+||+|||||+..++.
T Consensus       166 ~l~geiv~l~G~sG~GKSTll~~l~g  191 (301)
T 1u0l_A          166 YLKGKISTMAGLSGVGKSSLLNAINP  191 (301)
T ss_dssp             HHSSSEEEEECSTTSSHHHHHHHHST
T ss_pred             HhcCCeEEEECCCCCcHHHHHHHhcc
Confidence            34588999999999999999996653

>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=94.96  E-value=0.013  Score=51.50  Aligned_cols=44  Identities=11%  Similarity=0.059  Sum_probs=29.6

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT  171 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~  171 (352)
                      -++.|+|++||||||++..++...-.+.-. ..+..++++++..-
T Consensus        23 ~iI~I~G~~GSGKST~a~~L~~~lg~~~~d-~~~~~~~~i~~D~~   66 (252)
T 1uj2_A           23 FLIGVSGGTASGKSSVCAKIVQLLGQNEVD-YRQKQVVILSQDSF   66 (252)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTTGGGSC-GGGCSEEEEEGGGG
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhhhhccc-ccCCceEEEecCcc
Confidence            489999999999999999887643221000 01345777887653

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=94.94  E-value=0.033  Score=51.60  Aligned_cols=49  Identities=18%  Similarity=0.150  Sum_probs=40.5

Q ss_pred             hhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhc--CCCccCCCCCeEEEEeCCC
Q 047388          114 ALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQ--LPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       114 ~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~--~~~~~gg~~~~vl~i~~e~  170 (352)
                      .|+.++..  +.-.++.+.|..|+||||++.++|...+  .      .+.+|+.+|+..
T Consensus         8 ~L~~~l~~--~~~~i~~~~gkGGvGKTt~a~~lA~~la~~~------~g~~vllid~D~   58 (348)
T 3io3_A            8 TLESIVQH--DSLKWIFVGGKGGVGKTTTSSSVAVQLALAQ------PNEQFLLISTDP   58 (348)
T ss_dssp             SSHHHHTC--TTCSEEEEECSTTSSHHHHHHHHHHHHHHHC------TTSCEEEEECCS
T ss_pred             hHHHHhcC--CCcEEEEEeCCCCCcHHHHHHHHHHHHHHhc------CCCeEEEEECCC
Confidence            46666753  2347999999999999999999998887  6      688999999983

>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=94.93  E-value=0.0044  Score=56.47  Aligned_cols=26  Identities=19%  Similarity=0.126  Sum_probs=22.5

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      +.+|+++.|.|+||+|||||+..++.
T Consensus       170 ~~~G~~~~lvG~sG~GKSTLln~L~g  195 (307)
T 1t9h_A          170 HFQDKTTVFAGQSGVGKSSLLNAISP  195 (307)
T ss_dssp             GGTTSEEEEEESHHHHHHHHHHHHCC
T ss_pred             hcCCCEEEEECCCCCCHHHHHHHhcc
Confidence            45689999999999999999997653

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=94.89  E-value=0.017  Score=50.14  Aligned_cols=25  Identities=24%  Similarity=0.213  Sum_probs=21.7

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHH
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .+..+.|.|++||||||++..++..
T Consensus        15 ~~~~I~l~G~~GsGKsT~a~~La~~   39 (233)
T 1ak2_A           15 KGVRAVLLGPPGAGKGTQAPKLAKN   39 (233)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3468999999999999999988765

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=94.89  E-value=0.33  Score=39.88  Aligned_cols=23  Identities=22%  Similarity=0.098  Sum_probs=20.0

Q ss_pred             EEEEecCCCCChhHHHHHHHHHh
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      -+.|+|++|+|||+|+..++...
T Consensus        18 ki~v~G~~~~GKSsli~~l~~~~   40 (196)
T 3tkl_A           18 KLLLIGDSGVGKSCLLLRFADDT   40 (196)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            48899999999999999887643

>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=94.88  E-value=0.026  Score=52.45  Aligned_cols=26  Identities=35%  Similarity=0.224  Sum_probs=22.0

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ++.-++|+||||+|||+++..++...
T Consensus        50 ~~~~vll~GppGtGKT~la~~ia~~~   75 (363)
T 3hws_A           50 GKSNILLIGPTGSGKTLLAETLARLL   75 (363)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHc
Confidence            45568999999999999999887653

>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=94.87  E-value=0.018  Score=46.46  Aligned_cols=22  Identities=32%  Similarity=0.437  Sum_probs=19.3

Q ss_pred             cEEEEecCCCCChhHHHHHHHH
Q 047388          127 AITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      .++.|+||+|+|||+++..+..
T Consensus        24 g~~~I~G~NGsGKStil~Ai~~   45 (149)
T 1f2t_A           24 GINLIIGQNGSGKSSLLDAILV   45 (149)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3899999999999999886654

>1ihu_A Arsenical pump-driving ATPase; aluminum fluoride, ADP, ARSA ATPase, ATP binding site, hydro; HET: ADP; 2.15A {Escherichia coli} SCOP: c.37.1.10 c.37.1.10 PDB: 1f48_A* 1ii0_A* 1ii9_A*

Probab=94.86  E-value=0.02  Score=56.89  Aligned_cols=52  Identities=17%  Similarity=0.154  Sum_probs=41.3

Q ss_pred             hhhHHhhcC-CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          113 QALDELLGG-GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       113 ~~LD~~L~G-Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      +.||.++++ +-....++.+.|.+|+||||++.++|...+.      .+.+|+++|+..
T Consensus       313 ~~l~~~~~~~~~~~~~~~~~~~~~g~Gktt~a~~lA~~l~~------~g~~vllvD~Dp  365 (589)
T 1ihu_A          313 PSLSALVDDIARNEHGLIMLMGKGGVGKTTMAAAIAVRLAD------MGFDVHLTTSDP  365 (589)
T ss_dssp             CCHHHHHHHHHTTSCEEEEEECSTTSSHHHHHHHHHHHHHH------TTCCEEEEESCC
T ss_pred             chhhhhhhhhhccCCeEEEEecCCCCChhhHHHHHHHHHHH------CCCcEEEEeCCC
Confidence            567777643 2344567888999999999999999988776      678999999874

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=94.86  E-value=0.42  Score=37.87  Aligned_cols=43  Identities=21%  Similarity=0.123  Sum_probs=28.4

Q ss_pred             EEEecCCCCChhHHHHHHHHHhcCCC--ccC-------CCCCeEEEEeCCCC
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCTQLPT--NMR-------GGNGKVAYIDTEGT  171 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~~~~~--~~g-------g~~~~vl~i~~e~~  171 (352)
                      +.+.|++|+|||+|+..++..-....  +.+       ..+..+.++|+.+.
T Consensus         3 i~~~G~~~~GKssl~~~l~~~~~~~~~~t~~~~~~~~~~~~~~~~i~Dt~G~   54 (164)
T 1r8s_A            3 ILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVETVEYKNISFTVWDVGGQ   54 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHCSSCCCCCSSCCEEEEECSSCEEEEEECCCC
T ss_pred             EEEECCCCCCHHHHHHHHHcCCcCcccCcCceeEEEEEECCEEEEEEEcCCC
Confidence            68999999999999999876533211  111       12345667777654

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=94.84  E-value=0.015  Score=50.17  Aligned_cols=22  Identities=23%  Similarity=0.078  Sum_probs=19.6

Q ss_pred             EEEEecCCCCChhHHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ++.|.|+|||||||++..++..
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~   23 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDK   23 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999988754

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=94.84  E-value=0.021  Score=51.89  Aligned_cols=40  Identities=18%  Similarity=0.331  Sum_probs=30.3

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      .+.-+.|+|+||+|||+++..++.....      .+.+.+++++..
T Consensus        24 ~~~~vLi~Ge~GtGKt~lAr~i~~~~~~------~~~~~v~v~~~~   63 (304)
T 1ojl_A           24 SDATVLIHGDSGTGKELVARALHACSAR------SDRPLVTLNCAA   63 (304)
T ss_dssp             TTSCEEEESCTTSCHHHHHHHHHHHSSC------SSSCCCEEECSS
T ss_pred             CCCcEEEECCCCchHHHHHHHHHHhCcc------cCCCeEEEeCCC
Confidence            3556899999999999999988765432      456677887764

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=94.84  E-value=0.021  Score=56.97  Aligned_cols=28  Identities=18%  Similarity=0.184  Sum_probs=23.6

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      +..|..+.|.||||+|||||+..++...
T Consensus        57 i~~g~~vll~Gp~GtGKTtlar~ia~~l   84 (604)
T 3k1j_A           57 ANQKRHVLLIGEPGTGKSMLGQAMAELL   84 (604)
T ss_dssp             HHTTCCEEEECCTTSSHHHHHHHHHHTS
T ss_pred             ccCCCEEEEEeCCCCCHHHHHHHHhccC
Confidence            4556899999999999999999877643

>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=94.83  E-value=0.017  Score=50.16  Aligned_cols=36  Identities=22%  Similarity=0.163  Sum_probs=31.4

Q ss_pred             EEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      +.|.|..|+||||++.++|...+.      .+.+|+.+|...
T Consensus         3 I~vs~kGGvGKTt~a~~LA~~la~------~g~~VlliD~D~   38 (254)
T 3kjh_A            3 LAVAGKGGVGKTTVAAGLIKIMAS------DYDKIYAVDGDP   38 (254)
T ss_dssp             EEEECSSSHHHHHHHHHHHHHHTT------TCSCEEEEEECT
T ss_pred             EEEecCCCCCHHHHHHHHHHHHHH------CCCeEEEEeCCC
Confidence            455899999999999999998876      678999999875

>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold, ATP-binding, hydrolase, nucleotide- binding; 2.00A {Pyrococcus furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A*

Probab=94.83  E-value=0.025  Score=57.67  Aligned_cols=42  Identities=29%  Similarity=0.171  Sum_probs=29.5

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      ..|..+.++||+|||||+.+...+......     .+.+++|+....
T Consensus        37 ~~~~~~lv~apTGsGKT~~~~l~il~~~~~-----~~~~~l~i~P~r   78 (720)
T 2zj8_A           37 LEGKNALISIPTASGKTLIAEIAMVHRILT-----QGGKAVYIVPLK   78 (720)
T ss_dssp             GGTCEEEEECCGGGCHHHHHHHHHHHHHHH-----HCSEEEEECSSG
T ss_pred             cCCCcEEEEcCCccHHHHHHHHHHHHHHHh-----CCCEEEEEcCcH
Confidence            346789999999999998875444433221     257899987653

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=94.76  E-value=0.017  Score=48.79  Aligned_cols=22  Identities=27%  Similarity=0.342  Sum_probs=19.9

Q ss_pred             EEEEecCCCCChhHHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ++.|+|++||||||++..++..
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~   25 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAA   25 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            8999999999999999988754

>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=94.75  E-value=0.029  Score=52.35  Aligned_cols=27  Identities=30%  Similarity=0.214  Sum_probs=22.3

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      .+...+.|+||||+|||+++..++...
T Consensus        70 ~~~~~ill~Gp~GtGKT~la~~la~~l   96 (376)
T 1um8_A           70 LSKSNILLIGPTGSGKTLMAQTLAKHL   96 (376)
T ss_dssp             CCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             cCCCCEEEECCCCCCHHHHHHHHHHHh
Confidence            345568999999999999999887653

>1w1w_A Structural maintenance of chromosome 1; cohesin, chromosome segregation, cell adhesion, kleisin, MIT cell cycle; HET: ATG; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.12

Probab=94.75  E-value=0.019  Score=54.73  Aligned_cols=27  Identities=19%  Similarity=0.327  Sum_probs=23.3

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      +.+|+++.|+||+|+|||+|+..++..
T Consensus        23 ~~~~~~~~i~G~nG~GKstll~ai~~~   49 (430)
T 1w1w_A           23 FGESNFTSIIGPNGSGKSNMMDAISFV   49 (430)
T ss_dssp             CTTCSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ecCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            456899999999999999999877654

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=94.74  E-value=0.018  Score=53.10  Aligned_cols=23  Identities=26%  Similarity=0.254  Sum_probs=20.6

Q ss_pred             cEEEEecCCCCChhHHHHHHHHH
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .++.|+||+|||||||+..++..
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~   30 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKK   30 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCcCcHHHHHHHHHHH
Confidence            38999999999999999988764

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=94.74  E-value=0.017  Score=48.77  Aligned_cols=24  Identities=17%  Similarity=0.230  Sum_probs=20.8

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      --++.|+|.+||||||++..++..
T Consensus        12 ~~iIgltG~~GSGKSTva~~L~~~   35 (192)
T 2grj_A           12 HMVIGVTGKIGTGKSTVCEILKNK   35 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHh
Confidence            457899999999999999988754

>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=94.69  E-value=0.41  Score=39.33  Aligned_cols=23  Identities=17%  Similarity=0.180  Sum_probs=20.1

Q ss_pred             EEEEecCCCCChhHHHHHHHHHh
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      -+.|+|++|+|||+|+..++...
T Consensus        23 ki~vvG~~~vGKTsLi~~l~~~~   45 (187)
T 3c5c_A           23 NLAILGRRGAGKSALTVKFLTKR   45 (187)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCcHHHHHHHHHhCC
Confidence            48899999999999999887653

>2o5v_A DNA replication and repair protein RECF; ABC ATPase, walker A motif, P-loop, signature motif, replication/recombination complex; HET: DNA; 1.61A {Deinococcus radiodurans}

Probab=94.66  E-value=0.018  Score=53.68  Aligned_cols=25  Identities=32%  Similarity=0.537  Sum_probs=22.0

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      +.+| ++.|+||+|+|||+++..++.
T Consensus        24 ~~~g-~~~i~G~nG~GKttll~ai~~   48 (359)
T 2o5v_A           24 FPEG-VTGIYGENGAGKTNLLEAAYL   48 (359)
T ss_dssp             CCSE-EEEEECCTTSSHHHHHHHHHH
T ss_pred             EcCC-eEEEECCCCCChhHHHHHHHH
Confidence            5677 999999999999999987765

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=94.65  E-value=0.017  Score=49.25  Aligned_cols=22  Identities=18%  Similarity=0.043  Sum_probs=19.4

Q ss_pred             EEEEecCCCCChhHHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .+.|.|+|||||||++..++..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~   23 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEK   23 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999988764

>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=94.63  E-value=0.22  Score=41.06  Aligned_cols=23  Identities=22%  Similarity=0.109  Sum_probs=20.3

Q ss_pred             EEEEecCCCCChhHHHHHHHHHh
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      -+.|+|++|+|||+|+..++...
T Consensus        25 ki~v~G~~~~GKSsli~~l~~~~   47 (191)
T 3dz8_A           25 KLLIIGNSSVGKTSFLFRYADDT   47 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCcCHHHHHHHHhcCC
Confidence            47899999999999999987654

>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=94.63  E-value=0.024  Score=50.78  Aligned_cols=39  Identities=15%  Similarity=0.161  Sum_probs=32.9

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT  171 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~  171 (352)
                      .++.|.|..|+||||++.++|...+.      .+.+|+.+|....
T Consensus         3 kvIavs~KGGvGKTT~a~nLA~~La~------~G~rVlliD~D~q   41 (289)
T 2afh_E            3 RQCAIYGKGGIGKSTTTQNLVAALAE------MGKKVMIVGCDPK   41 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHH------TTCCEEEEEECSS
T ss_pred             eEEEEeCCCcCcHHHHHHHHHHHHHH------CCCeEEEEecCCC
Confidence            35667899999999999999988876      6789999998743

>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=94.62  E-value=0.87  Score=37.48  Aligned_cols=22  Identities=23%  Similarity=0.247  Sum_probs=19.7

Q ss_pred             EEEEecCCCCChhHHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+.|+|++|+|||+|+..++..
T Consensus        30 ki~v~G~~~vGKSsli~~l~~~   51 (196)
T 2atv_A           30 KLAIFGRAGVGKSALVVRFLTK   51 (196)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            5889999999999999988765

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=94.61  E-value=0.023  Score=57.16  Aligned_cols=40  Identities=15%  Similarity=0.067  Sum_probs=31.4

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      ...+.+|.||||+|||+.+.+++.....      .+.+++..+..+
T Consensus       204 ~~~~~lI~GPPGTGKT~ti~~~I~~l~~------~~~~ILv~a~TN  243 (646)
T 4b3f_X          204 QKELAIIHGPPGTGKTTTVVEIILQAVK------QGLKVLCCAPSN  243 (646)
T ss_dssp             CSSEEEEECCTTSCHHHHHHHHHHHHHH------TTCCEEEEESSH
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHHHHh------CCCeEEEEcCch
Confidence            4569999999999999998888777665      456777766553

>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication, viral replication, nucleotide-binding; 2.10A {Kokobera virus} PDB: 2v6j_A

Probab=94.59  E-value=0.097  Score=49.84  Aligned_cols=50  Identities=12%  Similarity=-0.049  Sum_probs=32.4

Q ss_pred             CCcEEEEecCCCCChhHHH-HHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHc
Q 047388          125 TGAITEAFGEFRSGKTQLA-HTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERF  184 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~-~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~  184 (352)
                      +|..+++.||+|||||..+ ..++..+..      .+.+++|+...    ..-..++.+.+
T Consensus         1 kg~~~lv~a~TGsGKT~~~l~~~l~~~~~------~g~~~lvl~Pt----~~La~Q~~~~~   51 (431)
T 2v6i_A            1 KRELTVLDLHPGAGKTRRVLPQLVREAVK------KRLRTVILAPT----RVVASEMYEAL   51 (431)
T ss_dssp             -CCEEEEECCTTSCTTTTHHHHHHHHHHH------TTCCEEEEESS----HHHHHHHHHHT
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHHh------CCCCEEEECcH----HHHHHHHHHHh
Confidence            3778999999999999975 433323332      45678888754    23344555555

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=94.58  E-value=0.018  Score=51.82  Aligned_cols=22  Identities=27%  Similarity=0.264  Sum_probs=20.0

Q ss_pred             cEEEEecCCCCChhHHHHHHHH
Q 047388          127 AITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      .++.|.|+|||||||++..++.
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~   24 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIA   24 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999998876

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=94.58  E-value=0.031  Score=51.18  Aligned_cols=23  Identities=30%  Similarity=0.303  Sum_probs=20.6

Q ss_pred             cEEEEecCCCCChhHHHHHHHHH
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .++.|+||+|||||+++..++..
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~   28 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADA   28 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            48999999999999999988764

>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=94.54  E-value=0.029  Score=51.27  Aligned_cols=42  Identities=17%  Similarity=0.228  Sum_probs=36.2

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      +..-.++.|+|.-|+||||.+.+++...+.      .+.+|+.+|.+-
T Consensus        45 i~~aKVIAIaGKGGVGKTTtavNLA~aLA~------~GkkVllID~Dp   86 (314)
T 3fwy_A           45 ITGAKVFAVYGKGGIGKSTTSSNLSAAFSI------LGKRVLQIGCDP   86 (314)
T ss_dssp             --CCEEEEEECSTTSSHHHHHHHHHHHHHH------TTCCEEEEEESS
T ss_pred             CCCceEEEEECCCccCHHHHHHHHHHHHHH------CCCeEEEEecCC
Confidence            445679999999999999999999998887      788999999873

>4f92_B U5 small nuclear ribonucleoprotein 200 kDa helica; RNP remodeling, PRE-mRNA splicing, spliceosome catalytic ACT DEXD/H-box RNA helicase; HET: SAN; 2.66A {Homo sapiens} PDB: 4f93_B* 4f91_B

Probab=94.54  E-value=0.057  Score=60.25  Aligned_cols=47  Identities=11%  Similarity=0.134  Sum_probs=36.6

Q ss_pred             CCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHH
Q 047388           37 QGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAE   85 (352)
Q Consensus        37 ~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~   85 (352)
                      ++++...+.+|.++|+ +.+++...++.++..+.+... --.++.+.+.
T Consensus       732 ~~i~~~~~~~l~~~~~-~~~~l~~~~~~~l~~~~~~~~-~g~~i~~~~~  778 (1724)
T 4f92_B          732 RKLPEEVVKKIEKKNF-PFERLYDLNHNEIGELIRMPK-MGKTIHKYVH  778 (1724)
T ss_dssp             TTSCHHHHHHHHTSSC-CGGGGGGCCHHHHHHHHTCST-THHHHHHHHT
T ss_pred             CCCCHHHHHHHHhcCC-CHHHHHhCCHHHHHHHHCCch-HHHHHHHHHH
Confidence            6899999999999999 899999999999998876542 2333444444

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=94.50  E-value=0.019  Score=54.67  Aligned_cols=24  Identities=21%  Similarity=0.213  Sum_probs=21.2

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHH
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      ...++.|+|+|||||||++..++.
T Consensus       257 ~~~lIil~G~pGSGKSTla~~L~~  280 (416)
T 3zvl_A          257 NPEVVVAVGFPGAGKSTFIQEHLV  280 (416)
T ss_dssp             SCCEEEEESCTTSSHHHHHHHHTG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999999998764

>2p6r_A Afuhel308 helicase; protein-DNA complex, SF2 helicase, archaeal helicase, DNA repair,, DNA binding protein/DNA complex; 3.00A {Archaeoglobus fulgidus} SCOP: a.4.5.43 a.289.1.2 c.37.1.19 c.37.1.19 PDB: 2p6u_A

Probab=94.46  E-value=0.027  Score=57.25  Aligned_cols=38  Identities=26%  Similarity=0.184  Sum_probs=29.5

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      |..+.++||+|||||+.+...+.....      .+.+++|+...
T Consensus        40 ~~~~lv~apTGsGKT~~~~l~il~~~~------~~~~~l~i~P~   77 (702)
T 2p6r_A           40 GKNLLLAMPTAAGKTLLAEMAMVREAI------KGGKSLYVVPL   77 (702)
T ss_dssp             CSCEEEECSSHHHHHHHHHHHHHHHHH------TTCCEEEEESS
T ss_pred             CCcEEEEcCCccHHHHHHHHHHHHHHH------hCCcEEEEeCc
Confidence            678999999999999988766655443      35789998754

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=94.45  E-value=0.021  Score=51.17  Aligned_cols=22  Identities=27%  Similarity=0.172  Sum_probs=20.0

Q ss_pred             CcEEEEecCCCCChhHHHHHHH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la  147 (352)
                      .-++.|+|++||||||++..++
T Consensus        75 ~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           75 LYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            3589999999999999999887

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=94.45  E-value=0.022  Score=46.72  Aligned_cols=24  Identities=25%  Similarity=0.285  Sum_probs=20.7

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHH
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      +|.-+.|+|+||+|||+|+..++.
T Consensus         3 ~~~ki~ivG~~g~GKStLl~~l~~   26 (172)
T 2gj8_A            3 HGMKVVIAGRPNAGKSSLLNALAG   26 (172)
T ss_dssp             -CEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            567899999999999999998864

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=94.45  E-value=0.022  Score=51.89  Aligned_cols=24  Identities=21%  Similarity=0.207  Sum_probs=21.0

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      +.++.|+||+|||||+|+..++..
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~~   26 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAKR   26 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHT
T ss_pred             CcEEEEECCCcCCHHHHHHHHHHh
Confidence            458899999999999999988754

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=94.44  E-value=0.022  Score=47.18  Aligned_cols=24  Identities=25%  Similarity=0.126  Sum_probs=21.2

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      |.-++|.|+||+||||++..++..
T Consensus        16 G~gvli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           16 KMGVLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHHT
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc
Confidence            567899999999999999988764

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=94.44  E-value=0.048  Score=47.22  Aligned_cols=40  Identities=10%  Similarity=0.025  Sum_probs=32.0

Q ss_pred             CcEEEEe-cCCCCChhHHHHHHHHHhcCCCccCCC-CCeEEEEeCCCC
Q 047388          126 GAITEAF-GEFRSGKTQLAHTLCVCTQLPTNMRGG-NGKVAYIDTEGT  171 (352)
Q Consensus       126 G~i~~I~-G~~GsGKTtl~~~la~~~~~~~~~gg~-~~~vl~i~~e~~  171 (352)
                      +.++.++ +..|+||||++.++|...+.      . +.+|+++|.+..
T Consensus         4 ~~vI~v~s~kGGvGKTt~a~~LA~~la~------~~g~~VlliD~D~~   45 (245)
T 3ea0_A            4 KRVFGFVSAKGGDGGSCIAANFAFALSQ------EPDIHVLAVDISLP   45 (245)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHHHTT------STTCCEEEEECCTT
T ss_pred             CeEEEEECCCCCcchHHHHHHHHHHHHh------CcCCCEEEEECCCC
Confidence            4455555 66899999999999998876      5 889999998743

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=94.43  E-value=0.021  Score=47.68  Aligned_cols=23  Identities=17%  Similarity=0.180  Sum_probs=20.1

Q ss_pred             EEEEecCCCCChhHHHHHHHHHh
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      .+.|.|++|+|||||+..++...
T Consensus        31 kv~lvG~~g~GKSTLl~~l~~~~   53 (191)
T 1oix_A           31 KVVLIGDSGVGKSNLLSRFTRNE   53 (191)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            68999999999999999887643

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=94.43  E-value=0.018  Score=52.60  Aligned_cols=23  Identities=30%  Similarity=0.264  Sum_probs=20.6

Q ss_pred             cEEEEecCCCCChhHHHHHHHHH
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .++.|+|++|||||||+..++..
T Consensus         5 ~v~~i~G~~GaGKTTll~~l~~~   27 (318)
T 1nij_A            5 AVTLLTGFLGAGKTTLLRHILNE   27 (318)
T ss_dssp             EEEEEEESSSSSCHHHHHHHHHS
T ss_pred             cEEEEEecCCCCHHHHHHHHHhh
Confidence            58999999999999999988754

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=94.37  E-value=0.046  Score=46.47  Aligned_cols=36  Identities=19%  Similarity=0.111  Sum_probs=27.8

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      .+.|+|.+|+|||||+..++.....       ..++..++.+.
T Consensus        32 ~i~i~G~~g~GKTTl~~~l~~~~~~-------~~~~~~i~~d~   67 (221)
T 2wsm_A           32 AVNIMGAIGSGKTLLIERTIERIGN-------EVKIGAMLGDV   67 (221)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHTT-------TSCEEEEECSC
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhcc-------CCeEEEEecCC
Confidence            7899999999999999998876432       24566676653

>1ihu_A Arsenical pump-driving ATPase; aluminum fluoride, ADP, ARSA ATPase, ATP binding site, hydro; HET: ADP; 2.15A {Escherichia coli} SCOP: c.37.1.10 c.37.1.10 PDB: 1f48_A* 1ii0_A* 1ii9_A*

Probab=94.36  E-value=0.039  Score=54.86  Aligned_cols=40  Identities=15%  Similarity=0.087  Sum_probs=35.6

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      ...++.+.|.+|+||||++.++|...+.      .+.+|+++|++.
T Consensus         7 ~~~i~~~sgkGGvGKTT~a~~lA~~lA~------~G~rVLlvd~D~   46 (589)
T 1ihu_A            7 IPPYLFFTGKGGVGKTSISCATAIRLAE------QGKRVLLVSTDP   46 (589)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHHHHH------TTCCEEEEECCT
T ss_pred             CCEEEEEeCCCcCHHHHHHHHHHHHHHH------CCCcEEEEECCC
Confidence            3578999999999999999999998876      678999999985

>1qhl_A Protein (cell division protein MUKB); SMC, chromosome partitioning; 2.20A {Escherichia coli} SCOP: c.37.1.12

Probab=94.35  E-value=0.0044  Score=53.95  Aligned_cols=24  Identities=17%  Similarity=0.188  Sum_probs=20.3

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHh
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      +++.|.||+|||||||+..++...
T Consensus        28 ~~~~i~GpnGsGKSTll~~i~g~~   51 (227)
T 1qhl_A           28 LVTTLSGGNGAGKSTTMAAFVTAL   51 (227)
T ss_dssp             HHHHHHSCCSHHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHhccc
Confidence            578899999999999999776543

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=94.33  E-value=0.022  Score=47.75  Aligned_cols=22  Identities=18%  Similarity=0.190  Sum_probs=19.5

Q ss_pred             EEEEecCCCCChhHHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .+.|.|++|+|||||+..++..
T Consensus         7 kv~lvG~~g~GKSTLl~~l~~~   28 (199)
T 2f9l_A            7 KVVLIGDSGVGKSNLLSRFTRN   28 (199)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHhcC
Confidence            4789999999999999988764

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=94.30  E-value=0.038  Score=48.24  Aligned_cols=32  Identities=13%  Similarity=0.024  Sum_probs=24.1

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHHhcC
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVCTQL  152 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~  152 (352)
                      +.-.+|.++.|.|++||||||++..++.....
T Consensus        22 ~~~~~~~~i~~eG~~GsGKsT~~~~l~~~l~~   53 (236)
T 3lv8_A           22 SNAMNAKFIVIEGLEGAGKSTAIQVVVETLQQ   53 (236)
T ss_dssp             ----CCCEEEEEESTTSCHHHHHHHHHHHHHH
T ss_pred             cCCCCCeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            44446889999999999999999988765543

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=94.28  E-value=0.026  Score=51.28  Aligned_cols=24  Identities=33%  Similarity=0.194  Sum_probs=21.3

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ..++.|+||+|||||+|+..++..
T Consensus        10 ~~~i~i~GptgsGKt~la~~La~~   33 (316)
T 3foz_A           10 PKAIFLMGPTASGKTALAIELRKI   33 (316)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CcEEEEECCCccCHHHHHHHHHHh
Confidence            458999999999999999998765

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=94.27  E-value=0.043  Score=50.05  Aligned_cols=24  Identities=25%  Similarity=0.041  Sum_probs=20.9

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      |.-+.|+||||+|||+++..++..
T Consensus        46 ~~~vll~G~pGtGKT~la~~la~~   69 (331)
T 2r44_A           46 GGHILLEGVPGLAKTLSVNTLAKT   69 (331)
T ss_dssp             TCCEEEESCCCHHHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Confidence            347899999999999999988765

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=94.26  E-value=0.029  Score=48.75  Aligned_cols=30  Identities=23%  Similarity=0.258  Sum_probs=21.0

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      |-..+|.++.|.|++||||||++..++...
T Consensus        20 ~~m~~g~~I~~eG~~GsGKsT~~~~l~~~l   49 (227)
T 3v9p_A           20 GSMARGKFITFEGIDGAGKTTHLQWFCDRL   49 (227)
T ss_dssp             ---CCCCEEEEECCC---CHHHHHHHHHHH
T ss_pred             ccccCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            334678999999999999999999887654

>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=94.20  E-value=0.62  Score=39.72  Aligned_cols=22  Identities=27%  Similarity=0.250  Sum_probs=19.5

Q ss_pred             EEEecCCCCChhHHHHHHHHHh
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ++|.|.+|+|||+|+..++.+.
T Consensus        16 ivlvGd~~VGKTsLi~r~~~~~   37 (216)
T 4dkx_A           16 LVFLGEQSVGKTSLITRFMYDS   37 (216)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECcCCcCHHHHHHHHHhCC
Confidence            7899999999999999987653

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=94.10  E-value=0.032  Score=51.67  Aligned_cols=27  Identities=30%  Similarity=0.358  Sum_probs=22.1

Q ss_pred             CCCcE--EEEecCCCCChhHHHHHHHHHh
Q 047388          124 ETGAI--TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       124 ~~G~i--~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      +.|+.  +.|.|++|+||||++..++...
T Consensus        20 ~~g~~~~i~l~G~~G~GKTTl~~~la~~l   48 (359)
T 2ga8_A           20 EDNYRVCVILVGSPGSGKSTIAEELCQII   48 (359)
T ss_dssp             TTCSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ccCCeeEEEEECCCCCcHHHHHHHHHHHh
Confidence            45555  9999999999999998777653

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=94.08  E-value=0.22  Score=41.66  Aligned_cols=24  Identities=21%  Similarity=0.084  Sum_probs=20.7

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhc
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQ  151 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~  151 (352)
                      -+.|+|++|+|||+|+..++.+..
T Consensus        32 ki~vvG~~~~GKSsLi~~l~~~~~   55 (204)
T 4gzl_A           32 KCVVVGDGAVGKTCLLISYTTNAF   55 (204)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSCC
T ss_pred             EEEEECcCCCCHHHHHHHHHhCCC
Confidence            588999999999999998886544

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=94.06  E-value=0.012  Score=46.91  Aligned_cols=21  Identities=19%  Similarity=-0.015  Sum_probs=17.7

Q ss_pred             cEEEEecCCCCChhHHHHHHH
Q 047388          127 AITEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la  147 (352)
                      .-+.|+|+||+|||+++..++
T Consensus        28 ~~vll~G~~GtGKt~lA~~i~   48 (143)
T 3co5_A           28 SPVFLTGEAGSPFETVARYFH   48 (143)
T ss_dssp             SCEEEEEETTCCHHHHHGGGC
T ss_pred             CcEEEECCCCccHHHHHHHHH
Confidence            348899999999999998553

>2woo_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; 3.01A {Schizosaccharomyces pombe}

Probab=94.01  E-value=0.064  Score=49.19  Aligned_cols=40  Identities=20%  Similarity=0.067  Sum_probs=35.0

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT  171 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~  171 (352)
                      ..++.+.|..|+||||++.++|...+.      .+.+|+.+|++..
T Consensus        19 ~~i~v~sgkGGvGKTTva~~LA~~lA~------~G~rVllvD~D~~   58 (329)
T 2woo_A           19 LKWIFVGGKGGVGKTTTSCSLAIQMSK------VRSSVLLISTDPA   58 (329)
T ss_dssp             CCEEEEECSSSSSHHHHHHHHHHHHHT------SSSCEEEEECCTT
T ss_pred             CEEEEEeCCCCCcHHHHHHHHHHHHHH------CCCeEEEEECCCC
Confidence            568889999999999999999988876      6889999999853

>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=93.99  E-value=0.14  Score=54.93  Aligned_cols=56  Identities=18%  Similarity=0.084  Sum_probs=35.3

Q ss_pred             hhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC
Q 047388          114 ALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT  171 (352)
Q Consensus       114 ~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~  171 (352)
                      .|...|..+=....++.|+|+.|+|||||+.+++......  .......++|++....
T Consensus       135 ~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~--~~~~~~~~~~v~~~~~  190 (1249)
T 3sfz_A          135 AIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLL--EGCFSGGVHWVSIGKQ  190 (1249)
T ss_dssp             HHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHH--TTTSTTCEEEEECCSC
T ss_pred             HHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHH--HhhCCCeEEEEEECCc
Confidence            3444452222345689999999999999998876442100  0113467889987654

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=93.97  E-value=0.03  Score=45.37  Aligned_cols=21  Identities=19%  Similarity=0.213  Sum_probs=18.9

Q ss_pred             EEEEecCCCCChhHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~  148 (352)
                      .+.|.|++|+|||+|+..++.
T Consensus         5 ~v~lvG~~gvGKStL~~~l~~   25 (165)
T 2wji_A            5 EIALIGNPNVGKSTIFNALTG   25 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            578999999999999998864

>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=93.96  E-value=0.041  Score=49.54  Aligned_cols=22  Identities=27%  Similarity=0.051  Sum_probs=20.1

Q ss_pred             EEEecCCCCChhHHHHHHHHHh
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      +.|+||+|+|||+++..++...
T Consensus        41 ~ll~G~~G~GKt~la~~l~~~l   62 (319)
T 2chq_A           41 LLFSGPPGTGKTATAIALARDL   62 (319)
T ss_dssp             EEEESSSSSSHHHHHHHHHHHH
T ss_pred             EEEECcCCcCHHHHHHHHHHHh
Confidence            8999999999999999888764

>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=93.94  E-value=0.029  Score=50.75  Aligned_cols=22  Identities=27%  Similarity=0.033  Sum_probs=20.0

Q ss_pred             EEEecCCCCChhHHHHHHHHHh
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      +.|+||+|+|||+++..++...
T Consensus        49 ~ll~G~~G~GKT~la~~l~~~l   70 (327)
T 1iqp_A           49 LLFAGPPGVGKTTAALALAREL   70 (327)
T ss_dssp             EEEESCTTSSHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHh
Confidence            8999999999999999888764

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=93.92  E-value=0.053  Score=46.17  Aligned_cols=37  Identities=30%  Similarity=0.172  Sum_probs=30.5

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT  171 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~  171 (352)
                      |....+..|+||||++.++|...+.      .+ +|+.+|....
T Consensus         3 I~v~s~KGGvGKTT~a~~LA~~la~------~g-~VlliD~D~q   39 (209)
T 3cwq_A            3 ITVASFKGGVGKTTTAVHLSAYLAL------QG-ETLLIDGDPN   39 (209)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHT------TS-CEEEEEECTT
T ss_pred             EEEEcCCCCCcHHHHHHHHHHHHHh------cC-CEEEEECCCC
Confidence            3445688999999999999988776      56 9999998754

>1e9r_A Conjugal transfer protein TRWB; coupling protein, bacterial conjugation, F1-ATPase-like quaternary structure, ring helicases; 2.4A {Escherichia coli} SCOP: c.37.1.11 PDB: 1e9s_A 1gki_A* 1gl7_A* 1gl6_A*

Probab=93.92  E-value=0.04  Score=52.48  Aligned_cols=36  Identities=19%  Similarity=0.219  Sum_probs=25.9

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeC
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDT  168 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~  168 (352)
                      .-+.|+|++|+|||+++..++.+...      .+.+++.+|.
T Consensus        54 ~h~~i~G~tGsGKs~~~~~li~~~~~------~g~~viv~Dp   89 (437)
T 1e9r_A           54 RHLLVNGATGTGKSVLLRELAYTGLL------RGDRMVIVDP   89 (437)
T ss_dssp             GCEEEEECTTSSHHHHHHHHHHHHHH------TTCEEEEEEE
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHH------CCCcEEEEeC
Confidence            45899999999999998777766554      3344555554

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=93.92  E-value=0.051  Score=46.62  Aligned_cols=28  Identities=14%  Similarity=0.024  Sum_probs=23.6

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcC
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQL  152 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~  152 (352)
                      +|.++.|.|++||||||.+..++.....
T Consensus         2 ~g~~i~~eG~~gsGKsT~~~~l~~~l~~   29 (213)
T 4tmk_A            2 RSKYIVIEGLEGAGKTTARNVVVETLEQ   29 (213)
T ss_dssp             CCCEEEEEECTTSCHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4789999999999999999988765543

>3i8s_A Ferrous iron transport protein B; GTPase, GPCR, iron uptake, FEO, cell inner membrane, cell ME GTP-binding, ION transport, membrane; 1.80A {Escherichia coli} PDB: 3i8x_A* 3i92_A* 3hyr_A 3hyt_A* 2wic_A* 2wib_A* 2wia_A*

Probab=93.90  E-value=0.35  Score=42.90  Aligned_cols=44  Identities=30%  Similarity=0.289  Sum_probs=29.5

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCcc-C-----------CCCCeEEEEeCCCC
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNM-R-----------GGNGKVAYIDTEGT  171 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~-g-----------g~~~~vl~i~~e~~  171 (352)
                      .+.|+|.+|+|||+|+..+.........+ |           ..+..+.++|+-+.
T Consensus         5 ~I~lvG~~n~GKSTLin~l~g~~~~v~~~~g~t~~~~~~~~~~~~~~~~liDtpG~   60 (274)
T 3i8s_A            5 TIGLIGNPNSGKTTLFNQLTGSRQRVGNWAGVTVERKEGQFSTTDHQVTLVDLPGT   60 (274)
T ss_dssp             EEEEEECTTSSHHHHHHHHHTTCEEEEECTTSSSEEEEEEEECSSCEEEEEECCCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcccCCCCCeeEEEEEEEEEeCCCceEEEECcCC
Confidence            47899999999999999887543211000 0           12457778888764

>3qks_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATPase, exonuclease, endonucle binding, DNA binding; HET: DNA; 2.10A {Pyrococcus furiosus} PDB: 3qkr_A*

Probab=93.89  E-value=0.037  Score=47.01  Aligned_cols=23  Identities=30%  Similarity=0.390  Sum_probs=19.5

Q ss_pred             cEEEEecCCCCChhHHHHHHHHH
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .+++|+|++|+|||+++..+...
T Consensus        24 ~~~~I~G~NgsGKStil~ai~~~   46 (203)
T 3qks_A           24 GINLIIGQNGSGKSSLLDAILVG   46 (203)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHH
Confidence            49999999999999998766543

>2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes}

Probab=93.88  E-value=0.041  Score=49.40  Aligned_cols=40  Identities=23%  Similarity=0.154  Sum_probs=32.9

Q ss_pred             CcEEEEec---CCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC
Q 047388          126 GAITEAFG---EFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT  171 (352)
Q Consensus       126 G~i~~I~G---~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~  171 (352)
                      +.++.|++   ..|+||||++.++|...+.      .+.+|+.+|....
T Consensus        34 ~~~i~v~~~s~KGGvGKTT~a~nLA~~la~------~G~rVlliD~D~q   76 (298)
T 2oze_A           34 NEAIVILNNYFKGGVGKSKLSTMFAYLTDK------LNLKVLMIDKDLQ   76 (298)
T ss_dssp             CSCEEEEECCSSSSSSHHHHHHHHHHHHHH------TTCCEEEEEECTT
T ss_pred             CcEEEEEeccCCCCchHHHHHHHHHHHHHh------CCCeEEEEeCCCC
Confidence            55666765   8999999999999988775      6789999998753

>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=93.81  E-value=0.047  Score=50.98  Aligned_cols=40  Identities=15%  Similarity=0.132  Sum_probs=32.8

Q ss_pred             CCCcEEEEe-cCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          124 ETGAITEAF-GEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       124 ~~G~i~~I~-G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      ..+.++.|+ |..|+||||++.++|...+.      .+.+|+++|.+
T Consensus       141 ~~~kvIav~s~KGGvGKTT~a~nLA~~La~------~g~rVlliD~D  181 (373)
T 3fkq_A          141 DKSSVVIFTSPCGGVGTSTVAAACAIAHAN------MGKKVFYLNIE  181 (373)
T ss_dssp             TSCEEEEEECSSTTSSHHHHHHHHHHHHHH------HTCCEEEEECC
T ss_pred             CCceEEEEECCCCCChHHHHHHHHHHHHHh------CCCCEEEEECC
Confidence            345666666 59999999999999988776      57899999987

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=93.78  E-value=0.49  Score=38.78  Aligned_cols=22  Identities=23%  Similarity=0.188  Sum_probs=19.6

Q ss_pred             EEEEecCCCCChhHHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+.|+|++|+|||+|+..++..
T Consensus        24 ki~v~G~~~~GKSsli~~l~~~   45 (188)
T 1zd9_A           24 ELTLVGLQYSGKTTFVNVIASG   45 (188)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5889999999999999988754

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=93.78  E-value=0.028  Score=46.52  Aligned_cols=21  Identities=33%  Similarity=0.289  Sum_probs=18.3

Q ss_pred             EEEEecCCCCChhHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+.|.|++|+|||+|+..++.
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            378999999999999998763

>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*

Probab=93.76  E-value=0.054  Score=53.69  Aligned_cols=38  Identities=11%  Similarity=0.031  Sum_probs=30.5

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      +.++.|.|+||+|||+++..++.....      .+.+|++....
T Consensus       204 ~~~~~I~G~pGTGKTt~i~~l~~~l~~------~g~~Vl~~ApT  241 (574)
T 3e1s_A          204 HRLVVLTGGPGTGKSTTTKAVADLAES------LGLEVGLCAPT  241 (574)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHHH------TTCCEEEEESS
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHh------cCCeEEEecCc
Confidence            579999999999999999888766554      46678877654

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=93.74  E-value=0.036  Score=48.22  Aligned_cols=24  Identities=17%  Similarity=0.148  Sum_probs=21.6

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      |.++.|.|.+||||||++..++..
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~~   25 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTKT   25 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHH
Confidence            568999999999999999988765

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens}

Probab=93.60  E-value=0.24  Score=40.70  Aligned_cols=23  Identities=26%  Similarity=0.218  Sum_probs=19.8

Q ss_pred             EEEEecCCCCChhHHHHHHHHHh
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      -+.|+|++|+|||+|+..++...
T Consensus        23 ki~v~G~~~~GKSsli~~l~~~~   45 (190)
T 2h57_A           23 HVLCLGLDNSGKTTIINKLKPSN   45 (190)
T ss_dssp             EEEEEECTTSSHHHHHHHTSCGG
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            58899999999999999886543

>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=93.57  E-value=0.32  Score=41.09  Aligned_cols=23  Identities=22%  Similarity=0.271  Sum_probs=20.2

Q ss_pred             EEEEecCCCCChhHHHHHHHHHh
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      -+.|+|++|+|||+|+..++...
T Consensus        29 ki~vvG~~~vGKSsL~~~l~~~~   51 (214)
T 3q3j_B           29 KLVLVGDVQCGKTAMLQVLAKDC   51 (214)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            58899999999999999987653

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=93.55  E-value=0.47  Score=38.80  Aligned_cols=19  Identities=26%  Similarity=0.128  Sum_probs=16.2

Q ss_pred             EEEEecCCCCChhHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTL  146 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~l  146 (352)
                      -+.|.|++|+|||+|+..+
T Consensus        16 ki~vvG~~~~GKssL~~~l   34 (198)
T 3t1o_A           16 KIVYYGPGLSGKTTNLKWI   34 (198)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            3789999999999999544

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=93.48  E-value=0.055  Score=53.55  Aligned_cols=54  Identities=19%  Similarity=0.102  Sum_probs=34.0

Q ss_pred             hhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcC-CCccCCCCCeEEEEeCCC
Q 047388          114 ALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQL-PTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       114 ~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~-~~~~gg~~~~vl~i~~e~  170 (352)
                      .|...|..+-....++.|+|++|+|||+|+.+++..... .   +.....++|++...
T Consensus       135 ~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~---~~f~~~v~wv~~~~  189 (591)
T 1z6t_A          135 AIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLE---GCFPGGVHWVSVGK  189 (591)
T ss_dssp             HHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCHHHHH---HHCTTCEEEEEEES
T ss_pred             HHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhchhHHH---hhCCCceEEEECCC
Confidence            344555322234679999999999999999988643210 0   00234688887654

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=93.47  E-value=0.042  Score=44.09  Aligned_cols=23  Identities=17%  Similarity=0.262  Sum_probs=19.7

Q ss_pred             EEEEecCCCCChhHHHHHHHHHh
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      -+.++|++|+|||+|+..++...
T Consensus         7 ~i~v~G~~~~GKssl~~~l~~~~   29 (168)
T 1z2a_A            7 KMVVVGNGAVGKSSMIQRYCKGI   29 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            37899999999999999887653

>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=93.45  E-value=0.029  Score=51.37  Aligned_cols=22  Identities=23%  Similarity=0.366  Sum_probs=19.7

Q ss_pred             EEEecCCCCChhHHHHHHHHHh
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      +.|+||||+|||+++..++...
T Consensus        48 vLl~G~~GtGKT~la~~la~~~   69 (350)
T 1g8p_A           48 VLVFGDRGTGKSTAVRALAALL   69 (350)
T ss_dssp             EEEECCGGGCTTHHHHHHHHHS
T ss_pred             EEEECCCCccHHHHHHHHHHhC
Confidence            8999999999999999887653

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=93.39  E-value=0.07  Score=52.51  Aligned_cols=50  Identities=24%  Similarity=0.249  Sum_probs=34.7

Q ss_pred             hhHHhhcCCCC----CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          114 ALDELLGGGIE----TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       114 ~LD~~L~GGl~----~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      ++.+.+--.++    .+.++.|+|.+||||||++..++.....      .+..+.+++.+
T Consensus       356 eV~~~lr~~~~~~~~~~~~I~l~G~~GsGKSTia~~La~~L~~------~G~~~~~ld~D  409 (546)
T 2gks_A          356 EVAEILAETYVPKHKQGFCVWLTGLPCAGKSTIAEILATMLQA------RGRKVTLLDGD  409 (546)
T ss_dssp             HHHHHHHHHSCCGGGCCEEEEEECSTTSSHHHHHHHHHHHHHH------TTCCEEEECHH
T ss_pred             hHHHHHHHhhccccccceEEEccCCCCCCHHHHHHHHHHHhhh------cCCeEEEECch
Confidence            44444433443    3789999999999999999988765432      34567777643

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=93.33  E-value=0.045  Score=43.58  Aligned_cols=22  Identities=23%  Similarity=0.153  Sum_probs=19.0

Q ss_pred             EEEEecCCCCChhHHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+.+.|++|+|||+|+..++..
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~   24 (161)
T 2dyk_A            3 KVVIVGRPNVGKSSLFNRLLKK   24 (161)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3689999999999999988753

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=93.32  E-value=0.048  Score=51.35  Aligned_cols=23  Identities=26%  Similarity=0.241  Sum_probs=20.7

Q ss_pred             cEEEEecCCCCChhHHHHHHHHH
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .++.|+||+|+|||+|+..++..
T Consensus         3 ~~i~i~GptgsGKttla~~La~~   25 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQK   25 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHHH
T ss_pred             cEEEEECcchhhHHHHHHHHHHH
Confidence            47899999999999999998865

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=93.29  E-value=0.045  Score=45.02  Aligned_cols=22  Identities=18%  Similarity=0.158  Sum_probs=19.5

Q ss_pred             EEEEecCCCCChhHHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .+.|.|++|+|||+|+..++..
T Consensus         9 ~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            9 EIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5889999999999999988753

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=93.29  E-value=0.06  Score=46.31  Aligned_cols=27  Identities=26%  Similarity=0.186  Sum_probs=23.6

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      .+|.++.|.|++|+||||.+..++...
T Consensus         3 ~~g~~i~~eG~~g~GKst~~~~l~~~l   29 (216)
T 3tmk_A            3 GRGKLILIEGLDRTGKTTQCNILYKKL   29 (216)
T ss_dssp             CCCCEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            468899999999999999999887654

>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=93.26  E-value=0.063  Score=51.30  Aligned_cols=23  Identities=26%  Similarity=0.255  Sum_probs=20.2

Q ss_pred             EEEEecCCCCChhHHHHHHHHHh
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      -++++||||+|||+++..+|...
T Consensus        52 ~iLl~GppGtGKT~lar~lA~~l   74 (444)
T 1g41_A           52 NILMIGPTGVGKTEIARRLAKLA   74 (444)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHT
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHc
Confidence            38899999999999999888764

>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=93.22  E-value=0.058  Score=50.79  Aligned_cols=29  Identities=17%  Similarity=0.114  Sum_probs=26.2

Q ss_pred             cCCCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          120 GGGIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       120 ~GGl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -|=++.|..+.|.|+||+|||||+..++.
T Consensus        14 lg~v~~g~~vgiVG~pnaGKSTL~n~Ltg   42 (392)
T 1ni3_A           14 WGRPGNNLKTGIVGMPNVGKSTFFRAITK   42 (392)
T ss_dssp             CSSSSSCCEEEEEECSSSSHHHHHHHHHH
T ss_pred             hccccCCCEEEEECCCCCCHHHHHHHHHC
Confidence            36788899999999999999999998876

>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=93.08  E-value=0.066  Score=51.45  Aligned_cols=36  Identities=11%  Similarity=0.034  Sum_probs=28.0

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCC-eEEEEeCC
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNG-KVAYIDTE  169 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~-~vl~i~~e  169 (352)
                      .+.|.|++|+|||+++..++.....      .+. .++.+...
T Consensus        47 ~~li~G~aGTGKT~ll~~~~~~l~~------~~~~~il~~a~T   83 (459)
T 3upu_A           47 HVTINGPAGTGATTLTKFIIEALIS------TGETGIILAAPT   83 (459)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHH------TTCCCEEEEESS
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHh------cCCceEEEecCc
Confidence            9999999999999999988877654      233 56666554

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=93.08  E-value=0.057  Score=46.07  Aligned_cols=24  Identities=29%  Similarity=0.288  Sum_probs=21.1

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhc
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQ  151 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~  151 (352)
                      .+.|+|.+|+|||||+..++....
T Consensus        40 ~i~ivG~~gvGKTtl~~~l~~~~~   63 (226)
T 2hf9_A           40 AFDFMGAIGSGKTLLIEKLIDNLK   63 (226)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhc
Confidence            688899999999999999987643

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=93.07  E-value=0.06  Score=46.53  Aligned_cols=27  Identities=26%  Similarity=0.127  Sum_probs=23.2

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      .+|.++.|.|.+||||||++..++...
T Consensus        19 ~~~~~i~~~G~~g~GKst~~~~l~~~l   45 (223)
T 3ld9_A           19 PGSMFITFEGIDGSGKTTQSHLLAEYL   45 (223)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            368899999999999999998877653

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=93.06  E-value=0.028  Score=49.65  Aligned_cols=25  Identities=16%  Similarity=0.139  Sum_probs=21.2

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHH
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      .++.++.|.|.+||||||++..++.
T Consensus        22 ~~~~~I~ieG~~GsGKST~~~~L~~   46 (263)
T 1p5z_B           22 TRIKKISIEGNIAAGKSTFVNILKQ   46 (263)
T ss_dssp             -CCEEEEEECSTTSSHHHHHTTTGG
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHH
Confidence            4678999999999999999987654

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=93.05  E-value=0.052  Score=46.21  Aligned_cols=24  Identities=17%  Similarity=0.142  Sum_probs=20.5

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      +-++.|+|++||||||++..++..
T Consensus         3 ~~~i~i~G~~gsGkst~~~~l~~~   26 (219)
T 2h92_A            3 AINIALDGPAAAGKSTIAKRVASE   26 (219)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHh
Confidence            357899999999999999987653

>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=93.00  E-value=0.054  Score=43.55  Aligned_cols=19  Identities=37%  Similarity=0.372  Sum_probs=17.4

Q ss_pred             EEEecCCCCChhHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la  147 (352)
                      +.|.|++|+|||+|+..++
T Consensus         5 i~ivG~~~~GKSsli~~l~   23 (169)
T 3q85_A            5 VMLVGESGVGKSTLAGTFG   23 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            6899999999999999875

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=92.99  E-value=0.054  Score=43.79  Aligned_cols=21  Identities=29%  Similarity=0.265  Sum_probs=18.4

Q ss_pred             EEEEecCCCCChhHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+.|+|++|+|||+|+..++.
T Consensus         6 ki~i~G~~~vGKSsl~~~l~~   26 (175)
T 2nzj_A            6 RVVLLGDPGVGKTSLASLFAG   26 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCccHHHHHHHHhc
Confidence            378999999999999998764

>2dy1_A Elongation factor G; translocation, GTP complex, structural genomics, NPPSFA; HET: GTP; 1.60A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1wdt_A*

Probab=92.94  E-value=0.14  Score=51.75  Aligned_cols=28  Identities=29%  Similarity=0.157  Sum_probs=24.4

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ++++..+.|.|++|+|||||+..++...
T Consensus         6 ~~~~~~i~IiG~~gaGKTTLl~~L~~~~   33 (665)
T 2dy1_A            6 GAMIRTVALVGHAGSGKTTLTEALLYKT   33 (665)
T ss_dssp             CCCEEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             cCCCcEEEEECCCCChHHHHHHHHHHhc
Confidence            4678899999999999999999887653

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=92.90  E-value=0.057  Score=43.27  Aligned_cols=22  Identities=18%  Similarity=0.235  Sum_probs=19.3

Q ss_pred             EEEecCCCCChhHHHHHHHHHh
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      +.++|++|+|||+|+..++...
T Consensus         6 i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1ek0_A            6 LVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6899999999999999887654

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=92.90  E-value=0.057  Score=43.39  Aligned_cols=22  Identities=23%  Similarity=0.243  Sum_probs=19.0

Q ss_pred             EEEEecCCCCChhHHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+.++|++|+|||+|+..++..
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~   26 (172)
T 2erx_A            5 RVAVFGAGGVGKSSLVLRFVKG   26 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            3789999999999999988753

>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=92.90  E-value=0.078  Score=52.92  Aligned_cols=26  Identities=23%  Similarity=0.150  Sum_probs=23.2

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      +|.++.|+|.|||||||++..++...
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            57899999999999999999887654

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=92.89  E-value=0.056  Score=44.73  Aligned_cols=24  Identities=29%  Similarity=0.156  Sum_probs=20.6

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .--+.|+|++|+|||+|+..++..
T Consensus        48 ~~~i~vvG~~g~GKSsll~~l~~~   71 (193)
T 2ged_A           48 QPSIIIAGPQNSGKTSLLTLLTTD   71 (193)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            346899999999999999988754

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=92.87  E-value=0.055  Score=43.42  Aligned_cols=21  Identities=19%  Similarity=0.118  Sum_probs=18.8

Q ss_pred             EEEecCCCCChhHHHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~  149 (352)
                      +.|+|++|+|||+|+..++..
T Consensus         6 i~v~G~~~~GKssli~~l~~~   26 (170)
T 1g16_A            6 ILLIGDSGVGKSCLLVRFVED   26 (170)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECcCCCCHHHHHHHHHhC
Confidence            689999999999999988754

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=92.84  E-value=0.058  Score=43.86  Aligned_cols=22  Identities=27%  Similarity=0.261  Sum_probs=19.4

Q ss_pred             EEEEecCCCCChhHHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+.|+|++|+|||+|+..++..
T Consensus        10 ~i~v~G~~~~GKSsli~~l~~~   31 (182)
T 1ky3_A           10 KVIILGDSGVGKTSLMHRYVND   31 (182)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999988764

>3qkt_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATP binding, DNA bindi MRE11, replication; HET: DNA ANP; 1.90A {Pyrococcus furiosus} PDB: 3qku_A* 1ii8_A 3qks_B* 3qkr_B* 1ii8_B

Probab=92.83  E-value=0.069  Score=49.14  Aligned_cols=62  Identities=15%  Similarity=0.199  Sum_probs=41.7

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhh
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAH  299 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~  299 (352)
                      .+|+++++|++++.+.+        ..+    ..+...|+.+.++ +.+||+++|-..                   +..
T Consensus       271 ~~p~~lllDEp~~~LD~--------~~~----~~l~~~l~~~~~~-~~~vi~~sH~~~-------------------~~~  318 (339)
T 3qkt_A          271 GEISLLILDEPTPYLDE--------ERR----RKLITIMERYLKK-IPQVILVSHDEE-------------------LKD  318 (339)
T ss_dssp             TTTCEEEEECCCTTCCH--------HHH----HHHHHHHHHTGGG-SSEEEEEESCGG-------------------GGG
T ss_pred             CCCCEEEEECCCCCCCH--------HHH----HHHHHHHHHHHhc-CCEEEEEEChHH-------------------HHH
Confidence            36899999998876532        222    2566667777554 779999988521                   234


Q ss_pred             ccceEEEEEeecCC
Q 047388          300 AVTIRLMFRKGKGE  313 (352)
Q Consensus       300 ~~~~~i~L~~~~~~  313 (352)
                      .+|.++.+...+|.
T Consensus       319 ~~d~~~~l~~~~g~  332 (339)
T 3qkt_A          319 AADHVIRISLENGS  332 (339)
T ss_dssp             GCSEEEEEEEETTE
T ss_pred             hCCEEEEEEecCCc
Confidence            67888888876653

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=92.82  E-value=0.059  Score=43.33  Aligned_cols=23  Identities=30%  Similarity=0.306  Sum_probs=19.8

Q ss_pred             EEEEecCCCCChhHHHHHHHHHh
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      -+.++|++|+|||+|+..++...
T Consensus         8 ~i~v~G~~~~GKssli~~l~~~~   30 (170)
T 1z08_A            8 KVVLLGEGCVGKTSLVLRYCENK   30 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHCC
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            47899999999999999887653

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=92.82  E-value=0.028  Score=54.69  Aligned_cols=25  Identities=20%  Similarity=0.135  Sum_probs=21.2

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHh
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      |.-+.|+||||+|||+++..++...
T Consensus        41 ~~~VLL~GpPGtGKT~LAraLa~~l   65 (500)
T 3nbx_X           41 GESVFLLGPPGIAKSLIARRLKFAF   65 (500)
T ss_dssp             TCEEEEECCSSSSHHHHHHHGGGGB
T ss_pred             CCeeEeecCchHHHHHHHHHHHHHH
Confidence            4578999999999999999887543

---

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	352
d1v5wa_	258	c.37.1.11 (A:) Meiotic recombination protein DMC1/	2e-56
d1pzna2	254	c.37.1.11 (A:96-349) DNA repair protein Rad51, cat	8e-56
d1szpa2	251	c.37.1.11 (A:145-395) DNA repair protein Rad51, ca	1e-54
d2i1qa2	258	c.37.1.11 (A:65-322) DNA repair protein Rad51, cat	2e-49
d1n0wa_	242	c.37.1.11 (A:) DNA repair protein Rad51, catalytic	8e-46
d1mo6a1	269	c.37.1.11 (A:1-269) RecA protein, ATPase-domain {M	7e-45
d1u94a1	263	c.37.1.11 (A:6-268) RecA protein, ATPase-domain {E	2e-43
d1xp8a1	268	c.37.1.11 (A:15-282) RecA protein, ATPase-domain {	2e-43
d1b22a_	70	a.60.4.1 (A:) DNA repair protein Rad51, N-terminal	2e-19
d1szpa1	64	a.60.4.1 (A:81-144) DNA repair protein Rad51, N-te	5e-19
d1tf7a2	242	c.37.1.11 (A:256-497) Circadian clock protein KaiC	4e-18
d1tf7a1	242	c.37.1.11 (A:14-255) Circadian clock protein KaiC	4e-17
d1pzna1	61	a.60.4.1 (A:35-95) DNA repair protein Rad51, N-ter	5e-09
d2i1qa1	60	a.60.4.1 (A:5-64) DNA repair protein Rad51, N-term	1e-08
d1cr2a_	277	c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase),	0.002
d1nlfa_	274	c.37.1.11 (A:) Hexameric replicative helicase repA	0.002

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]} Length = 258

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]

 Score =  183 bits (463), Expect = 2e-56
 Identities = 161/265 (60%), Positives = 197/265 (74%), Gaps = 11/265 (4%)

Query: 91  GYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCT 150
           G++T  +   +RK V  ITTGSQ  D+LLGGGIE+ AITEAFGEFR+GKTQL+HTLCV  
Sbjct: 2   GFLTAFEYSEKRKMVFHITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTA 61

Query: 151 QLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLL 210
           QLP       GK+ +IDTE TFRPDR+  IA+RF +D  AVLDN++YARAYT EHQ  LL
Sbjct: 62  QLPGAGGYPGGKIIFIDTENTFRPDRLRDIADRFNVDHDAVLDNVLYARAYTSEHQMELL 121

Query: 211 LGLAAKMSEEPF--RLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVA 268
             +AAK  EE    +LLI+DS++ALFRVDF+GRGELA+RQQKL QMLSRL KISEE+NVA
Sbjct: 122 DYVAAKFHEEAGIFKLLIIDSIMALFRVDFSGRGELAERQQKLAQMLSRLQKISEEYNVA 181

Query: 269 VYMTNQVIADPGG-GVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPE 327
           V++TNQ+ ADPG    F +DPKKP GGH+LAHA T R+  RKG+GE R+ K++D+P +PE
Sbjct: 182 VFVTNQMTADPGATMTFQADPKKPIGGHILAHASTTRISLRKGRGELRIAKIYDSPEMPE 241

Query: 328 AEAISFSYHIILIKITPGGIADAKD 352
            EA           IT GGI DAK+
Sbjct: 242 NEAT--------FAITAGGIGDAKE 258

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]} Length = 254

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]

 Score =  181 bits (458), Expect = 8e-56
 Identities = 127/263 (48%), Positives = 174/263 (66%), Gaps = 15/263 (5%)

Query: 92  YITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQ 151
           ++   + L +R  + +I+TGS++LD+LLGGGIET AITE FGEF SGKTQLAHTL V  Q
Sbjct: 2   FMRADEYLKKRATIGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQ 61

Query: 152 LPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLL 211
           LP    G NG V +IDTE TFRP+RI  IA+  G+DP  VL +I  ARA+   HQ  L+ 
Sbjct: 62  LPPEEGGLNGSVIWIDTENTFRPERIREIAQNRGLDPDEVLKHIYVARAFNSNHQMLLVQ 121

Query: 212 GLAAKM-----SEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFN 266
               K+     ++ P +LLIVDS+ + FR ++ GRG LA+RQQKL + L+ L +++  ++
Sbjct: 122 QAEDKIKELLNTDRPVKLLIVDSLTSHFRSEYIGRGALAERQQKLAKHLADLHRLANLYD 181

Query: 267 VAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLP 326
           +AV++TNQV A P    F  DP +P GGH+LAH+ T+R+  RKGKG +R+ ++ DAP+LP
Sbjct: 182 IAVFVTNQVQARPDA--FFGDPTRPIGGHILAHSATLRVYLRKGKGGKRIARLIDAPHLP 239

Query: 327 EAEAISFSYHIILIKITPGGIAD 349
           E EA+          IT  GI D
Sbjct: 240 EGEAV--------FSITEKGIED 254

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 251

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]

 Score =  177 bits (450), Expect = 1e-54
 Identities = 139/258 (53%), Positives = 183/258 (70%), Gaps = 9/258 (3%)

Query: 93  ITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQL 152
           +T +D  +RR  +I +TTGS+ LD LLGGG+ETG+ITE FGEFR+GK+QL HTL V  Q+
Sbjct: 1   VTAADFHMRRSELICLTTGSKNLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVTCQI 60

Query: 153 PTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLG 212
           P ++ GG GK  YIDTEGTFRP R+V IA+RFG+DP   L+N+ YARAY  +HQ  LL  
Sbjct: 61  PLDIGGGEGKCLYIDTEGTFRPVRLVSIAQRFGLDPDDALNNVAYARAYNADHQLRLLDA 120

Query: 213 LAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMT 272
            A  MSE  F L++VDSV+AL+R DF+GRGEL+ RQ  L + +  L +++++F VAV +T
Sbjct: 121 AAQMMSESRFSLIVVDSVMALYRTDFSGRGELSARQMHLAKFMRALQRLADQFGVAVVVT 180

Query: 273 NQVIADPGGGV-FISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAI 331
           NQV+A   GG+ F  DPKKP GG+++AH+ T RL F+KGKG QR+CKV D+P LPEAE +
Sbjct: 181 NQVVAQVDGGMAFNPDPKKPTGGNIMAHSSTTRLGFKKGKGCQRLCKVVDSPCLPEAECV 240

Query: 332 SFSYHIILIKITPGGIAD 349
                     I   G+ D
Sbjct: 241 --------FAIYEDGVGD 250

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]} Length = 258

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]

 Score =  164 bits (415), Expect = 2e-49
 Identities = 113/267 (42%), Positives = 160/267 (59%), Gaps = 21/267 (7%)

Query: 94  TGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLP 153
           +G D L +R  V K++T S  LD +LGGG+E+ ++TE  G F SGKTQ+ H  CV  Q P
Sbjct: 2   SGIDLLKQRSTVWKLSTSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQNP 61

Query: 154 TNMRGG----------NGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTY 203
             +               K  YIDTEGTFRP+RI+ +AE  G+D   VLDN   ARAY  
Sbjct: 62  EFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQMAEHAGIDGQTVLDNTFVARAYNS 121

Query: 204 EHQYNLLLGLAAKMSEE-PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKIS 262
           + Q      +   + E    +L+++DS+ + FR ++TGRG+LA+RQQKLG+ ++ L K++
Sbjct: 122 DMQMLFAEKIEDLIQEGNNIKLVVIDSLTSTFRNEYTGRGKLAERQQKLGRHMATLNKLA 181

Query: 263 EEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDA 322
           + FN  V +TNQV A P    F    ++  GGH++ HA T R   RKGKG++RV K++D+
Sbjct: 182 DLFNCVVLVTNQVSAKP--DAFFGMAEQAIGGHIVGHAATFRFFVRKGKGDKRVAKLYDS 239

Query: 323 PNLPEAEAISFSYHIILIKITPGGIAD 349
           P+LP+AEAI         +IT  GI D
Sbjct: 240 PHLPDAEAI--------FRITEKGIQD 258

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]} Length = 242

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]

 Score =  154 bits (389), Expect = 8e-46
 Identities = 135/249 (54%), Positives = 176/249 (70%), Gaps = 9/249 (3%)

Query: 105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVA 164
           +I+ITTGS+ LD+LL GGIETG+ITE FGEFR+GKTQ+ HTL V  QLP +  GG GK  
Sbjct: 2   IIQITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAM 61

Query: 165 YIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRL 224
           YIDTEGTFRP+R++ +AER+G+    VLDN+ YARA+  +HQ  LL   +A M E  + L
Sbjct: 62  YIDTEGTFRPERLLAVAERYGLSGSDVLDNVAYARAFNTDHQTQLLYQASAMMVESRYAL 121

Query: 225 LIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVF 284
           LIVDS  AL+R D++GRGEL+ RQ  L + L  L ++++EF VAV +TNQV+A   G   
Sbjct: 122 LIVDSATALYRTDYSGRGELSARQMHLARFLRMLLRLADEFGVAVVITNQVVAQVDGAAM 181

Query: 285 I-SDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKIT 343
             +DPKKP GG+++AHA T RL  RKG+GE R+CK++D+P LPEAEA+          I 
Sbjct: 182 FAADPKKPIGGNIIAHASTTRLYLRKGRGETRICKIYDSPCLPEAEAM--------FAIN 233

Query: 344 PGGIADAKD 352
             G+ DAKD
Sbjct: 234 ADGVGDAKD 242

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]} Length = 269

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]

 Score =  152 bits (386), Expect = 7e-45
 Identities = 59/247 (23%), Positives = 96/247 (38%), Gaps = 33/247 (13%)

Query: 101 RRKAVIKITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGG 159
            R+ +  I TGS ALD  LG GG+  G + E +G   SGKT +A       Q        
Sbjct: 34  ARQPISVIPTGSIALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQ------AA 87

Query: 160 NGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSE 219
            G  A+ID E    PD     A++ G+D     D+++ ++  T E    +       +  
Sbjct: 88  GGVAAFIDAEHALDPDY----AKKLGVDT----DSLLVSQPDTGEQALEIA---DMLIRS 136

Query: 220 EPFRLLIVDSVIALF-RVDFTGR---GELADRQQKLGQMLSRLTKISEEFNVAVYMTNQV 275
               ++++DSV AL  R +  G      +  + + + Q L ++T             NQ+
Sbjct: 137 GALDIVVIDSVAALVPRAELEGEMGDSHVGLQARLMSQALRKMTGALNNSGTTAIFINQL 196

Query: 276 IADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGK---------GEQRVCKVFDAPNLP 326
                 GV    P+   GG  L    ++R+  R+ +         G +   KV     L 
Sbjct: 197 RDKI--GVMFGSPETTTGGKALKFYASVRMDVRRVETLKDGTNAVGNRTRVKVVKNKCLA 254

Query: 327 EAEAISF 333
             +   F
Sbjct: 255 PFKQAEF 261

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]} Length = 263

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]

 Score =  149 bits (377), Expect = 2e-43
 Identities = 63/246 (25%), Positives = 98/246 (39%), Gaps = 36/246 (14%)

Query: 101 RRKAVIKITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGG 159
           R   V  I+TGS +LD  LG GG+  G I E +G   SGKT L   +    Q        
Sbjct: 28  RSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQRE------ 81

Query: 160 NGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSE 219
               A+ID E    P      A + G+D    +DN++ ++  T E    +   L      
Sbjct: 82  GKTCAFIDAEHALDPIY----ARKLGVD----IDNLLCSQPDTGEQALEICDAL---ARS 130

Query: 220 EPFRLLIVDSVIALFRVDFTGRGELADRQ-----QKLGQMLSRLTKISEEFNVAVYMTNQ 274
               +++VDSV AL        GE+ D       + + Q + +L    ++ N  +   NQ
Sbjct: 131 GAVDVIVVDSVAALTP-KAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQ 189

Query: 275 VIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQ----------RVCKVFDAPN 324
           +      GV   +P+   GG+ L    ++RL  R+    +          RV  V +   
Sbjct: 190 IRMKI--GVMFGNPETTTGGNALKFYASVRLDIRRIGAVKEGENVVGSETRVKVVKNKIA 247

Query: 325 LPEAEA 330
            P  +A
Sbjct: 248 APFKQA 253

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]} Length = 268

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]

 Score =  148 bits (376), Expect = 2e-43
 Identities = 60/221 (27%), Positives = 90/221 (40%), Gaps = 24/221 (10%)

Query: 101 RRKAVIKITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGG 159
            +  V  ++TGS +LD  LG GGI  G ITE +G    GKT LA  +    Q        
Sbjct: 31  SKLDVQVVSTGSLSLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQAQKA------ 84

Query: 160 NGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSE 219
            G  A+ID E    P      A   G++     D ++ ++    E    ++      +  
Sbjct: 85  GGTCAFIDAEHALDPVY----ARALGVN----TDELLVSQPDNGEQALEIM---ELLVRS 133

Query: 220 EPFRLLIVDSVIALF-RVDFTGRGE---LADRQQKLGQMLSRLTKISEEFNVAVYMTNQV 275
               +++VDSV AL  R +  G         + + + Q L +LT I  +   A    NQV
Sbjct: 134 GAIDVVVVDSVAALTPRAEIEGDMGDSLPGLQARLMSQALRKLTAILSKTGTAAIFINQV 193

Query: 276 IADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRV 316
                 GV   +P+   GG  L    ++RL  RK     +V
Sbjct: 194 REKI--GVMYGNPETTTGGRALKFYASVRLDVRKIGQPTKV 232

>d1b22a_ a.60.4.1 (A:) DNA repair protein Rad51, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 70

class: All alpha proteins
fold: SAM domain-like
superfamily: Rad51 N-terminal domain-like
family: DNA repair protein Rad51, N-terminal domain
domain: DNA repair protein Rad51, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 78.9 bits (195), Expect = 2e-19
 Identities = 31/70 (44%), Positives = 42/70 (60%)

Query: 22 DDEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKIC 81
          ++E    + I +L   GINA DVKKL++AG +T   +    KK L  IKG+SEAK +KI 
Sbjct: 1  EEESFGPQPISRLEQCGINANDVKKLEEAGFHTVEAVAYAPKKELINIKGISEAKADKIL 60

Query: 82 EAAEKIVNFG 91
            A K+V  G
Sbjct: 61 AEAAKLVPMG 70

>d1szpa1 a.60.4.1 (A:81-144) DNA repair protein Rad51, N-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 64

class: All alpha proteins
fold: SAM domain-like
superfamily: Rad51 N-terminal domain-like
family: DNA repair protein Rad51, N-terminal domain
domain: DNA repair protein Rad51, N-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 77.8 bits (192), Expect = 5e-19
 Identities = 25/62 (40%), Positives = 39/62 (62%)

Query: 31 IDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNF 90
          I+KL   GI   DVKKL+++G++T   +    +K L  IKG+SEAK +K+   A ++V  
Sbjct: 3  IEKLQVNGITMADVKKLRESGLHTAEAVAYAPRKDLLEIKGISEAKADKLLNEAARLVPM 62

Query: 91 GY 92
          G+
Sbjct: 63 GF 64

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]} Length = 242

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]

 Score = 80.4 bits (197), Expect = 4e-18
 Identities = 39/250 (15%), Positives = 76/250 (30%), Gaps = 31/250 (12%)

Query: 101 RRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGN 160
           +R + +++++G   LDE+ GGG    +I  A G   +GKT L                  
Sbjct: 1   QRSSNVRVSSGVVRLDEMCGGGFFKDSIILATGATGTGKTLLVSRFVENACANKER---- 56

Query: 161 GKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDN---IIYARAYTYEHQYNLLLGLAAKM 217
                I         +++  A  +GMD   +       I           + L  + +++
Sbjct: 57  ----AILFAYEESRAQLLRNAYSWGMDFEEMERQNLLKIVCAYPESAGLEDHLQIIKSEI 112

Query: 218 SEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA 277
           ++     + +DS+ AL R                 Q +  +T  +++  +    TN    
Sbjct: 113 NDFKPARIAIDSLSALAR---------GVSNNAFRQFVIGVTGYAKQEEITGLFTNTSDQ 163

Query: 278 DPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHI 337
             G           +    +   + +           R   VF        +A      I
Sbjct: 164 FMGAHSI-----TDSHISTITDTIILLQYVEIRGEMSRAINVFKMRGSWHDKA------I 212

Query: 338 ILIKITPGGI 347
               I+  G 
Sbjct: 213 REFMISDKGP 222

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]} Length = 242

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]

 Score = 77.4 bits (189), Expect = 4e-17
 Identities = 43/260 (16%), Positives = 84/260 (32%), Gaps = 44/260 (16%)

Query: 102 RKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNG 161
            +A+ K+ T  +  D++  GG+  G  T   G   +GKT  +            +   + 
Sbjct: 2   HQAIAKMRTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLY-----NGIIEFDE 56

Query: 162 KVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNI-----------IYARAYTYEHQYNLL 210
              ++  E T  P  I+  A  FG D   ++D                          L+
Sbjct: 57  PGVFVTFEET--PQDIIKNARSFGWDLAKLVDEGKLFILDASPDPEGQEVVGGFDLSALI 114

Query: 211 LGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVY 270
             +   + +   R + +DSV ++F+          D    + + L RL    ++      
Sbjct: 115 ERINYAIQKYRARRVSIDSVTSVFQ--------QYDASSVVRRELFRLVARLKQIGATTV 166

Query: 271 MTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQR---VCKVFDAPNLPE 327
           MT + I +           +      ++  V I     +G+  +R   + K+    ++  
Sbjct: 167 MTTERIEEY------GPIARYGVEEFVSDNVVILRNVLEGERRRRTLEILKLRGTSHMKG 220

Query: 328 AEAISFSYHIILIKITPGGI 347
                         IT  GI
Sbjct: 221 ---------EYPFTITDHGI 231

>d1pzna1 a.60.4.1 (A:35-95) DNA repair protein Rad51, N-terminal domain {Archaeon Pyrococcus furiosus [TaxId: 2261]} Length = 61

class: All alpha proteins
fold: SAM domain-like
superfamily: Rad51 N-terminal domain-like
family: DNA repair protein Rad51, N-terminal domain
domain: DNA repair protein Rad51, N-terminal domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

 Score = 50.0 bits (120), Expect = 5e-09
 Identities = 17/54 (31%), Positives = 27/54 (50%)

Query: 38 GINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFG 91
          G+     +KL++AG  T   + + +   L  + G+SE    KI +AA K  N G
Sbjct: 8  GVGPATAEKLREAGYDTLEAIAVASPIELKEVAGISEGTALKIIQAARKAANLG 61

>d2i1qa1 a.60.4.1 (A:5-64) DNA repair protein Rad51, N-terminal domain {Archaeon Methanococcus voltae [TaxId: 2188]} Length = 60

class: All alpha proteins
fold: SAM domain-like
superfamily: Rad51 N-terminal domain-like
family: DNA repair protein Rad51, N-terminal domain
domain: DNA repair protein Rad51, N-terminal domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

 Score = 49.0 bits (117), Expect = 1e-08
 Identities = 15/55 (27%), Positives = 25/55 (45%)

Query: 38 GINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGY 92
          G+     +KL +AG      +   T   LT I+G+SE    K+   A  + + G+
Sbjct: 6  GVGPSTAEKLVEAGYIDFMKIATATVGELTDIEGISEKAAAKMIMGARDLCDLGF 60

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]} Length = 277

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]

 Score = 37.3 bits (85), Expect = 0.002
 Identities = 23/216 (10%), Positives = 53/216 (24%), Gaps = 2/216 (0%)

Query: 97  DALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNM 156
           + L   ++V  + +G   +++    G   G +         GK+       +        
Sbjct: 7   EHLSSEESVGLLFSGCTGINDKT-LGARGGEVIMVTSGSGMGKSTFVRQQALQWGTAMGK 65

Query: 157 RGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAK 216
           + G   +     E       +         D     + I   +   +  +          
Sbjct: 66  KVGLAMLEESVEETAEDLIGLHNRVRLRQSDSLK-REIIENGKFDQWFDELFGNDTFHLY 124

Query: 217 MSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI 276
            S        + + +A  R        + D    +        +     N+   +     
Sbjct: 125 DSFAEAETDRLLAKLAYMRSGLGCDVIILDHISIVVSASGESDERKMIDNLMTKLKGFAK 184

Query: 277 ADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKG 312
           +     V I   K P  G        + +   +G G
Sbjct: 185 STGVVLVVICHLKNPDKGKAHEEGRPVSITDLRGSG 220

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]} Length = 274

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]

 Score = 36.9 bits (84), Expect = 0.002
 Identities = 25/217 (11%), Positives = 59/217 (27%), Gaps = 16/217 (7%)

Query: 107 KITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVC----TQLPTNMRGGNGK 162
                   LD +L   +  G +        +GK+ LA  L         L        G 
Sbjct: 11  AFAAAPPPLDYVLPNMVA-GTVGALVSPGGAGKSMLALQLAAQIAGGPDLLEVGELPTGP 69

Query: 163 VAYIDTEGTFRP--DRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEE 220
           V Y+  E        R+  +      +    + + +  +         +       +   
Sbjct: 70  VIYLPAEDPPTAIHHRLHALGAHLSAEERQAVADGLLIQPLIGSLPNIMAPEWFDGLKRA 129

Query: 221 PF--RLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIAD 278
               RL+++D++            E  +    + Q++ R+  I+ +   ++   +     
Sbjct: 130 AEGRRLMVLDTLRRFH-------IEEENASGPMAQVIGRMEAIAADTGCSIVFLHHASKG 182

Query: 279 PGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQR 315
                     +   G  VL   +  +         + 
Sbjct: 183 AAMMGAGDQQQASRGSSVLVDNIRWQSYLSSMTSAEA 219

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	352
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	100.0
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	100.0
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	100.0
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	100.0
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	100.0
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	100.0
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	100.0
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	100.0
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	99.97
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	99.96
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	99.93
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	99.86
d2awna2	232	Maltose transport protein MalK, N-terminal domain	99.14
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	99.13
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	99.1
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	99.08
d1szpa1	64	DNA repair protein Rad51, N-terminal domain {Baker	99.07
d1b22a_	70	DNA repair protein Rad51, N-terminal domain {Human	99.04
d1g2912	240	Maltose transport protein MalK, N-terminal domain	99.0
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	98.97
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	98.95
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	98.94
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	98.91
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	98.9
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	98.89
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	98.88
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	98.86
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	98.85
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	98.74
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	98.7
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	98.68
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	98.67
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	98.58
d1okkd2	207	GTPase domain of the signal recognition particle r	98.41
d2qy9a2	211	GTPase domain of the signal recognition particle r	98.34
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	98.29
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.26
d2i1qa1	60	DNA repair protein Rad51, N-terminal domain {Archa	98.25
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.24
d1ls1a2	207	GTPase domain of the signal sequence recognition p	98.15
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.15
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.13
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.1
d1vmaa2	213	GTPase domain of the signal recognition particle r	98.05
d1pzna1	61	DNA repair protein Rad51, N-terminal domain {Archa	97.96
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	97.96
d1j8yf2	211	GTPase domain of the signal sequence recognition p	97.96
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	97.75
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	97.67
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.55
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	97.55
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	97.54
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	97.53
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.42
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	97.41
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	97.4
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.39
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	97.37
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	97.35
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.23
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.19
d1xpua3	289	Transcription termination factor Rho, ATPase domai	97.11
d1doqa_	69	C-terminal domain of RNA polymerase alpha subunit	97.1
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.06
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	97.06
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.05
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	97.02
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.02
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.01
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	96.98
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	96.98
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	96.96
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	96.96
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	96.95
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.93
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.93
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	96.92
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	96.91
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	96.84
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.83
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.83
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.81
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.78
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	96.78
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	96.74
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	96.66
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	96.63
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.62
d1xbta1	133	Thymidine kinase, TK1, N-terminal domain {Human (H	96.61
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.6
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	96.53
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.46
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	96.46
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	96.45
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	96.44
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	96.43
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	96.41
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	96.38
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.35
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.34
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.31
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.29
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.27
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	96.27
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.22
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.21
d1lb2b_	72	C-terminal domain of RNA polymerase alpha subunit	96.15
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	96.15
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	96.12
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	96.12
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.1
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.08
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.07
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	96.06
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	96.05
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	96.03
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.03
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	96.02
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.0
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	95.97
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.95
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	95.93
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	95.92
d1z3eb1	67	C-terminal domain of RNA polymerase alpha subunit	95.86
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	95.84
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	95.82
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	95.78
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	95.78
d1u9la_	68	Transcription elongation protein NusA {Escherichia	95.72
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	95.68
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	95.66
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	95.64
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	95.64
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	95.62
d1g5ta_	157	ATP:corrinoid adenosyltransferase CobA {Salmonella	95.6
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	95.58
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	95.54
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	95.54
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	95.54
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	95.52
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	95.51
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	95.5
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	95.46
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	95.42
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	95.42
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	95.41
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	95.4
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	95.37
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.36
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	95.33
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	95.32
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	95.29
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	95.28
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	95.27
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	95.27
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	95.25
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	95.25
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	95.12
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	94.99
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	94.98
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	94.91
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	94.87
d1tuea_	205	Replication protein E1 helicase domain {Human papi	94.77
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	94.76
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	94.63
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	94.62
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	94.6
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.54
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	94.47
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	94.46
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	94.22
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	94.21
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	94.18
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	94.18
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	94.14
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.12
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	94.11
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	94.11
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	94.09
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	94.07
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	94.02
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	93.98
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	93.93
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	93.92
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	93.91
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	93.89
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	93.85
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	93.75
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	93.71
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	93.69
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	93.69
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	93.63
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	93.62
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	93.59
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	93.58
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	93.57
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	93.56
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	93.53
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.52
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	93.49
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	93.41
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	93.41
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	93.39
d1nrjb_	209	Signal recognition particle receptor beta-subunit	93.37
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	93.36
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	93.32
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	93.3
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	93.24
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	93.18
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	93.15
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	93.04
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	93.03
d2fh5b1	207	Signal recognition particle receptor beta-subunit	93.02
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	93.01
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	93.0
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	92.99
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	92.99
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	92.97
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	92.87
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	92.85
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	92.81
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	92.81
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	92.8
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	92.8
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	92.79
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	92.72
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	92.69
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	92.67
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	92.65
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	92.63
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	92.48
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	92.32
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	92.22
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	92.17
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	92.12
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	92.06
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	92.01
d2bgwa1	70	DNA repair endonuclease XPF {Aeropyrum pernix [Tax	91.89
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	91.89
d2a1ja1	62	DNA repair endonuclease XPF {Human (Homo sapiens)	91.8
d1xx6a1	141	Thymidine kinase, TK1, N-terminal domain {Clostrid	91.66
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	91.63
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	91.62
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	91.55
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	91.52
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	91.46
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	91.38
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	91.36
d2a1jb1	78	DNA excision repair protein ERCC-1 {Human (Homo sa	91.33
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	91.3
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	91.29
d1kfta_	56	Excinuclease UvrC C-terminal domain {Escherichia c	91.26
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	91.19
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	91.1
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	91.0
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	91.0
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	90.4
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	90.33
d1x2ia1	68	ATP-dependent RNA helicase PF2015 {Pyrococcus furi	90.27
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	90.21
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	90.21
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	89.87
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	89.81
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	89.69
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	89.67
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	89.36
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	88.92
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	87.74
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	87.37
d2q0zx1	176	Protein pro2281 {Human (Homo sapiens) [TaxId: 9606	87.19
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	87.18
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	86.87
d1y88a1	59	Hypothetical protein AF1548, C-terminal domain {Ar	86.74
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	86.19
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	85.61
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	85.27
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	84.84
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	84.7
d1dxsa_	57	C-terminal domain of p73 {Human (Homo sapiens) [Ta	84.26
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	82.54
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	82.35

>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=100.00  E-value=5.2e-38  Score=280.57  Aligned_cols=255  Identities=63%  Similarity=0.984  Sum_probs=209.6

Q ss_pred             cCCCchhhhHHhhhcccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388           90 FGYITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus        90 ~~~~~~~~~~~~~~~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      ++|.++.++.+.+....+||||++.||++|+||||+|++++|+|+||+|||+||+|++.+++.....+.....++|++++
T Consensus         1 ~~~~~~~~~~~~~~~~~ri~TGi~~LD~~lgGGip~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~   80 (258)
T d1v5wa_           1 PGFLTAFEYSEKRKMVFHITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTE   80 (258)
T ss_dssp             CCSEEHHHHHHHGGGCCCBCCSCHHHHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESS
T ss_pred             CCcccHHHHHHhhcCCceecCCCHHHHHhhcCCCcCCEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechH
Confidence            57889999998888889999999999999999999999999999999999999999999988765555567889999999


Q ss_pred             CCCChhhHHHHHHHcCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhc--CCceEEEEcccccchhcccCCCcchHHH
Q 047388          170 GTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSE--EPFRLLIVDSVIALFRVDFTGRGELADR  247 (352)
Q Consensus       170 ~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~--~~~~lvvIDsl~~l~~~~~~~~g~~~~r  247 (352)
                      ..+...+...+....+.+......++.+.+..+..+..+.+..+......  ..++++++|++.+++.....+.+++..+
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vid~~~~~~~~~~~~~~~~~~~  160 (258)
T d1v5wa_          81 NTFRPDRLRDIADRFNVDHDAVLDNVLYARAYTSEHQMELLDYVAAKFHEEAGIFKLLIIDSIMALFRVDFSGRGELAER  160 (258)
T ss_dssp             SCCCHHHHHHHHHHTTCCHHHHHHTEEEEECCSTTHHHHHHHHHHHHHHHSCSSEEEEEEETSGGGHHHHCCGGGCHHHH
T ss_pred             HHHHHHHHHHHHhhhcccchhhhhcccccccCcHHHHHHHHHHHHHHhhhhccCceEEEeeehhhhhhccccCCcchhHH
Confidence            99999989999988888887777889999998888877777666554433  3679999999999988766655566777


Q ss_pred             HHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCC-cccCCCCCCCcchhhhhccceEEEEEeecCCeEEEEEEeCCCCC
Q 047388          248 QQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGG-VFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLP  326 (352)
Q Consensus       248 ~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~-~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~~~R~~~i~Ks~~~~  326 (352)
                      ...+.+++..|+.+++++++++++++|.+...... .+......+.+|..|.|.++.++.|++.++..|.++|.|+|+.|
T Consensus       161 ~~~l~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~l~l~~~~~~~R~l~i~K~r~~~  240 (258)
T d1v5wa_         161 QQKLAQMLSRLQKISEEYNVAVFVTNQMTADPGATMTFQADPKKPIGGHILAHASTTRISLRKGRGELRIAKIYDSPEMP  240 (258)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCEEEEEECC-------------------CCTTTTSSSEEEEEEESSTTEEEEEEEECTTCC
T ss_pred             HHHHHHHHHHHHHHHHhcCCEEEEeeeEeecccccccccCCceeecccceehheeEEEEEEEEcCCCEEEEEEEeCCCCC
Confidence            77888999999999999999999999998754332 22334456899999999999999999988899999999999998


Q ss_pred             cccccccceeeeeEEEeCCCccCCCC
Q 047388          327 EAEAISFSYHIILIKITPGGIADAKD  352 (352)
Q Consensus       327 ~~~~~~~~~~~~~f~I~~~Gi~~~~~  352 (352)
                      +..+.        |+|+++||+|++|
T Consensus       241 ~~~~~--------F~It~~GI~~~~~  258 (258)
T d1v5wa_         241 ENEAT--------FAITAGGIGDAKE  258 (258)
T ss_dssp             SSCEE--------EEEETTEEEECCC
T ss_pred             CcEEE--------EEEcCCCcccCCC
Confidence            87665        9999999999976

>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=100.00  E-value=3.2e-37  Score=273.83  Aligned_cols=249  Identities=56%  Similarity=0.946  Sum_probs=203.8

Q ss_pred             chhhhHHhhhcccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCC
Q 047388           94 TGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFR  173 (352)
Q Consensus        94 ~~~~~~~~~~~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~  173 (352)
                      |+.|+..++....+||||++.||.+|+||||+|++++|+|+||+|||+||+|++.+++.....+..+.+++|++++..+.
T Consensus         2 ~~~~~~~~~~~~~~i~TGi~~LD~ll~GGi~~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~   81 (251)
T d1szpa2           2 TAADFHMRRSELICLTTGSKNLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFR   81 (251)
T ss_dssp             CHHHHHHHHHSSCEECCSCHHHHHHHTSSEESSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCC
T ss_pred             CHHHHHHHhcCCCeecCCCHHHHhhhCCCCcCCeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchHH
Confidence            67888888888999999999999999999999999999999999999999999999888766677789999999999999


Q ss_pred             hhhHHHHHHHcCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHH
Q 047388          174 PDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQ  253 (352)
Q Consensus       174 ~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~  253 (352)
                      ..++....+.++.+......++.+.+......+...+..+...+....+.++++|++..+........+....+......
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ds~~~~~~~~~~~~~~~~~~~~~~~~  161 (251)
T d1szpa2          82 PVRLVSIAQRFGLDPDDALNNVAYARAYNADHQLRLLDAAAQMMSESRFSLIVVDSVMALYRTDFSGRGELSARQMHLAK  161 (251)
T ss_dssp             GGGGHHHHHHTCCCHHHHGGGEEEEECCSTTTHHHHHHHTHHHHHHSCEEEEEEETGGGGGSCC-----CTHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCchhhhhcceEEEeccchhHHHHHHHHHHHHhhccccceeeehhhhhhhhhhhccccchhhHHHHHHH
Confidence            99999999999999888888999988877776666666666667777899999999998876554433344555566778


Q ss_pred             HHHHHHHHHHHhCcEEEEEcccccCCCCC-cccCCCCCCCcchhhhhccceEEEEEeecCCeEEEEEEeCCCCCcccccc
Q 047388          254 MLSRLTKISEEFNVAVYMTNQVIADPGGG-VFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAIS  332 (352)
Q Consensus       254 i~~~L~~la~~~~~~viv~~h~~~~~~~~-~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~~~R~~~i~Ks~~~~~~~~~~  332 (352)
                      ++..|..++...++++++++|++...++. .+..+...+++|..|.|.++.+|.|++.++..|.++|.|+|+.|++... 
T Consensus       162 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~l~~~~~~~r~l~i~K~r~~~~~~~~-  240 (251)
T d1szpa2         162 FMRALQRLADQFGVAVVVTNQVVAQVDGGMAFNPDPKKPTGGNIMAHSSTTRLGFKKGKGCQRLCKVVDSPCLPEAECV-  240 (251)
T ss_dssp             HHHHHHHHHHHHCCCEEEEEECC----------------CHHHHHHHHCSEEEEEEECSTTEEEEECCSCSSSCCCCCC-
T ss_pred             HHHHHHhhhhhcceEEEEEEEEEeccCccccccCcceeccCccchhhheeEEEEEEecCCcEEEEEEEECCCCCCeeEE-
Confidence            89999999999999999999998865443 2223455789999999999999999998889999999999999988776 


Q ss_pred             cceeeeeEEEeCCCccCC
Q 047388          333 FSYHIILIKITPGGIADA  350 (352)
Q Consensus       333 ~~~~~~~f~I~~~Gi~~~  350 (352)
                             |+|+++||+|+
T Consensus       241 -------f~It~~Gi~~~  251 (251)
T d1szpa2         241 -------FAIYEDGVGDP  251 (251)
T ss_dssp             -------EEEETTEEEC-
T ss_pred             -------EEEcCCCccCc
Confidence                   99999999985

>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=100.00  E-value=7.1e-36  Score=267.49  Aligned_cols=220  Identities=27%  Similarity=0.392  Sum_probs=169.6

Q ss_pred             hhcccccccCChhhHHhhc-CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHH
Q 047388          102 RKAVIKITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPI  180 (352)
Q Consensus       102 ~~~~~~i~TG~~~LD~~L~-GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~  180 (352)
                      ..+.++||||+..||.+|+ ||||+|.+++|+|+||+||||||++++.+++.      .++.|+|+|+|+.++++    +
T Consensus        29 ~~~~~~isTG~~~lD~~Lg~GGi~~g~itei~G~~gsGKTtl~l~~~~~~q~------~g~~~vyidtE~~~~~~----~   98 (263)
T d1u94a1          29 SMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQR------EGKTCAFIDAEHALDPI----Y   98 (263)
T ss_dssp             BCCCCEECCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHH------TTCCEEEEESSCCCCHH----H
T ss_pred             CCCCCeEccCCHHHHHHhcCCCccCceEEEEecCCCcHHHHHHHHHHHHHHc------CCCEEEEEccccccCHH----H
Confidence            3467899999999999997 99999999999999999999999999999998      57899999999999986    5


Q ss_pred             HHHcCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhc-ccCC---CcchHHHHHHHHHHHH
Q 047388          181 AERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRV-DFTG---RGELADRQQKLGQMLS  256 (352)
Q Consensus       181 ~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~-~~~~---~g~~~~r~~~l~~i~~  256 (352)
                      ++++|+++    +++.+.+..+.++..+.+..+   +...++++|||||++++++. ++.+   ....+.+.+.+..+++
T Consensus        99 a~~~Gvd~----d~v~~~~~~~~E~~~~~i~~l---~~~~~~~liViDSi~al~~~~e~~~~~~~~~~~~~a~~l~~~~~  171 (263)
T d1u94a1          99 ARKLGVDI----DNLLCSQPDTGEQALEICDAL---ARSGAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMR  171 (263)
T ss_dssp             HHHTTCCG----GGCEEECCSSHHHHHHHHHHH---HHHTCCSEEEEECGGGCCCHHHHTTC------CHHHHHHHHHHH
T ss_pred             HHHhCCCH----HHEEEecCCCHHHHHHHHHHH---HhcCCCCEEEEECccccccchhcccccccchHHHHHHHHHHHHH
Confidence            77889987    788888888888877665543   44568899999999999852 2211   1123344566789999


Q ss_pred             HHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeec----C-----CeEEEEEEeCCCCCc
Q 047388          257 RLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGK----G-----EQRVCKVFDAPNLPE  327 (352)
Q Consensus       257 ~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~----~-----~~R~~~i~Ks~~~~~  327 (352)
                      .|..++.++++++|++||++..++.  +.+++..|.||+.|.|++++||.|++..    +     ..+.+++.|||..|+
T Consensus       172 ~l~~~~~~~~~~vi~~NQv~~~~~~--~~g~~~~~~GG~al~~~~~~rl~l~k~~~~k~g~~~iG~~~r~~v~Knr~~~p  249 (263)
T d1u94a1         172 KLAGNLKQSNTLLIFINQIRMKIGV--MFGNPETTTGGNALKFYASVRLDIRRIGAVKEGENVVGSETRVKVVKNKIAAP  249 (263)
T ss_dssp             HHHHHHHHHTCEEEEEEC----------------CTTCSHHHHHCSEEEEEEEEEEEESSSSEEEEEEEEEEEEESSBCS
T ss_pred             HHHHhhhccCceEEEEEEEEecccc--ccCCCccccccchhheeeEEEEEEEeccccccCCceeeeEEEEEEEeCCCCCC
Confidence            9999999999999999999876532  3367788999999999999999998742    2     233478999998887


Q ss_pred             ccccccceeeeeEEEe-CCCc
Q 047388          328 AEAISFSYHIILIKIT-PGGI  347 (352)
Q Consensus       328 ~~~~~~~~~~~~f~I~-~~Gi  347 (352)
                      ++..       .|.|+ ++||
T Consensus       250 ~~~~-------~f~i~~~~GI  263 (263)
T d1u94a1         250 FKQA-------EFQILYGEGI  263 (263)
T ss_dssp             CCEE-------EEEEETTTEE
T ss_pred             CCEE-------EEEEEcCCCC
Confidence            6432       49999 8886

>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=100.00  E-value=1.8e-35  Score=263.91  Aligned_cols=248  Identities=51%  Similarity=0.840  Sum_probs=198.9

Q ss_pred             CCchhhhHHhhhcccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC
Q 047388           92 YITGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT  171 (352)
Q Consensus        92 ~~~~~~~~~~~~~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~  171 (352)
                      |.++.|+++.+....++|||++.||.+|+||+|+|++++|+|+||+|||+|++|++.+++.+....+.++.++|++++..
T Consensus         2 ~~~~~~~~~~~~~i~ri~TGi~~LD~ll~GGlp~G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (254)
T d1pzna2           2 FMRADEYLKKRATIGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENT   81 (254)
T ss_dssp             CEEHHHHHHHHHTCCEECCSCHHHHHHHTSSEESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSC
T ss_pred             cccHHHHHHhhcCCCeECCCCHHHHHhhcCCccCCEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccch
Confidence            67788888888899999999999999999999999999999999999999999999999876666667899999999999


Q ss_pred             CChhhHHHHHHHcCCCcccccccEEEEecCCHHHHHHHHHHHHHH-----hhcCCceEEEEcccccchhcccCCCcchHH
Q 047388          172 FRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAK-----MSEEPFRLLIVDSVIALFRVDFTGRGELAD  246 (352)
Q Consensus       172 ~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~-----l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~  246 (352)
                      ..+.+++.....++++++.......+............+......     .....++++++|+++.++..+.........
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~viDs~~~~~~~~~~~~~~~~~  161 (254)
T d1pzna2          82 FRPERIREIAQNRGLDPDEVLKHIYVARAFNSNHQMLLVQQAEDKIKELLNTDRPVKLLIVDSLTSHFRSEYIGRGALAE  161 (254)
T ss_dssp             CCHHHHHHHHHTTTCCHHHHGGGEEEEECCSHHHHHHHHHHHHHHHHHSSSSSSCEEEEEEETSSTTHHHHCCSTTTHHH
T ss_pred             hHHHHHHHHHHhcCCChHHhhhhhhhhhhccchhHHHHHHhhhhhhHHHHhhccCceeEeecchhheeehhhcccchhhh
Confidence            889888988888999887777777777777776655544433221     122378999999999998876554445555


Q ss_pred             HHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeecCCeEEEEEEeCCCCC
Q 047388          247 RQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLP  326 (352)
Q Consensus       247 r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~~~R~~~i~Ks~~~~  326 (352)
                      ....+...+..++.++...++++++++|......+.  .+....++++..|+|.++.++.|++.++..|.++|.|+|+.|
T Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~l~l~~~~~~~R~~~v~K~R~~~  239 (254)
T d1pzna2         162 RQQKLAKHLADLHRLANLYDIAVFVTNQVQARPDAF--FGDPTRPIGGHILAHSATLRVYLRKGKGGKRIARLIDAPHLP  239 (254)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCEEEEEEECC-----------------CCCCCTTCSEEEEEEECTTSEEEEEESCSSSSC
T ss_pred             hHHHHHHHHHHHHHHhhccceEEEecceEeeccCcc--cCCceeecCceeehhhceEEEEEEecCCCeEEEEEEECCCCC
Confidence            556678888999999999999999999998754322  234456789999999999999999988899999999999999


Q ss_pred             cccccccceeeeeEEEeCCCccC
Q 047388          327 EAEAISFSYHIILIKITPGGIAD  349 (352)
Q Consensus       327 ~~~~~~~~~~~~~f~I~~~Gi~~  349 (352)
                      ++...        |+|+++||+|
T Consensus       240 ~~~~~--------f~It~~Gi~~  254 (254)
T d1pzna2         240 EGEAV--------FSITEKGIED  254 (254)
T ss_dssp             CSEEE--------EEEETTEEEC
T ss_pred             CeEEE--------EEECCCCccC
Confidence            88665        9999999986

>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=100.00  E-value=1.2e-35  Score=266.36  Aligned_cols=220  Identities=27%  Similarity=0.380  Sum_probs=172.2

Q ss_pred             hhcccccccCChhhHHhhc-CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHH
Q 047388          102 RKAVIKITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPI  180 (352)
Q Consensus       102 ~~~~~~i~TG~~~LD~~L~-GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~  180 (352)
                      +.+.++||||++.||.+|+ ||+|.|.+++|+|++|+|||+||++++.+++.      .++.|+|||+|+.++++    +
T Consensus        32 ~~~~~~i~TGs~~lD~~Lg~GGip~g~itei~G~~~sGKT~l~l~~~~~aqk------~g~~v~yiDtE~~~~~~----~  101 (268)
T d1xp8a1          32 KLDVQVVSTGSLSLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQAQK------AGGTCAFIDAEHALDPV----Y  101 (268)
T ss_dssp             CCCCCEECCSCHHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHH------TTCCEEEEESSCCCCHH----H
T ss_pred             CCCCCeEcCCCHHHHHHhcCCCccCceEEEEecCCccchHHHHHHHHHHHHh------CCCEEEEEECCccCCHH----H
Confidence            4567899999999999997 99999999999999999999999999999987      57899999999999986    6


Q ss_pred             HHHcCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccch-hcccCCCc---chHHHHHHHHHHHH
Q 047388          181 AERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALF-RVDFTGRG---ELADRQQKLGQMLS  256 (352)
Q Consensus       181 ~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~-~~~~~~~g---~~~~r~~~l~~i~~  256 (352)
                      ++++|+++    +++.+.++.+.+++.++++.   ++.+.++++|||||+++++ +.++.++.   ..+.+++.+..+++
T Consensus       102 a~~~Gvd~----d~i~~~~~~~~E~~~~~~~~---l~~~~~~~liIiDSi~al~~r~e~~~~~~~~~~~~~a~~l~~~lr  174 (268)
T d1xp8a1         102 ARALGVNT----DELLVSQPDNGEQALEIMEL---LVRSGAIDVVVVDSVAALTPRAEIEGDMGDSLPGLQARLMSQALR  174 (268)
T ss_dssp             HHHTTCCG----GGCEEECCSSHHHHHHHHHH---HHTTTCCSEEEEECTTTCCCSTTC--------CCHHHHHHHHHHH
T ss_pred             HHHhCCCc----hhEEEEcCCCHHHHHHHHHH---HHhcCCCcEEEEecccccccHHHHcccccchhHHHHHHHHHHHHH
Confidence            78899998    68889999999888776654   4556689999999999999 56654321   12346677899999


Q ss_pred             HHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeecC----------CeEEEEEEeCCCCC
Q 047388          257 RLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKG----------EQRVCKVFDAPNLP  326 (352)
Q Consensus       257 ~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~----------~~R~~~i~Ks~~~~  326 (352)
                      .|..++.++++++|+|||+...++ . +.+++..+.||+.|.|.+++||.|++...          ....+++.|||..|
T Consensus       175 ~l~~~~~~~~~~vi~tNQv~~~~g-~-~~g~~~~~~GG~al~~~ss~rl~l~k~~~~~k~~~~~iG~~v~~kv~Knr~~~  252 (268)
T d1xp8a1         175 KLTAILSKTGTAAIFINQVREKIG-V-MYGNPETTTGGRALKFYASVRLDVRKIGQPTKVGNDAVANTVKIKTVKNKVAA  252 (268)
T ss_dssp             HHHHHHTTTCCEEEEEEEC-----------------CHHHHHHHCSEEEEEEEESCCC------CEEEEEEEEEEESSSC
T ss_pred             HHHhhhhhcCCeEEEEeEEeeccc-c-ccCcceeecccchhhhceeEEEEEEecCcccccCCceEEEEEEEEEEECCcCC
Confidence            999999999999999999998653 2 34678889999999999999999987531          23458999999998


Q ss_pred             cccccccceeeeeEEEe-CCCc
Q 047388          327 EAEAISFSYHIILIKIT-PGGI  347 (352)
Q Consensus       327 ~~~~~~~~~~~~~f~I~-~~Gi  347 (352)
                      ++...       .|.|. +.||
T Consensus       253 p~~~~-------~~~i~~~~Gi  267 (268)
T d1xp8a1         253 PFKEV-------ELALVYGKGF  267 (268)
T ss_dssp             CCCEE-------EEEEETTTEE
T ss_pred             CCCEE-------EEEEecCCCC
Confidence            86443       48888 7786

>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=100.00  E-value=1.7e-35  Score=265.07  Aligned_cols=219  Identities=28%  Similarity=0.441  Sum_probs=174.4

Q ss_pred             hhcccccccCChhhHHhhc-CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHH
Q 047388          102 RKAVIKITTGSQALDELLG-GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPI  180 (352)
Q Consensus       102 ~~~~~~i~TG~~~LD~~L~-GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~  180 (352)
                      +...+.||||++.||.+|+ ||+|.|.+++|+|+||+|||+||++++.+++.      .++.|+|||+|+.+++++    
T Consensus        35 ~~~~~~i~TG~~~lD~~lg~gG~~~g~i~e~~G~~~~GKT~l~l~~~~~~q~------~g~~~vyIDtE~~~~~e~----  104 (269)
T d1mo6a1          35 RQPISVIPTGSIALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQA------AGGVAAFIDAEHALDPDY----  104 (269)
T ss_dssp             CCCSCCBCCSCHHHHHHTSSSSBCSSSEEEEECSSSSSHHHHHHHHHHHHHH------TTCEEEEEESSCCCCHHH----
T ss_pred             CCccceEccCCHHHHHhhccCCcccceeEEEecCCCcHHHHHHHHHHHHHhc------CCCEEEEEECCccCCHHH----
Confidence            4567899999999999998 99999999999999999999999999999887      688999999999999874    


Q ss_pred             HHHcCCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchh-cccCCC---cchHHHHHHHHHHHH
Q 047388          181 AERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFR-VDFTGR---GELADRQQKLGQMLS  256 (352)
Q Consensus       181 ~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~-~~~~~~---g~~~~r~~~l~~i~~  256 (352)
                      ++++|+++    +++.++++.+.++..+.++.   .+.+.++++|||||++++++ .++.+.   ...+.+++.+..+++
T Consensus       105 a~~~GvD~----d~il~~~~~~~E~~~~~~~~---l~~~~~~~liIiDSi~al~~~~E~e~~~~~~~~~~~a~~l~~~l~  177 (269)
T d1mo6a1         105 AKKLGVDT----DSLLVSQPDTGEQALEIADM---LIRSGALDIVVIDSVAALVPRAELEGEMGDSHVGLQARLMSQALR  177 (269)
T ss_dssp             HHHHTCCG----GGCEEECCSSHHHHHHHHHH---HHHTTCEEEEEEECSTTCCCHHHHC-------CCHHHHHHHHHHH
T ss_pred             HHHhCCCH----HHeEEecCCCHHHHHHHHHH---HHhcCCCCEEEEecccccccHHHhccccccchHHHHHHHHHHHHH
Confidence            66679988    68889999888887776554   45566899999999999994 555432   234556778899999


Q ss_pred             HHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeec---------CCeEEEEEEeCCCCCc
Q 047388          257 RLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGK---------GEQRVCKVFDAPNLPE  327 (352)
Q Consensus       257 ~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~---------~~~R~~~i~Ks~~~~~  327 (352)
                      .|..++.++++++|++||+...++ .+| +++.+|.||+.|.|.+++||.|++.+         |..+.+++.|||..|+
T Consensus       178 ~l~~~~~~~~~~vi~~NQv~~~~~-~~~-g~~~~~~GG~al~~~ss~rl~l~k~~~~kdg~~~iG~~~~~kv~Knr~~~p  255 (269)
T d1mo6a1         178 KMTGALNNSGTTAIFINQLRDKIG-VMF-GSPETTTGGKALKFYASVRMDVRRVETLKDGTNAVGNRTRVKVVKNKCLAP  255 (269)
T ss_dssp             HHHHHHHHHTCEEEEEECC---------------CTTHHHHHHHCSEEEEEEEEECCBCSSSBCEEEEEEEEEEESSSCS
T ss_pred             HHHHHHhhcCchhhhhheeeccCc-ccc-CCceecccccceeeeeeEEEEEEecceeccCCceEEEEEEEEEEECCCCCC
Confidence            999999999999999999998654 233 67788999999999999999998753         2334589999999988


Q ss_pred             c-cccccceeeeeEEEe-CCCc
Q 047388          328 A-EAISFSYHIILIKIT-PGGI  347 (352)
Q Consensus       328 ~-~~~~~~~~~~~f~I~-~~Gi  347 (352)
                      + .+.        |.|+ +.||
T Consensus       256 ~~~a~--------f~I~~~~GI  269 (269)
T d1mo6a1         256 FKQAE--------FDILYGKGI  269 (269)
T ss_dssp             CEEEE--------EEEETTTEE
T ss_pred             CCEEE--------EEEEeCCcC
Confidence            6 454        9998 7786

>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=100.00  E-value=2.5e-33  Score=248.81  Aligned_cols=246  Identities=45%  Similarity=0.742  Sum_probs=201.3

Q ss_pred             chhhhHHhhhcccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCcc----------CCCCCeE
Q 047388           94 TGSDALLRRKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNM----------RGGNGKV  163 (352)
Q Consensus        94 ~~~~~~~~~~~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~----------gg~~~~v  163 (352)
                      ++.|++.++....+|+||++.||++|+||+++|++++|+|+||+|||+||+++|.+++.....          ...+.++
T Consensus         2 ~~~~~~~~~~~~~~i~TG~~~LD~ll~GGl~~G~l~~i~G~~G~GKT~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (258)
T d2i1qa2           2 SGIDLLKQRSTVWKLSTSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKA   81 (258)
T ss_dssp             CTHHHHHHHTTCCEECCSCHHHHHHTTSSEETTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEE
T ss_pred             CHHHHHHhhCCCceecCCCHHHHHhcCCCccCCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCCceEEeecccchhcCceE
Confidence            567888778888999999999999999999999999999999999999999999998753221          0135689


Q ss_pred             EEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCCHHHHHHHHHHHHHHhh-cCCceEEEEcccccchhcccCCCc
Q 047388          164 AYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMS-EEPFRLLIVDSVIALFRVDFTGRG  242 (352)
Q Consensus       164 l~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~-~~~~~lvvIDsl~~l~~~~~~~~g  242 (352)
                      +|+++|..++...+..+++.+.........++.+.+.+...+....+......+. ...+.++++|++..++.......+
T Consensus        82 ~~i~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vid~i~~~~~~~~~~~~  161 (258)
T d2i1qa2          82 VYIDTEGTFRPERIMQMAEHAGIDGQTVLDNTFVARAYNSDMQMLFAEKIEDLIQEGNNIKLVVIDSLTSTFRNEYTGRG  161 (258)
T ss_dssp             EEEESSSCCCHHHHHHHHHHHTCCHHHHHHTEEEEECSSHHHHHHHHHTHHHHHHTTCEEEEEEEECSSHHHHHHCCCTT
T ss_pred             EEEEecCCcCHHHHHHHHhhcchhhhhhhhcceeeccCchhhHHHHHHHHHHHHHHhcccceeeeeEEEEeechhccccc
Confidence            9999999888888888899998888777888999988887777666654443333 347889999999998877665555


Q ss_pred             chHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeecCCeEEEEEEeC
Q 047388          243 ELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDA  322 (352)
Q Consensus       243 ~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~~~R~~~i~Ks  322 (352)
                      ....+......+++.++.+++.+++++++++|.+...+..  ......+++|..|++.+++++.+++.++..|+++|.|+
T Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~i~l~~~~~~~r~l~v~K~  239 (258)
T d2i1qa2         162 KLAERQQKLGRHMATLNKLADLFNCVVLVTNQVSAKPDAF--FGMAEQAIGGHIVGHAATFRFFVRKGKGDKRVAKLYDS  239 (258)
T ss_dssp             SHHHHHHHHHHHHHHHHHHHHHTTCEEEEEECEECC---------CCEESSHHHHHHHCSEEEEEEECSTTEEEEEEEEC
T ss_pred             cchhhHHHHHHHHHHHHHhhhhcceEEEeecceEeccccc--cCCcccccCcchhhhhceEEEEEEEcCCCEEEEEEEEC
Confidence            5566666677889999999999999999999987754322  12344578999999999999999998888999999999


Q ss_pred             CCCCcccccccceeeeeEEEeCCCccC
Q 047388          323 PNLPEAEAISFSYHIILIKITPGGIAD  349 (352)
Q Consensus       323 ~~~~~~~~~~~~~~~~~f~I~~~Gi~~  349 (352)
                      |+.|+++..        |+|+++||+|
T Consensus       240 R~~~~~~~~--------f~I~~~Gi~~  258 (258)
T d2i1qa2         240 PHLPDAEAI--------FRITEKGIQD  258 (258)
T ss_dssp             SSSCCEEEE--------EEEETTEEEC
T ss_pred             CCCCCceEE--------EEECCCCccC
Confidence            999988776        9999999986

>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=100.00  E-value=9.2e-33  Score=240.17  Aligned_cols=240  Identities=57%  Similarity=0.969  Sum_probs=179.5

Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHc
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERF  184 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~  184 (352)
                      ..+||||++.||++|+|||++|++++|+|+||+|||+||+++|.+++.+....+......+++.........+.......
T Consensus         2 ~~ri~TG~~~LD~ll~GGi~~G~v~~i~G~~GsGKT~l~l~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (242)
T d1n0wa_           2 IIQITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLLAVAERY   81 (242)
T ss_dssp             CCEECCSCHHHHHHTTTSEETTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHHHHHHHT
T ss_pred             CCEEcCCCHHHHHhhcCCCcCCEEEEEEeCCCCCHHHHHHHHHHHHHHhhccccccceehhhhhhhhhHHHHHHHHHhhc
Confidence            46899999999999999999999999999999999999999999998876666677889999998887777777777777


Q ss_pred             CCCcccccccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHH
Q 047388          185 GMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEE  264 (352)
Q Consensus       185 ~~~~~~~~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~  264 (352)
                      ..+......++.+...................+......++.+|++..+....+........+......+...|..+++.
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  161 (242)
T d1n0wa_          82 GLSGSDVLDNVAYARAFNTDHQTQLLYQASAMMVESRYALLIVDSATALYRTDYSGRGELSARQMHLARFLRMLLRLADE  161 (242)
T ss_dssp             TCCHHHHHHTEEEEECCSHHHHHHHHHHHHHHHHHSCEEEEEEETSSGGGC-------CHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccchhhhhhhhhhhhhhchhhhhhhhhhhhhhhhhhhheeecccceeeeehhhhhcccchhhhHHHHHHHHHHHHHhhhh
Confidence            77766666677777777777666666655556666678889999988887655544444555556678888999999999


Q ss_pred             hCcEEEEEcccccCCCCC-cccCCCCCCCcchhhhhccceEEEEEeecCCeEEEEEEeCCCCCcccccccceeeeeEEEe
Q 047388          265 FNVAVYMTNQVIADPGGG-VFISDPKKPAGGHVLAHAVTIRLMFRKGKGEQRVCKVFDAPNLPEAEAISFSYHIILIKIT  343 (352)
Q Consensus       265 ~~~~viv~~h~~~~~~~~-~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~~~R~~~i~Ks~~~~~~~~~~~~~~~~~f~I~  343 (352)
                      .++++++++|++...+.. ........++++..|.|.++.++.|++.++..|.++|.|+|+.|++++.        |+|+
T Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~l~~~~~~~r~~~i~K~r~~~~~~~~--------f~I~  233 (242)
T d1n0wa_         162 FGVAVVITNQVVAQVDGAAMFAADPKKPIGGNIIAHASTTRLYLRKGRGETRICKIYDSPCLPEAEAM--------FAIN  233 (242)
T ss_dssp             HCCEEEEEC-------------------------CCTTCEEEEEEECSTTEEEEEECCBTTBSCEEEE--------EEEE
T ss_pred             cceeEEEEEEEeccccccceeecccccccchhhHHHhCcEEEEEEEcCCcEEEEEEEeCCCCCCeEEE--------EEEc
Confidence            999999999998754332 2223334678999999999999999998889999999999999988766        9999


Q ss_pred             CCCccCCCC
Q 047388          344 PGGIADAKD  352 (352)
Q Consensus       344 ~~Gi~~~~~  352 (352)
                      ++||+|++|
T Consensus       234 ~~Gi~~~~~  242 (242)
T d1n0wa_         234 ADGVGDAKD  242 (242)
T ss_dssp             TTEEECCCC
T ss_pred             CCceEcCCC
Confidence            999999986

>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=99.97  E-value=3.6e-30  Score=228.22  Aligned_cols=215  Identities=18%  Similarity=0.190  Sum_probs=167.3

Q ss_pred             hcccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHH
Q 047388          103 KAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAE  182 (352)
Q Consensus       103 ~~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~  182 (352)
                      .+..+++||++.||++|+||+|+|++++|+|+||+|||+||+|++.+++.      .+.+++|+++|++  +..+.+.++
T Consensus         3 ~~~~ri~TG~~~LD~~l~GGi~~gsl~li~G~pGsGKT~l~~qia~~~~~------~~~~~~~is~e~~--~~~~~~~~~   74 (242)
T d1tf7a2           3 SSNVRVSSGVVRLDEMCGGGFFKDSIILATGATGTGKTLLVSRFVENACA------NKERAILFAYEES--RAQLLRNAY   74 (242)
T ss_dssp             CCCCEECCSCHHHHHHTTSSEESSCEEEEEECTTSSHHHHHHHHHHHHHT------TTCCEEEEESSSC--HHHHHHHHH
T ss_pred             CCCCccCCCcHHHHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHHHHH------hccccceeeccCC--HHHHHHHHH
Confidence            45567999999999999999999999999999999999999999999886      6889999999976  777888889


Q ss_pred             HcCCCccccccc--EEEEecCC-HHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHH
Q 047388          183 RFGMDPGAVLDN--IIYARAYT-YEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLT  259 (352)
Q Consensus       183 ~~~~~~~~~~~~--i~~~~~~~-~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~  259 (352)
                      +++++.+.+...  +.+..... .....+.+..+...+...+++++||||++.++...       ..  ..+..++..|.
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~vviDs~~~~~~~~-------~~--~~~~~~~~~l~  145 (242)
T d1tf7a2          75 SWGMDFEEMERQNLLKIVCAYPESAGLEDHLQIIKSEINDFKPARIAIDSLSALARGV-------SN--NAFRQFVIGVT  145 (242)
T ss_dssp             TTSCCHHHHHHTTSEEECCCCGGGSCHHHHHHHHHHHHHTTCCSEEEEECHHHHTSSS-------CH--HHHHHHHHHHH
T ss_pred             HcCCChHHHhhcCceEEEEeecchhhHHHHHHHHHHHHHhcCCceeeeecchhhhcCC-------CH--HHHHHHHHHHH
Confidence            898876543222  33322221 12234445566677778899999999999886531       11  22457788889


Q ss_pred             HHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeecC---CeEEEEEEeCCCCCccccccccee
Q 047388          260 KISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGKG---EQRVCKVFDAPNLPEAEAISFSYH  336 (352)
Q Consensus       260 ~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~~---~~R~~~i~Ks~~~~~~~~~~~~~~  336 (352)
                      ++++++++++++++|.......        .++++..+.+++|.++.+++...   ..|.++|.|+|..++....     
T Consensus       146 ~~~~~~~~~~i~~~~~~~~~~~--------~~~~~~~~~~~ad~vi~l~~~~~~~~~~R~i~v~K~R~~~~~~~~-----  212 (242)
T d1tf7a2         146 GYAKQEEITGLFTNTSDQFMGA--------HSITDSHISTITDTIILLQYVEIRGEMSRAINVFKMRGSWHDKAI-----  212 (242)
T ss_dssp             HHHHHTTCEEEEEEECSSSSCC--------CSSCSSCCTTTCSEEEEEEEEEETTEEEEEEEEEEESSSCCCCBC-----
T ss_pred             HHHHHcCCeEEEEEeeEeeccc--------cccCCcceeeecceEEEEEEeecCCceEEEEEEEecCCCCCCCeE-----
Confidence            9999999999999998653222        25677889999999999987532   3589999999998865442     


Q ss_pred             eeeEEEeCCCcc
Q 047388          337 IILIKITPGGIA  348 (352)
Q Consensus       337 ~~~f~I~~~Gi~  348 (352)
                       .+|+|+++||+
T Consensus       213 -~~f~I~~~Gi~  223 (242)
T d1tf7a2         213 -REFMISDKGPD  223 (242)
T ss_dssp             -EEEEECSSCEE
T ss_pred             -EEEEEeCCcEE
Confidence             56999999995

>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=99.96  E-value=2.4e-28  Score=214.91  Aligned_cols=216  Identities=19%  Similarity=0.213  Sum_probs=161.8

Q ss_pred             hcccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHH
Q 047388          103 KAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAE  182 (352)
Q Consensus       103 ~~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~  182 (352)
                      +...+|+||++.||++|+||||+|++++|+|+||+|||+||++++.+.+..     .+.+++|+++|++  ...+...+.
T Consensus         3 ~~~~~i~TGi~~LD~~l~GGi~~G~~~~I~G~~G~GKT~la~~~~~~~~~~-----~~~~~~~~s~e~~--~~~~~~~~~   75 (242)
T d1tf7a1           3 QAIAKMRTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIE-----FDEPGVFVTFEET--PQDIIKNAR   75 (242)
T ss_dssp             SSCCEECCCCTTHHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHH-----HCCCEEEEESSSC--HHHHHHHHG
T ss_pred             CCCCcccCCcHHHHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHh-----cCCCcccccccCC--HHHHHHHHH
Confidence            457899999999999999999999999999999999999999999886653     4568999999987  666777777


Q ss_pred             HcCCCcccccc--cEEEEe---------cCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHH
Q 047388          183 RFGMDPGAVLD--NIIYAR---------AYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKL  251 (352)
Q Consensus       183 ~~~~~~~~~~~--~i~~~~---------~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l  251 (352)
                      .++.+......  +.....         .........++..+...+.+++++++|||+++.++....    + .   ...
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~i~~~~~~~viiD~~~~l~~~~~----~-~---~~~  147 (242)
T d1tf7a1          76 SFGWDLAKLVDEGKLFILDASPDPEGQEVVGGFDLSALIERINYAIQKYRARRVSIDSVTSVFQQYD----A-S---SVV  147 (242)
T ss_dssp             GGTCCHHHHHHTTSEEEEECCCCSSCCSCCSSHHHHHHHHHHHHHHHHHTCSEEEEECSTTTSTTTC----C-H---HHH
T ss_pred             HcCCChHHHHHhcchhhhhhccchhhhhhhccccHHHHHHHHHHHHHhhccchhhhhHHHHHHHhcc----C-h---hHH
Confidence            77766532221  111111         122344555667777788888999999999998865321    1 1   223


Q ss_pred             HHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeec---CCeEEEEEEeCCCCCcc
Q 047388          252 GQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGK---GEQRVCKVFDAPNLPEA  328 (352)
Q Consensus       252 ~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~---~~~R~~~i~Ks~~~~~~  328 (352)
                      .+++..+..++++.++++++++|.....+.         +.+...+.+.++.++.++...   ...|.++|.|+|..|..
T Consensus       148 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~d~i~~~~~~~~~~~~~r~l~v~K~R~~~~~  218 (242)
T d1tf7a1         148 RRELFRLVARLKQIGATTVMTTERIEEYGP---------IARYGVEEFVSDNVVILRNVLEGERRRRTLEILKLRGTSHM  218 (242)
T ss_dssp             HHHHHHHHHHHHHHTCEEEEEEECSSSSSC---------SSTTSCHHHHCSEEEEEEEECSTTCCEEEEEEEEETTSCCC
T ss_pred             HHHHHHHHHHHHhcCCceEEeecccccccc---------cccCcceeeeccEEEEEEEeeeCCeeEEEEEEEEcCCCCCC
Confidence            466777888889999999999998874321         344556788999999998643   24689999999988765


Q ss_pred             cccccceeeeeEEEeCCCcc
Q 047388          329 EAISFSYHIILIKITPGGIA  348 (352)
Q Consensus       329 ~~~~~~~~~~~f~I~~~Gi~  348 (352)
                      ..      +.+|+|+++||+
T Consensus       219 ~~------~~~f~I~~~Gi~  232 (242)
T d1tf7a1         219 KG------EYPFTITDHGIN  232 (242)
T ss_dssp             CS------EEEEEEETTEEE
T ss_pred             Ce------EEEEEEeCCcEE
Confidence            33      257999999987

>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=99.93  E-value=2.8e-25  Score=200.62  Aligned_cols=216  Identities=12%  Similarity=0.108  Sum_probs=139.1

Q ss_pred             hhcccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHH--
Q 047388          102 RKAVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVP--  179 (352)
Q Consensus       102 ~~~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~--  179 (352)
                      .....+|+||++.||+++ ||+.+|++++|+|+||+|||+|+.+++.+++..     .+.+|+|++.|++  ...+..  
T Consensus        12 ~~~~~~i~TG~~~lD~~~-~G~~~G~l~vi~G~~G~GKT~~~~~la~~~a~~-----~g~~v~~~s~E~~--~~~~~~r~   83 (277)
T d1cr2a_          12 EESVGLLFSGCTGINDKT-LGARGGEVIMVTSGSGMGKSTFVRQQALQWGTA-----MGKKVGLAMLEES--VEETAEDL   83 (277)
T ss_dssp             CCCSCBCCCSCTTHHHHH-CSBCTTCEEEEECSTTSSHHHHHHHHHHHHHHT-----SCCCEEEEESSSC--HHHHHHHH
T ss_pred             CCCccccCCCchhHHHHh-cCCCCCeEEEEEeCCCCCHHHHHHHHHHhhhhh-----cccceeEeeeccc--hhhHHhHH
Confidence            345678999999999999 899999999999999999999999999986542     5789999999987  433322  


Q ss_pred             HHHHcCCCcc----------------cc------cccEEEEecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcc
Q 047388          180 IAERFGMDPG----------------AV------LDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVD  237 (352)
Q Consensus       180 ~~~~~~~~~~----------------~~------~~~i~~~~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~  237 (352)
                      ++...+....                .+      ..++.+...........++..+......+++++||||+++.+....
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vvID~l~~l~~~~  163 (277)
T d1cr2a_          84 IGLHNRVRLRQSDSLKREIIENGKFDQWFDELFGNDTFHLYDSFAEAETDRLLAKLAYMRSGLGCDVIILDHISIVVSAS  163 (277)
T ss_dssp             HHHHTTCCGGGCHHHHHHHHHTSHHHHHHHHHHSSSCEEEECCC-CCCHHHHHHHHHHHHHTTCCSEEEEEEEEC-----
T ss_pred             HHHhhcCCchhhcccccchhhhHHHHHHHHHhhccceeeeeccccchhHHHHHHHhhhhhhccCcceEEEcccccccccc
Confidence            2222222210                00      1233444322222233344445555666799999999998775432


Q ss_pred             cCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCc-ccCC---CCCCCcchhhhhccceEEEEEeecC-
Q 047388          238 FTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGV-FISD---PKKPAGGHVLAHAVTIRLMFRKGKG-  312 (352)
Q Consensus       238 ~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~-~~~~---~~~~~gg~~~~~~~~~~i~L~~~~~-  312 (352)
                      .    . ......+.+++..|+.+|++++|+||+++|+++...+.. ..+.   .....|+..|.+.+|.++.|.+.+. 
T Consensus       164 ~----~-~~~~~~~~~~~~~l~~lA~~~~i~vi~~~q~~r~~~~~~~~~~~~~~~~~~~gS~~i~~~ad~vl~l~r~~~~  238 (277)
T d1cr2a_         164 G----E-SDERKMIDNLMTKLKGFAKSTGVVLVVICHLKNPDKGKAHEEGRPVSITDLRGSGALRQLSDTIIALERNQQG  238 (277)
T ss_dssp             ----------CHHHHHHHHHHHHHHHHHCCEEEEEEECC---------------------CHHHHHHCSEEEEEECC---
T ss_pred             c----c-cchhHHHHHHHHHHHHHhhhccccceeecccccccccccccccccchhhhcccccchhhhCcEEEEEEecCcc
Confidence            1    1 112234678999999999999999999999997532210 0011   1235888999999999999987532 


Q ss_pred             ---CeEEEEEEeCCC-CCcccc
Q 047388          313 ---EQRVCKVFDAPN-LPEAEA  330 (352)
Q Consensus       313 ---~~R~~~i~Ks~~-~~~~~~  330 (352)
                         +.+.+.+.|+|. ++.+..
T Consensus       239 ~~~~~~~l~v~KnR~~G~~G~~  260 (277)
T d1cr2a_         239 DMPNLVLVRILKCRFTGDTGIA  260 (277)
T ss_dssp             ---CEEEEEEEEETTTCCCEEE
T ss_pred             CCCCeEEEEEEccCCCCCCCCE
Confidence               357899999996 455543

>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=99.86  E-value=1.1e-21  Score=176.40  Aligned_cols=224  Identities=16%  Similarity=0.159  Sum_probs=140.2

Q ss_pred             ccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCC----CCCeEEEEeCCCCCChhhHHHHHH
Q 047388          107 KITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRG----GNGKVAYIDTEGTFRPDRIVPIAE  182 (352)
Q Consensus       107 ~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg----~~~~vl~i~~e~~~~~~rl~~~~~  182 (352)
                      .+..+.+.+|++++ |+.+|++++|+|+||+|||+|++++|.+++....+.+    .+++|+|+++|+.  ...+..++.
T Consensus        11 ~~~~~~p~~d~li~-G~~pg~~~~i~G~~G~GKS~l~l~la~~ia~g~~~~~~~~~~~~~vl~~~~E~~--~~~~~~Rl~   87 (274)
T d1nlfa_          11 AFAAAPPPLDYVLP-NMVAGTVGALVSPGGAGKSMLALQLAAQIAGGPDLLEVGELPTGPVIYLPAEDP--PTAIHHRLH   87 (274)
T ss_dssp             HHHSCCCCCCEEET-TEETTSEEEEEESTTSSHHHHHHHHHHHHHTCCCTTCCCCCCCCCEEEEESSSC--HHHHHHHHH
T ss_pred             HhcCCCCCHHHHhC-CccCCcEEEEEeCCCCCHHHHHHHHHHHHHcCCCcccccccCCCceEEEeccch--HHHHHHHHH
Confidence            35567788999985 5666999999999999999999999998765433221    3568999999986  444555444


Q ss_pred             HcCCCc--c---cccccEEEEecCC---HHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHH
Q 047388          183 RFGMDP--G---AVLDNIIYARAYT---YEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQM  254 (352)
Q Consensus       183 ~~~~~~--~---~~~~~i~~~~~~~---~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i  254 (352)
                      ..+...  .   ....++.+.....   .......+..+...  ..++++||||+++.+.....+   +    ...+..+
T Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~lvviD~l~~~~~~~~~---~----~~~~~~~  158 (274)
T d1nlfa_          88 ALGAHLSAEERQAVADGLLIQPLIGSLPNIMAPEWFDGLKRA--AEGRRLMVLDTLRRFHIEEEN---A----SGPMAQV  158 (274)
T ss_dssp             HHHTTSCHHHHHHHHHHEEECCCTTSCCCTTSHHHHHHHHHH--HTTCSEEEEECGGGGCCSCTT---C----HHHHHHH
T ss_pred             HHhhccChhhhhcccccceeccccCccchhHHHHHHHHHHHh--ccCccEEecCchhhhcccccc---c----hhhHHHH
Confidence            433221  1   1122333322211   11111122222222  247899999999988643211   1    1235688


Q ss_pred             HHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEeec--------------CCeEEEEEE
Q 047388          255 LSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKGK--------------GEQRVCKVF  320 (352)
Q Consensus       255 ~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~~--------------~~~R~~~i~  320 (352)
                      ++.|+.+|++++++||+++|+++...............|+..|.+.++.++.|.+..              +..+.+++.
T Consensus       159 ~~~l~~la~~~~~~vi~v~H~~K~~~~~~~~~~~~~~~Gssai~~~a~~v~~l~r~~~~~~~~~~~~~~~~~~~~~~~v~  238 (274)
T d1nlfa_         159 IGRMEAIAADTGCSIVFLHHASKGAAMMGAGDQQQASRGSSVLVDNIRWQSYLSSMTSAEAEEWGVDDDQRRFFVRFGVS  238 (274)
T ss_dssp             HHHHHHHHHHHCCEEEEEEEC--------------------CTGGGCSCEEEEEECCHHHHHHTTCCTTSGGGEEEEEEE
T ss_pred             HHHHHHHhhcCCCceehhhhccccccccCCcccccccccHHHHHhhccEEEEEEecchhhhhhccCcccccCcEEEEEEE
Confidence            999999999999999999999874211100001124678899999999999999842              124778999


Q ss_pred             eCCCCCcccccccceeeeeEEEeCCCccC
Q 047388          321 DAPNLPEAEAISFSYHIILIKITPGGIAD  349 (352)
Q Consensus       321 Ks~~~~~~~~~~~~~~~~~f~I~~~Gi~~  349 (352)
                      |++..|++...       .|+..++|+..
T Consensus       239 K~~~~~~~~~~-------~~~~~~~g~~~  260 (274)
T d1nlfa_         239 KANYGAPFADR-------WFRRHDGGVLK  260 (274)
T ss_dssp             ECSSSSCCCCE-------EEEECGGGCEE
T ss_pred             eeCCCCCCceE-------EEEEeCCcCCc
Confidence            99999887654       48888888754

>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=99.14  E-value=7.3e-11  Score=101.56  Aligned_cols=152  Identities=13%  Similarity=0.155  Sum_probs=81.7

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCC--hhh--HHHHHHHcCCCc-ccccccEE
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFR--PDR--IVPIAERFGMDP-GAVLDNII  196 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~--~~r--l~~~~~~~~~~~-~~~~~~i~  196 (352)
                      -+++|+++.|.||+|||||||+..++  .+.+     ...+.++++.+....  +.+  +..+.+...+.+ ..+.+|+.
T Consensus        22 ~i~~Gei~~liGpsGsGKSTLl~~i~--Gl~~-----p~sG~I~i~g~~i~~~~~~~r~ig~v~Q~~~l~~~~tv~eni~   94 (232)
T d2awna2          22 DIHEGEFVVFVGPSGCGKSTLLRMIA--GLET-----ITSGDLFIGEKRMNDTPPAERGVGMVFQSYALYPHLSVAENMS   94 (232)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHH--TSSC-----CSEEEEEESSSCCTTSCGGGTCEEEECSSCCC-----------
T ss_pred             EEcCCCEEEEECCCCChHHHHHHHHh--cCCC-----CCCCEEEECCEECCCCchhhceeeeeccccccccchhHHHHHH
Confidence            47899999999999999999998553  3333     234556676654311  111  111111122221 24556655


Q ss_pred             EEecCC---HHH----HHHHHHHH--H-------HHh-------------hcCCceEEEEcccccchhcccCCCcchHHH
Q 047388          197 YARAYT---YEH----QYNLLLGL--A-------AKM-------------SEEPFRLLIVDSVIALFRVDFTGRGELADR  247 (352)
Q Consensus       197 ~~~~~~---~~~----~~~~l~~l--~-------~~l-------------~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r  247 (352)
                      +.....   ..+    ..++++.+  .       ..+             --.+|+++++|+.++-+.+        ..+
T Consensus        95 ~~~~~~~~~~~~~~~~v~~~l~~~~l~~~~~~~~~~LSGGqkQRvaiAraL~~~P~illlDEPts~LD~--------~~~  166 (232)
T d2awna2          95 FGLKLAGAKKEVINQRVNQVAEVLQLAHLLDRKPKALSGGQRQRVAIGRTLVAEPSVFLLDEPLSNLDA--------ALR  166 (232)
T ss_dssp             ----------CHHHHHHHHHHHHC---------------------CHHHHHHTCCSEEEEESTTTTSCH--------HHH
T ss_pred             HHHHHcCCCHHHHHHHHHHHHHhCCChhhhhCChhhCCHHHHHHHHHHHHHhcCCCEEEEcCCCCCCCH--------HHH
Confidence            432211   111    11111110  0       000             0137999999998876532        222


Q ss_pred             HHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEee
Q 047388          248 QQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKG  310 (352)
Q Consensus       248 ~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~  310 (352)
                          .++.+.|+++.++.|+|||+++|-..                  .....+|.++.|+.+
T Consensus       167 ----~~i~~~l~~l~~~~g~tii~vTHd~~------------------~a~~~~dri~vm~~G  207 (232)
T d2awna2         167 ----VQMRIEISRLHKRLGRTMIYVTHDQV------------------EAMTLADKIVVLDAG  207 (232)
T ss_dssp             ----HHHHHHHHHHHHHSCCEEEEEESCHH------------------HHHHHCSEEEEEETT
T ss_pred             ----HHHHHHHHHHHHhcCCEEEEEeCCHH------------------HHHHhCCEEEEEECC
Confidence                37888899999999999999999654                  135567888888653

>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=99.13  E-value=2.8e-10  Score=97.80  Aligned_cols=150  Identities=18%  Similarity=0.241  Sum_probs=88.5

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC--CCChhhHHHHH-HHcCCCc--------cc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG--TFRPDRIVPIA-ERFGMDP--------GA  190 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~--~~~~~rl~~~~-~~~~~~~--------~~  190 (352)
                      -+++|+++.|.||||||||||+..+  +...++     ..+.++|+...  .+++..+.... +.+|+-+        ..
T Consensus        27 ~i~~Ge~~~iiG~sGsGKSTLl~~i--~gl~~p-----~sG~I~~~g~~i~~~~~~~~~~~r~~~ig~v~Q~~~l~~~~t   99 (230)
T d1l2ta_          27 NIKEGEFVSIMGPSGSGKSTMLNII--GCLDKP-----TEGEVYIDNIKTNDLDDDELTKIRRDKIGFVFQQFNLIPLLT   99 (230)
T ss_dssp             EECTTCEEEEECSTTSSHHHHHHHH--TTSSCC-----SEEEEEETTEECTTCCHHHHHHHHHHHEEEECTTCCCCTTSC
T ss_pred             EEcCCCEEEEECCCCCCcchhhHhc--cCCCCC-----CcceeEECCEEcCcCChhhcchhhcceEEEEecchhhCcCcc
Confidence            5889999999999999999998843  334432     34456776653  23344343332 3344322        13


Q ss_pred             ccccEEEE------ecCCHHHHH----HHHHH------------------------HHHHhhcCCceEEEEcccccchhc
Q 047388          191 VLDNIIYA------RAYTYEHQY----NLLLG------------------------LAAKMSEEPFRLLIVDSVIALFRV  236 (352)
Q Consensus       191 ~~~~i~~~------~~~~~~~~~----~~l~~------------------------l~~~l~~~~~~lvvIDsl~~l~~~  236 (352)
                      +.+|+.+.      ...+..+..    +.+..                        +.+.+ -.+|++++.|+.++-+.+
T Consensus       100 v~eni~~~~~~~~~~~~~~~~~~~~~~~~l~~~~L~~~~~~~~p~~LSGGqkQRvaIAraL-~~~P~lLllDEPTs~LD~  178 (230)
T d1l2ta_         100 ALENVELPLIFKYRGAMSGEERRKRALECLKMAELEERFANHKPNQLSGGQQQRVAIARAL-ANNPPIILADQPTGALDS  178 (230)
T ss_dssp             HHHHHHHHHHTCCSSCCCHHHHHHHHHHHHHHTTCCGGGTTCCGGGSCHHHHHHHHHHHHH-TTCCSEEEEESTTTTSCH
T ss_pred             HHHHHhHHHHHhccCCCCHHHHHHHHHHHHHhhchhhhhhcCChhhCCHHHHHHHHHHhhh-hcCCCEEEecCCccccCH
Confidence            34443221      011112111    11111                        00111 147999999998876532


Q ss_pred             ccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEee
Q 047388          237 DFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKG  310 (352)
Q Consensus       237 ~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~  310 (352)
                              ..+    .++++.|+++++++|+|||+++|-..                   .+..+|.++.|..+
T Consensus       179 --------~~~----~~i~~~l~~l~~~~g~tii~vTHd~~-------------------~a~~~drv~~m~~G  221 (230)
T d1l2ta_         179 --------KTG----EKIMQLLKKLNEEDGKTVVVVTHDIN-------------------VARFGERIIYLKDG  221 (230)
T ss_dssp             --------HHH----HHHHHHHHHHHHTTCCEEEEECSCHH-------------------HHTTSSEEEEEETT
T ss_pred             --------HHH----HHHHHHHHHHHHhhCCEEEEECCCHH-------------------HHHhCCEEEEEECC
Confidence                    222    38889999999999999999999432                   13467888888653

>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=99.10  E-value=2.5e-10  Score=98.67  Aligned_cols=151  Identities=15%  Similarity=0.219  Sum_probs=92.3

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC--CChhhHHHHHHHcCCCcc--------cc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT--FRPDRIVPIAERFGMDPG--------AV  191 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~--~~~~rl~~~~~~~~~~~~--------~~  191 (352)
                      -+++|+++.|.||||||||||+..+  +.+.++     ..+.++++.++-  .+...+....+++|+-++        .+
T Consensus        27 ~i~~Ge~~~iiG~sGsGKSTLl~~i--~Gl~~p-----~sG~I~~~g~~i~~~~~~~~~~~rr~ig~VfQ~~~l~~~~tv   99 (240)
T d3dhwc1          27 HVPAGQIYGVIGASGAGKSTLIRCV--NLLERP-----TEGSVLVDGQELTTLSESELTKARRQIGMIFQHFNLLSSRTV   99 (240)
T ss_dssp             EECSSCEEEEEESTTSSHHHHHHHH--TTSSCC-----SEEEEEETTEEECTTCHHHHHHHHHHEEECCSSCCCCTTSBH
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHH--cCCccc-----cCCceEEcCeEeeeCChhhhhhhhccccccccccccCCCccH
Confidence            5789999999999999999999855  344442     344566666542  234444444455655432        33


Q ss_pred             cccEEEEe---cCCHHH----HHHHHHHH-----------------------HHHhhcCCceEEEEcccccchhcccCCC
Q 047388          192 LDNIIYAR---AYTYEH----QYNLLLGL-----------------------AAKMSEEPFRLLIVDSVIALFRVDFTGR  241 (352)
Q Consensus       192 ~~~i~~~~---~~~~~~----~~~~l~~l-----------------------~~~l~~~~~~lvvIDsl~~l~~~~~~~~  241 (352)
                      .+|+.+..   ..+..+    ..++++.+                       .+.+ -.+|++++.|+.++-+.+     
T Consensus       100 ~eni~~~l~~~~~~~~~~~~~v~~~L~~vgL~~~~~~~~~~LSGG~~QRvaiAraL-~~~P~lLllDEPt~~LD~-----  173 (240)
T d3dhwc1         100 FGNVALPLELDNTPKDEVKRRVTELLSLVGLGDKHDSYPSNLSGGQKQRVAIARAL-ASNPKVLLCDEATSALDP-----  173 (240)
T ss_dssp             HHHHHHHHHTTTCCTTHHHHHHHHHHHHHSTTTTTSSCBSCCCHHHHHHHHHHHHH-HTCCSEEEEESGGGSSCH-----
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHHcCCchhhhCChhhCCHHHHHHHHHhhhh-ccCCCeEEeccccccCCH-----
Confidence            34432210   011111    11122111                       0111 147999999998877532     


Q ss_pred             cchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEee
Q 047388          242 GELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKG  310 (352)
Q Consensus       242 g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~  310 (352)
                         ..+    .++++.|+++.+++|+|||+++|-..                  ....++|.++.|..+
T Consensus       174 ---~~~----~~i~~~l~~l~~~~g~tvi~vTHdl~------------------~~~~~~dri~vl~~G  217 (240)
T d3dhwc1         174 ---ATT----RSILELLKDINRRLGLTILLITHEMD------------------VVKRICDCVAVISNG  217 (240)
T ss_dssp             ---HHH----HHHHHHHHHHHHHHCCEEEEEBSCHH------------------HHHHHCSEEEEEETT
T ss_pred             ---HHh----hHHHHHHHHHHhccCCEEEEEcCCHH------------------HHHHhCCEEEEEECC
Confidence               222    37888999999999999999999654                  135677888888753

>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=99.08  E-value=7.2e-11  Score=102.00  Aligned_cols=147  Identities=14%  Similarity=0.152  Sum_probs=86.7

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCC--ChhhHHHHHHHcCCCcc--------cc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTF--RPDRIVPIAERFGMDPG--------AV  191 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~--~~~rl~~~~~~~~~~~~--------~~  191 (352)
                      -+++|+++.|.||||||||||+..++  .+.++     ..+.++|+.....  ++.+     +..|+-++        .+
T Consensus        28 ~v~~Ge~~~liGpsGaGKSTLl~~i~--Gl~~p-----~sG~I~i~g~~i~~~~~~~-----r~ig~v~Q~~~l~~~ltv   95 (239)
T d1v43a3          28 TIKDGEFLVLLGPSGCGKTTTLRMIA--GLEEP-----TEGRIYFGDRDVTYLPPKD-----RNISMVFQSYAVWPHMTV   95 (239)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHH--TSSCC-----SEEEEEETTEECTTSCGGG-----GTEEEEEC------CCCH
T ss_pred             EECCCCEEEEECCCCChHHHHHHHHH--cCCCC-----CCCEEEEcceecccCCccc-----ceEEEEeechhhcccchH
Confidence            57899999999999999999999543  34432     3345666654321  1211     12332221        23


Q ss_pred             cccEEEE---ecCCHHHHHHHHHHHHHHh--------------------------hcCCceEEEEcccccchhcccCCCc
Q 047388          192 LDNIIYA---RAYTYEHQYNLLLGLAAKM--------------------------SEEPFRLLIVDSVIALFRVDFTGRG  242 (352)
Q Consensus       192 ~~~i~~~---~~~~~~~~~~~l~~l~~~l--------------------------~~~~~~lvvIDsl~~l~~~~~~~~g  242 (352)
                      .+|+.+.   +..+..+..+...++.+.+                          --.+|+++++|+.++.+.+      
T Consensus        96 ~enl~~~~~~~~~~~~~~~~~~~~~l~~~~l~~~~~~~~~~LSGGq~QRvaiAraL~~~P~iLllDEPts~LD~------  169 (239)
T d1v43a3          96 YENIAFPLKIKKFPKDEIDKRVRWAAELLQIEELLNRYPAQLSGGQRQRVAVARAIVVEPDVLLMDEPLSNLDA------  169 (239)
T ss_dssp             HHHHHTTCC--CCCHHHHHHHHHHHHHHTTCGGGTTSCTTTCCSSCHHHHHHHHHHTTCCSEEEEESTTTTSCH------
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHHcCChhhhcCChhhCCHHHHHHHHHHhhhccCCCceeecCCcccCCH------
Confidence            3333221   1122222222111111100                          0147999999998877532      


Q ss_pred             chHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEee
Q 047388          243 ELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRKG  310 (352)
Q Consensus       243 ~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~~  310 (352)
                        ..+    .++.+.|++++++.|+|||+++|-..                  ....++|.++.|..+
T Consensus       170 --~~~----~~i~~ll~~l~~~~g~tii~vTHd~~------------------~a~~~~dri~vm~~G  213 (239)
T d1v43a3         170 --KLR----VAMRAEIKKLQQKLKVTTIYVTHDQV------------------EAMTMGDRIAVMNRG  213 (239)
T ss_dssp             --HHH----HHHHHHHHHHHHHHTCEEEEEESCHH------------------HHHHHCSEEEEEETT
T ss_pred             --HHH----HHHHHHHHHHHHhcCCeEEEEeCCHH------------------HHHHhCCEEEEEECC
Confidence              222    37888899999999999999999664                  135677888888753

>d1szpa1 a.60.4.1 (A:81-144) DNA repair protein Rad51, N-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: SAM domain-like
superfamily: Rad51 N-terminal domain-like
family: DNA repair protein Rad51, N-terminal domain
domain: DNA repair protein Rad51, N-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.07  E-value=6.6e-11  Score=80.28  Aligned_cols=63  Identities=40%  Similarity=0.670  Sum_probs=59.7

Q ss_pred             cHHHHHhCCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHHHHhhcCC
Q 047388           30 AIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGY   92 (352)
Q Consensus        30 ~~~~l~~~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (352)
                      |++.|+..|+++.++++|.++||.|+++++..++.+|.++.|+++..++++++++++.++.+|
T Consensus         2 pi~~L~~~Gig~~~~~kL~~aG~~Tve~ia~~t~~~L~~i~Gi~e~~a~KIi~~A~k~~~~gf   64 (64)
T d1szpa1           2 PIEKLQVNGITMADVKKLRESGLHTAEAVAYAPRKDLLEIKGISEAKADKLLNEAARLVPMGF   64 (64)
T ss_dssp             CGGGGCCTTCCHHHHHHHHTTSCCSHHHHHHSCSHHHHTSTTCCHHHHHHHHHHHHHHSCCSC
T ss_pred             CHHHHhHCCCCHHHHHHHHHcCCCcHHHHHhCCHHHHHHcCCCCHHHHHHHHHHHHHHcCCCC
Confidence            678888899999999999999999999999999999999999999999999999999987765

>d1b22a_ a.60.4.1 (A:) DNA repair protein Rad51, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: SAM domain-like
superfamily: Rad51 N-terminal domain-like
family: DNA repair protein Rad51, N-terminal domain
domain: DNA repair protein Rad51, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.04  E-value=1.5e-10  Score=79.89  Aligned_cols=67  Identities=45%  Similarity=0.558  Sum_probs=62.4

Q ss_pred             ccchhhhcHHHHHhCCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHHHHhh
Q 047388           23 DEEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVN   89 (352)
Q Consensus        23 ~~~~~~~~~~~l~~~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~   89 (352)
                      |+...|++++.|+.+|+.+.++++|.++||.|+++++.+++.+|.++.|+++..+.++++.+++.++
T Consensus         2 ee~~gp~~i~~L~~~Gig~~~i~kL~~aG~~Tv~~i~~at~~~L~~i~G~~e~~A~KIi~~a~k~~~   68 (70)
T d1b22a_           2 EESFGPQPISRLEQCGINANDVKKLEEAGFHTVEAVAYAPKKELINIKGISEAKADKILAEAAKLVP   68 (70)
T ss_dssp             CSCSSCCCHHHHHHTTCSHHHHHHHHTTCCSSGGGBTSSBHHHHHTTTTCSTTHHHHHHHHHHHHSC
T ss_pred             ccccCCccHHHHhhCCCCHHHHHHHHHcCcchHHHHHhCCHHHHHHcCCCCHHHHHHHHHHHHHHcC
Confidence            4445679999999999999999999999999999999999999999999999999999999998865

>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=99.00  E-value=1.2e-10  Score=100.78  Aligned_cols=61  Identities=11%  Similarity=0.151  Sum_probs=46.5

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhh
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAH  299 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~  299 (352)
                      .+|+++++|+.++.+.+        ..+    ..+.+.|+++.+++|+|||+++|-..                  ...+
T Consensus       156 ~~P~iLllDEPt~~LD~--------~~~----~~i~~~l~~l~~~~g~tvi~vTHd~~------------------~~~~  205 (240)
T d1g2912         156 RKPQVFLMDEPLSNLDA--------KLR----VRMRAELKKLQRQLGVTTIYVTHDQV------------------EAMT  205 (240)
T ss_dssp             TCCSEEEEECTTTTSCH--------HHH----HHHHHHHHHHHHHHTCEEEEEESCHH------------------HHHH
T ss_pred             cCCCEEEecCCCcccCH--------HHH----HHHHHHHHHHHhccCCEEEEEcCCHH------------------HHHH
Confidence            47999999998877532        222    37888899999999999999999664                  1356


Q ss_pred             ccceEEEEEee
Q 047388          300 AVTIRLMFRKG  310 (352)
Q Consensus       300 ~~~~~i~L~~~  310 (352)
                      .+|.++.++.+
T Consensus       206 ~~drv~vm~~G  216 (240)
T d1g2912         206 MGDRIAVMNRG  216 (240)
T ss_dssp             HCSEEEEEETT
T ss_pred             hCCEEEEEECC
Confidence            77888888753

>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=98.97  E-value=9.9e-10  Score=94.09  Aligned_cols=147  Identities=10%  Similarity=0.090  Sum_probs=84.9

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcc--------cccc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPG--------AVLD  193 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~--------~~~~  193 (352)
                      -+++|+++.|.||+|||||||+..++  .+.++     ..+-++|+.+.-.....   ..+.+|+-++        ++.+
T Consensus        22 ~i~~Ge~~~liGpsGaGKSTll~~l~--Gl~~p-----~sG~I~~~G~~i~~~~~---~~r~ig~v~Q~~~l~~~~tV~e   91 (229)
T d3d31a2          22 KVESGEYFVILGPTGAGKTLFLELIA--GFHVP-----DSGRILLDGKDVTDLSP---EKHDIAFVYQNYSLFPHMNVKK   91 (229)
T ss_dssp             EECTTCEEEEECCCTHHHHHHHHHHH--TSSCC-----SEEEEEETTEECTTSCH---HHHTCEEECTTCCCCTTSCHHH
T ss_pred             EECCCCEEEEECCCCCcHHHHHHHHh--cCcCC-----CCCEEEEccEeccccch---hHhcceeeccccccCccccHHH
Confidence            58899999999999999999999554  34332     34455666544211111   1123332221        2333


Q ss_pred             cEEEE----ecCCHHHHHHHHHH-----------------------HHHHhhcCCceEEEEcccccchhcccCCCcchHH
Q 047388          194 NIIYA----RAYTYEHQYNLLLG-----------------------LAAKMSEEPFRLLIVDSVIALFRVDFTGRGELAD  246 (352)
Q Consensus       194 ~i~~~----~~~~~~~~~~~l~~-----------------------l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~  246 (352)
                      |+.+.    .........+.+..                       +.+.+ -.+|+++++|+.++-+.+        ..
T Consensus        92 nl~~~~~~~~~~~~~~~~~~l~~~~l~~~~~~~~~~LSGG~~QRvaiAraL-~~~P~iLllDEPts~LD~--------~~  162 (229)
T d3d31a2          92 NLEFGMRMKKIKDPKRVLDTARDLKIEHLLDRNPLTLSGGEQQRVALARAL-VTNPKILLLDEPLSALDP--------RT  162 (229)
T ss_dssp             HHHHHHHHHCCCCHHHHHHHHHHTTCTTTTTSCGGGSCHHHHHHHHHHHHT-TSCCSEEEEESSSTTSCH--------HH
T ss_pred             HHHHHHhhccccHHHHHHHHHHHhcchhhHhCChhhCCHHHhcchhhhhhh-hccCCceeecCCCcCCCH--------HH
Confidence            33221    01111111111111                       11111 148999999998876432        22


Q ss_pred             HHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEe
Q 047388          247 RQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRK  309 (352)
Q Consensus       247 r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~  309 (352)
                      +    .++.+.|+++.++.|+|||+++|-...                  ....+|.++.|..
T Consensus       163 ~----~~i~~~l~~l~~~~g~tii~vtHd~~~------------------~~~~~drv~vm~~  203 (229)
T d3d31a2         163 Q----ENAREMLSVLHKKNKLTVLHITHDQTE------------------ARIMADRIAVVMD  203 (229)
T ss_dssp             H----HHHHHHHHHHHHHTTCEEEEEESCHHH------------------HHHHCSEEEEESS
T ss_pred             H----HHHHHHHHHHHhcCCcEEEEEcCCHHH------------------HHHhCCEEEEEEC
Confidence            2    378888999999999999999996541                  3456677777754

>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=98.95  E-value=1.7e-09  Score=94.63  Aligned_cols=60  Identities=7%  Similarity=0.137  Sum_probs=42.9

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhh
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAH  299 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~  299 (352)
                      .+|+++++|+.++-+.+        ..+    .++.+.|+++++ .|+|||+++|-...                  +..
T Consensus       167 ~~P~llilDEPt~gLD~--------~~~----~~i~~~i~~l~~-~g~til~vsHdl~~------------------~~~  215 (254)
T d1g6ha_         167 TNPKMIVMDEPIAGVAP--------GLA----HDIFNHVLELKA-KGITFLIIEHRLDI------------------VLN  215 (254)
T ss_dssp             TCCSEEEEESTTTTCCH--------HHH----HHHHHHHHHHHH-TTCEEEEECSCCST------------------TGG
T ss_pred             hCcCchhhcCCcccCCH--------HHH----HHHHHHHHHHHH-CCCEEEEEeCcHHH------------------HHH
Confidence            47999999998876532        233    367777888755 59999999996642                  355


Q ss_pred             ccceEEEEEee
Q 047388          300 AVTIRLMFRKG  310 (352)
Q Consensus       300 ~~~~~i~L~~~  310 (352)
                      .||.++.|..+
T Consensus       216 ~~Drv~vm~~G  226 (254)
T d1g6ha_         216 YIDHLYVMFNG  226 (254)
T ss_dssp             GCSEEEEEETT
T ss_pred             hCCEEEEEeCC
Confidence            77888787753

>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=98.94  E-value=4.2e-11  Score=103.58  Aligned_cols=60  Identities=12%  Similarity=0.106  Sum_probs=45.5

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhh
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAH  299 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~  299 (352)
                      .+|++++.|+.++-..+.        .+    .++.+.|+++.++.|+|||+++|-..                  ....
T Consensus       157 ~~P~llllDEPt~~LD~~--------~~----~~i~~~i~~l~~~~g~tvi~vTHd~~------------------~~~~  206 (242)
T d1oxxk2         157 KDPSLLLLDEPFSNLDAR--------MR----DSARALVKEVQSRLGVTLLVVSHDPA------------------DIFA  206 (242)
T ss_dssp             TCCSEEEEESTTTTSCGG--------GH----HHHHHHHHHHHHHHCCEEEEEESCHH------------------HHHH
T ss_pred             hcccceeecCCccCCCHH--------HH----HHHHHHHHHHHhccCCEEEEEECCHH------------------HHHH
Confidence            379999999988775431        12    37888899999999999999999654                  1355


Q ss_pred             ccceEEEEEe
Q 047388          300 AVTIRLMFRK  309 (352)
Q Consensus       300 ~~~~~i~L~~  309 (352)
                      ++|.++.+..
T Consensus       207 ~~dri~vm~~  216 (242)
T d1oxxk2         207 IADRVGVLVK  216 (242)
T ss_dssp             HCSEEEEEET
T ss_pred             hCCEEEEEEC
Confidence            6787777765

>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=98.91  E-value=2.1e-09  Score=93.04  Aligned_cols=132  Identities=17%  Similarity=0.199  Sum_probs=74.8

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCc-------cccccc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDP-------GAVLDN  194 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~-------~~~~~~  194 (352)
                      -+++|+++.|+|++|||||||+..++  ...+     ...+.++|+..+- .......+.+++++-+       .++.+|
T Consensus        25 ~i~~Ge~vaIvG~sGsGKSTLl~ll~--gl~~-----p~~G~I~i~g~~i-~~~~~~~lr~~i~~v~Q~~~lf~~Ti~eN   96 (241)
T d2pmka1          25 SIKQGEVIGIVGRSGSGKSTLTKLIQ--RFYI-----PENGQVLIDGHDL-ALADPNWLRRQVGVVLQDNVLLNRSIIDN   96 (241)
T ss_dssp             EEETTCEEEEECSTTSSHHHHHHHHT--TSSC-----CSEEEEEETTEET-TTSCHHHHHHHEEEECSSCCCTTSBHHHH
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHH--hcCC-----CCCCEEEECCEEe-cccchhhhhceEEEEecccccCCcccccc
Confidence            57899999999999999999999554  3333     2345566765432 1112233344444322       234455


Q ss_pred             EEEEec-CCHHHHHHHHHH----------------------------------HHHHhhcCCceEEEEcccccchhcccC
Q 047388          195 IIYARA-YTYEHQYNLLLG----------------------------------LAAKMSEEPFRLLIVDSVIALFRVDFT  239 (352)
Q Consensus       195 i~~~~~-~~~~~~~~~l~~----------------------------------l~~~l~~~~~~lvvIDsl~~l~~~~~~  239 (352)
                      +.+... .+.+........                                  +.+.+ -.+++++|+|+.++.+..   
T Consensus        97 i~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~t~i~~~g~~LSGGq~QRvalARal-~~~p~ililDEpts~LD~---  172 (241)
T d2pmka1          97 ISLANPGMSVEKVIYAAKLAGAHDFISELREGYNTIVGEQGAGLSGGQRQRIAIARAL-VNNPKILIFDEATSALDY---  172 (241)
T ss_dssp             HCTTSTTCCHHHHHHHHHHHTCHHHHTTSTTGGGSBCSTTTTCCCHHHHHHHHHHHHH-TTCCSEEEECCCCSCCCH---
T ss_pred             ccccCccccHHHHHHHHHHHhhHHHHHhhhcchhhhcCCCCCccCHHHHHHHhhhhhh-hcccchhhhhCCccccCH---
Confidence            544322 112211111110                                  11111 137899999998876532   


Q ss_pred             CCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          240 GRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       240 ~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                          ..+     ..++..|+++.+  +.|||+++|-.
T Consensus       173 ----~~~-----~~i~~~l~~l~~--~~Tvi~itH~l  198 (241)
T d2pmka1         173 ----ESE-----HVIMRNMHKICK--GRTVIIIAHRL  198 (241)
T ss_dssp             ----HHH-----HHHHHHHHHHHT--TSEEEEECSSG
T ss_pred             ----HHH-----HHHHHHHHHHhC--CCEEEEEECCH
Confidence                122     266777777764  78999999854

>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=98.90  E-value=9.4e-10  Score=96.01  Aligned_cols=147  Identities=18%  Similarity=0.186  Sum_probs=85.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCc-------cccccc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDP-------GAVLDN  194 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~-------~~~~~~  194 (352)
                      -+++|+++.|+||+|||||||+..++  ...+     ...+.++|+...- .......+.+.+++-+       ..+.+|
T Consensus        36 ~i~~Ge~vaivG~sGsGKSTLl~li~--gl~~-----p~~G~I~i~g~~i-~~~~~~~~r~~i~~v~Q~~~lf~~tv~en  107 (251)
T d1jj7a_          36 TLRPGEVTALVGPNGSGKSTVAALLQ--NLYQ-----PTGGQLLLDGKPL-PQYEHRYLHRQVAAVGQEPQVFGRSLQEN  107 (251)
T ss_dssp             EECTTCEEEEECSTTSSHHHHHHHHT--TSSC-----CSEEEEEETTEEG-GGBCHHHHHHHEEEECSSCCCCSSBHHHH
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHh--cccC-----CCcCEEEECCEec-chhhhHHHHHHhhhccccccccCcchhhh
Confidence            58999999999999999999999543  3332     2345566666532 1112333444443322       123344


Q ss_pred             EEEEec--CCHHHH-----------------------------------HHHHHHHHHHhhcCCceEEEEcccccchhcc
Q 047388          195 IIYARA--YTYEHQ-----------------------------------YNLLLGLAAKMSEEPFRLLIVDSVIALFRVD  237 (352)
Q Consensus       195 i~~~~~--~~~~~~-----------------------------------~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~  237 (352)
                      +.+...  ......                                   .+.+. +.+.+ -.+++++++|+.++.+.. 
T Consensus       108 i~~g~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~~~i~~~~~~LSGGqkQRva-iARal-~~~p~ililDEpTs~LD~-  184 (251)
T d1jj7a_         108 IAYGLTQKPTMEEITAAAVKSGAHSFISGLPQGYDTEVDEAGSQLSGGQRQAVA-LARAL-IRKPCVLILDDATSALDA-  184 (251)
T ss_dssp             HHCSCSSCCCHHHHHHHHHHHTCHHHHHTSTTGGGCBCCSSCSSSCHHHHHHHH-HHHHH-TTCCSEEEEESTTTTCCH-
T ss_pred             hhhhhcccchHHHHHHHHHHHHHHHHHHhccccchhhHhccCccCChhHceEEE-Eeecc-ccCCcEEEecCcCcccCh-
Confidence            433211  111111                                   11111 11111 137899999998877532 


Q ss_pred             cCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEe
Q 047388          238 FTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRK  309 (352)
Q Consensus       238 ~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~  309 (352)
                            ..+     .++...|+++.++++.|||+++|-..                  .+. .+|.++.|..
T Consensus       185 ------~~~-----~~i~~~l~~l~~~~~~Tvi~itH~l~------------------~~~-~aDrI~vl~~  226 (251)
T d1jj7a_         185 ------NSQ-----LQVEQLLYESPERYSRSVLLITQHLS------------------LVE-QADHILFLEG  226 (251)
T ss_dssp             ------HHH-----HHHHHHHHTCGGGGGCEEEEECSCHH------------------HHH-TCSEEEEEET
T ss_pred             ------hhH-----HHHHHHHHHHhhhcCCEEEEEeCCHH------------------HHH-hCCEEEEEEC
Confidence                  111     36778888888889999999999543                  123 4788888875

>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=98.89  E-value=3.8e-09  Score=91.47  Aligned_cols=60  Identities=13%  Similarity=0.182  Sum_probs=44.1

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhh
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAH  299 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~  299 (352)
                      .+|+++++|+.++-+.+        ..+    .++.+.|++++++ |+|||+++|-...                  ...
T Consensus       156 ~~P~lLllDEPt~gLD~--------~~~----~~i~~~i~~l~~~-g~til~~tH~l~~------------------~~~  204 (240)
T d1ji0a_         156 SRPKLLMMDEPSLGLAP--------ILV----SEVFEVIQKINQE-GTTILLVEQNALG------------------ALK  204 (240)
T ss_dssp             TCCSEEEEECTTTTCCH--------HHH----HHHHHHHHHHHHT-TCCEEEEESCHHH------------------HHH
T ss_pred             hCCCEeeecCCCcCCCH--------HHH----HHHHHHHHHHHhC-CCEEEEEeCCHHH------------------HHH
Confidence            47999999999877532        222    3788888888776 9999999996541                  356


Q ss_pred             ccceEEEEEee
Q 047388          300 AVTIRLMFRKG  310 (352)
Q Consensus       300 ~~~~~i~L~~~  310 (352)
                      .+|.++.|..+
T Consensus       205 ~~drv~vl~~G  215 (240)
T d1ji0a_         205 VAHYGYVLETG  215 (240)
T ss_dssp             HCSEEEEEETT
T ss_pred             hCCEEEEEECC
Confidence            77888888753

>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=98.88  E-value=6.9e-10  Score=95.61  Aligned_cols=61  Identities=18%  Similarity=0.298  Sum_probs=45.7

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhh
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAH  299 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~  299 (352)
                      .+|+++++|+.++-..+        ..+    ..+...|+++++++++|||+++|-..                  ....
T Consensus       143 ~~P~illlDEPts~LD~--------~~~----~~i~~~i~~l~~~~g~tvi~vtHd~~------------------~~~~  192 (240)
T d2onka1         143 IQPRLLLLDEPLSAVDL--------KTK----GVLMEELRFVQREFDVPILHVTHDLI------------------EAAM  192 (240)
T ss_dssp             TCCSSBEEESTTSSCCH--------HHH----HHHHHHHHHHHHHHTCCEEEEESCHH------------------HHHH
T ss_pred             ccCCceEecCccccCCH--------HHH----HHHHHHHHHHHHhcCCeEEEEeCCHH------------------HHHH
Confidence            37999999988776432        222    37888899999999999999999654                  1356


Q ss_pred             ccceEEEEEee
Q 047388          300 AVTIRLMFRKG  310 (352)
Q Consensus       300 ~~~~~i~L~~~  310 (352)
                      .+|.+++|..+
T Consensus       193 ~adri~vm~~G  203 (240)
T d2onka1         193 LADEVAVMLNG  203 (240)
T ss_dssp             HCSEEEEEETT
T ss_pred             hCCEEEEEECC
Confidence            77888888753

>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=98.86  E-value=6.6e-09  Score=89.75  Aligned_cols=148  Identities=11%  Similarity=0.135  Sum_probs=81.7

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcc--------cccc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPG--------AVLD  193 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~--------~~~~  193 (352)
                      -+++|+++.|.||+|+|||||+..++.  ..++     ..+-++++.++....  -..+.+.+++-|+        .+.+
T Consensus        24 ~v~~Gei~glvG~nGaGKSTLl~~l~G--~~~p-----~~G~i~i~G~~i~~~--~~~~~~~i~~vpq~~~~~~~ltv~e   94 (238)
T d1vpla_          24 EIEEGEIFGLIGPNGAGKTTTLRIIST--LIKP-----SSGIVTVFGKNVVEE--PHEVRKLISYLPEEAGAYRNMQGIE   94 (238)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHTT--SSCC-----SEEEEEETTEETTTC--HHHHHTTEEEECTTCCCCTTSBHHH
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhc--CCCC-----CCCEEEECcEecccC--hHHHHhhEeEeeeccccCCCccHHH
Confidence            578999999999999999999995543  3332     334455555443221  1122223333222        1122


Q ss_pred             cEEEE---ecCCHHHHHHHHHHHHHH--------------------------hhcCCceEEEEcccccchhcccCCCcch
Q 047388          194 NIIYA---RAYTYEHQYNLLLGLAAK--------------------------MSEEPFRLLIVDSVIALFRVDFTGRGEL  244 (352)
Q Consensus       194 ~i~~~---~~~~~~~~~~~l~~l~~~--------------------------l~~~~~~lvvIDsl~~l~~~~~~~~g~~  244 (352)
                      |+.+.   ...+..+..+.+..+...                          .--.+|+++++|+.++-+.        .
T Consensus        95 ~l~~~~~~~~~~~~~~~~~~~~~l~~~~l~~~~~~~~~~lSgG~~qrv~iA~al~~~p~illLDEPt~gLD--------~  166 (238)
T d1vpla_          95 YLRFVAGFYASSSSEIEEMVERATEIAGLGEKIKDRVSTYSKGMVRKLLIARALMVNPRLAILDEPTSGLD--------V  166 (238)
T ss_dssp             HHHHHHHHHCCCHHHHHHHHHHHHHHHCCGGGGGSBGGGCCHHHHHHHHHHHHHTTCCSEEEEESTTTTCC--------H
T ss_pred             HHHHHHHhcCCCHHHHHHHHHHHHHhCCCHHHHhhhhhhCCHHHHHHHHHHHHHhcCCCEEEecCCCCCCC--------H
Confidence            22111   011111111111111100                          0024799999999887643        1


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhhccceEEEEEe
Q 047388          245 ADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAHAVTIRLMFRK  309 (352)
Q Consensus       245 ~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~L~~  309 (352)
                      ..+    .++...|++++++ |.|||+++|-...                  ....||.+++|..
T Consensus       167 ~~~----~~i~~~i~~~~~~-g~tii~~tH~l~~------------------~~~~~drv~vl~~  208 (238)
T d1vpla_         167 LNA----REVRKILKQASQE-GLTILVSSHNMLE------------------VEFLCDRIALIHN  208 (238)
T ss_dssp             HHH----HHHHHHHHHHHHT-TCEEEEEECCHHH------------------HTTTCSEEEEEET
T ss_pred             HHH----HHHHHHHHHHHhc-CCEEEEEeCCHHH------------------HHHhCCEEEEEEC
Confidence            222    2667777777665 9999999997752                  3446777777764

>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=98.85  E-value=7.4e-09  Score=90.50  Aligned_cols=60  Identities=13%  Similarity=0.252  Sum_probs=43.5

Q ss_pred             CCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccCCCCCcccCCCCCCCcchhhhh
Q 047388          220 EPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIADPGGGVFISDPKKPAGGHVLAH  299 (352)
Q Consensus       220 ~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~~~~~~~~~~~~~~~gg~~~~~  299 (352)
                      .+|++++.|+.++-+..        ..+    .++.+.|++++++ |+|||+++|-..                  ....
T Consensus       166 ~~P~llilDEPT~gLD~--------~~~----~~i~~ll~~l~~~-g~til~vtHdl~------------------~~~~  214 (258)
T d1b0ua_         166 MEPDVLLFDEPTSALDP--------ELV----GEVLRIMQQLAEE-GKTMVVVTHEMG------------------FARH  214 (258)
T ss_dssp             TCCSEEEEESTTTTSCH--------HHH----HHHHHHHHHHHHT-TCCEEEECSCHH------------------HHHH
T ss_pred             cCCCEEEeccccccCCH--------HHH----HHHHHhhhhhccc-CCceEEEeCCHH------------------HHHH
Confidence            37999999998877532        222    3778888888765 899999998553                  2456


Q ss_pred             ccceEEEEEee
Q 047388          300 AVTIRLMFRKG  310 (352)
Q Consensus       300 ~~~~~i~L~~~  310 (352)
                      +||.++.|..+
T Consensus       215 ~adri~vm~~G  225 (258)
T d1b0ua_         215 VSSHVIFLHQG  225 (258)
T ss_dssp             HCSEEEEEETT
T ss_pred             hCCEEEEEECC
Confidence            77888888653

>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=98.74  E-value=1.1e-08  Score=89.28  Aligned_cols=42  Identities=19%  Similarity=0.196  Sum_probs=30.9

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      -+++|+++.|+||+|||||||+..++.  ..+     ...+.++++...
T Consensus        37 ~i~~Ge~iaivG~sGsGKSTLl~ll~g--l~~-----p~~G~I~i~g~~   78 (253)
T d3b60a1          37 KIPAGKTVALVGRSGSGKSTIASLITR--FYD-----IDEGHILMDGHD   78 (253)
T ss_dssp             EECTTCEEEEEECTTSSHHHHHHHHTT--TTC-----CSEEEEEETTEE
T ss_pred             EEcCCCEEEEECCCCChHHHHHHHHhc--ccC-----CCccEEEECCcc
Confidence            588999999999999999999985543  222     134456666553

>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=98.70  E-value=1.1e-08  Score=89.05  Aligned_cols=132  Identities=17%  Similarity=0.183  Sum_probs=72.5

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCc-------cccccc
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDP-------GAVLDN  194 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~-------~~~~~~  194 (352)
                      -+++|+++.|+|++|||||||+..++.  ..+     ...+.++++..+- .......+.+.+++-+       .++.+|
T Consensus        40 ~i~~Ge~vaivG~sGsGKSTLl~ll~g--l~~-----p~~G~I~i~g~~i-~~~~~~~lr~~i~~v~Q~~~lf~~Ti~eN  111 (255)
T d2hyda1          40 SIEKGETVAFVGMSGGGKSTLINLIPR--FYD-----VTSGQILIDGHNI-KDFLTGSLRNQIGLVQQDNILFSDTVKEN  111 (255)
T ss_dssp             EECTTCEEEEECSTTSSHHHHHTTTTT--SSC-----CSEEEEEETTEEG-GGSCHHHHHHTEEEECSSCCCCSSBHHHH
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHHh--cCC-----ccccccccCCEEc-ccCCHHHhhheeeeeeccccCCCCCHHHH
Confidence            589999999999999999999984432  332     2344566655431 1111223333333222       234455


Q ss_pred             EEEEecC-CHHHHHHHHHH----------------------------------HHHHhhcCCceEEEEcccccchhcccC
Q 047388          195 IIYARAY-TYEHQYNLLLG----------------------------------LAAKMSEEPFRLLIVDSVIALFRVDFT  239 (352)
Q Consensus       195 i~~~~~~-~~~~~~~~l~~----------------------------------l~~~l~~~~~~lvvIDsl~~l~~~~~~  239 (352)
                      +.+.... +.++..+.++.                                  +.+.+. .+++++|+|+.++.+..   
T Consensus       112 i~~g~~~~~~~~~~~al~~~~l~~~i~~lp~gl~t~i~~~g~~LSgGq~QRi~iARal~-~~p~ililDEpts~LD~---  187 (255)
T d2hyda1         112 ILLGRPTATDEEVVEAAKMANAHDFIMNLPQGYDTEVGERGVKLSGGQKQRLSIARIFL-NNPPILILDEATSALDL---  187 (255)
T ss_dssp             HGGGCSSCCHHHHHHHHHHTTCHHHHHTSTTGGGCBCCGGGTTSCHHHHHHHHHHHHHH-HCCSEEEEESTTTTCCH---
T ss_pred             HhccCcCCCHHHHHHHHHHhCCHHHHHhccccccchhcCCCCCcCHHHHHHHHHHHHHh-cCCCEEEEeCccccCCH---
Confidence            4433221 22222221110                                  111111 27899999998887532   


Q ss_pred             CCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          240 GRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       240 ~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                          ..+     ..+...|+.+.+  +.|||+++|-.
T Consensus       188 ----~t~-----~~i~~~l~~l~~--~~TvI~itH~~  213 (255)
T d2hyda1         188 ----ESE-----SIIQEALDVLSK--DRTTLIVAHRL  213 (255)
T ss_dssp             ----HHH-----HHHHHHHHHHTT--TSEEEEECSSG
T ss_pred             ----HHH-----HHHHHHHHHHhc--CCEEEEEeCCH
Confidence                111     266667777654  67999998854

>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=98.68  E-value=1.7e-09  Score=93.88  Aligned_cols=26  Identities=19%  Similarity=0.188  Sum_probs=23.4

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la  147 (352)
                      -+++|+++.|+||+|||||||+..++
T Consensus        24 ~i~~Ge~vaivG~sGsGKSTLl~ll~   49 (242)
T d1mv5a_          24 EAQPNSIIAFAGPSGGGKSTIFSLLE   49 (242)
T ss_dssp             EECTTEEEEEECCTTSSHHHHHHHHT
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHH
Confidence            58999999999999999999998554

>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=98.67  E-value=6.7e-08  Score=83.01  Aligned_cols=28  Identities=25%  Similarity=0.414  Sum_probs=24.9

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHH
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      .-+++|+++.|.||+|+|||||+..++.
T Consensus        20 l~I~~Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          20 GEVRAGEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             EEEETTCEEECBCCTTSSHHHHHHHHHT
T ss_pred             EEEcCCCEEEEECCCCCcHHHHHHHHhC
Confidence            4688999999999999999999987654

>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=98.58  E-value=1.8e-08  Score=84.76  Aligned_cols=137  Identities=18%  Similarity=0.265  Sum_probs=71.4

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCC----------CCCeEEEEeCCCCCCh-----hhHHHHHHHcC
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRG----------GNGKVAYIDTEGTFRP-----DRIVPIAERFG  185 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg----------~~~~vl~i~~e~~~~~-----~rl~~~~~~~~  185 (352)
                      =-+++|+++.|.||+|||||||+..++  ...++..|.          ...++.|+..+..+..     +.+.....-++
T Consensus        22 ~~i~~Gei~~l~G~NGsGKSTLl~~i~--gl~~p~~G~I~~~g~~i~~~~~~i~~~~~~~~~~~~~t~~~~l~~~~~~~~   99 (200)
T d1sgwa_          22 MTIEKGNVVNFHGPNGIGKTTLLKTIS--TYLKPLKGEIIYNGVPITKVKGKIFFLPEEIIVPRKISVEDYLKAVASLYG   99 (200)
T ss_dssp             EEEETTCCEEEECCTTSSHHHHHHHHT--TSSCCSEEEEEETTEEGGGGGGGEEEECSSCCCCTTSBHHHHHHHHHHHTT
T ss_pred             EEEcCCCEEEEECCCCChHHHHHHHHh--cccccCCCEEEECCEehhHhcCcEEEEeecccCCCCcCHHHHHHHHHHhcC
Confidence            368999999999999999999999654  333333221          1223444433322221     11222222233


Q ss_pred             CCc--cccc---ccEEEE------ecCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHH
Q 047388          186 MDP--GAVL---DNIIYA------RAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQM  254 (352)
Q Consensus       186 ~~~--~~~~---~~i~~~------~~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i  254 (352)
                      ...  +++.   +.+.+.      ...+.. +.+.+. +.+.+ -.+++++++|++++-+...        .+    .++
T Consensus       100 ~~~~~~~~~~~l~~~~~~~~~~~~~~LSgG-~~qrv~-ia~al-~~~~~llllDEPt~gLD~~--------~~----~~i  164 (200)
T d1sgwa_         100 VKVNKNEIMDALESVEVLDLKKKLGELSQG-TIRRVQ-LASTL-LVNAEIYVLDDPVVAIDED--------SK----HKV  164 (200)
T ss_dssp             CCCCHHHHHHHHHHTTCCCTTSBGGGSCHH-HHHHHH-HHHHT-TSCCSEEEEESTTTTSCTT--------TH----HHH
T ss_pred             CccCHHHHHHHHHHcCCcccccccCcCCCc-HHHHHH-HHHHH-hcCCCEEEEcCcccccCHH--------HH----HHH
Confidence            221  1111   111000      011111 111111 11222 2479999999998765321        11    267


Q ss_pred             HHHHHHHHHHhCcEEEEEcc
Q 047388          255 LSRLTKISEEFNVAVYMTNQ  274 (352)
Q Consensus       255 ~~~L~~la~~~~~~viv~~h  274 (352)
                      ++.|++++++.+++||..+|
T Consensus       165 ~~~l~~~~~~~~~~ii~~~~  184 (200)
T d1sgwa_         165 LKSILEILKEKGIVIISSRE  184 (200)
T ss_dssp             HHHHHHHHHHHSEEEEEESS
T ss_pred             HHHHHHHHhCCCEEEEEEec
Confidence            78888888888877776665

>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=98.41  E-value=1.8e-06  Score=72.30  Aligned_cols=94  Identities=18%  Similarity=0.141  Sum_probs=61.0

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC--CChhhHHHHHHHcCCCcccccccEEEEecCC
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT--FRPDRIVPIAERFGMDPGAVLDNIIYARAYT  202 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~--~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~  202 (352)
                      .+.++.++||+|+||||.+-.+|.....      .+.+|.+++++..  -..+.++..++.+++..         +...+
T Consensus         5 ~~~vi~lvGptGvGKTTTiaKLA~~~~~------~g~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~---------~~~~~   69 (207)
T d1okkd2           5 KGRVVLVVGVNGVGKTTTIAKLGRYYQN------LGKKVMFCAGDTFRAAGGTQLSEWGKRLSIPV---------IQGPE   69 (207)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHT------TTCCEEEECCCCSSTTHHHHHHHHHHHHTCCE---------ECCCT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHH------CCCcEEEEEeccccccchhhHhhcccccCceE---------EeccC
Confidence            5779999999999999999989887665      5778998887642  12356777777777653         22222


Q ss_pred             HHHHHHHHHHHHHHhhcCCceEEEEcccccc
Q 047388          203 YEHQYNLLLGLAAKMSEEPFRLLIVDSVIAL  233 (352)
Q Consensus       203 ~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l  233 (352)
                      ..+....+..........+.++|+||.....
T Consensus        70 ~~d~~~~~~~~~~~~~~~~~d~ilIDTaGr~  100 (207)
T d1okkd2          70 GTDPAALAYDAVQAMKARGYDLLFVDTAGRL  100 (207)
T ss_dssp             TCCHHHHHHHHHHHHHHHTCSEEEECCCCCC
T ss_pred             CccHHHHHHHHHHHHHHCCCCEEEcCccccc
Confidence            2222333322222223336789999987655

>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=98.34  E-value=1.7e-06  Score=72.68  Aligned_cols=91  Identities=15%  Similarity=0.129  Sum_probs=61.8

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCCh---hhHHHHHHHcCCCcccccccEEEEecCCH
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRP---DRIVPIAERFGMDPGAVLDNIIYARAYTY  203 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~---~rl~~~~~~~~~~~~~~~~~i~~~~~~~~  203 (352)
                      .++.++||+|+||||.+-.+|.....      .+.+|..++++. ++.   +.++..++.++++.         ....+.
T Consensus        10 ~vi~lvGptGvGKTTTiAKLA~~~~~------~g~kV~lit~Dt-~R~gA~eQL~~~a~~l~v~~---------~~~~~~   73 (211)
T d2qy9a2          10 FVILMVGVNGVGKTTTIGKLARQFEQ------QGKSVMLAAGDT-FRAAAVEQLQVWGQRNNIPV---------IAQHTG   73 (211)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHHT------TTCCEEEECCCT-TCHHHHHHHHHHHHHTTCCE---------ECCSTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHH------CCCcEEEEeccc-ccccchhhhhhhhhhcCCcc---------cccccC
Confidence            58999999999999999989877654      567899998864 443   45666677776653         223333


Q ss_pred             HHHHHHHHHHHHHhhcCCceEEEEcccccc
Q 047388          204 EHQYNLLLGLAAKMSEEPFRLLIVDSVIAL  233 (352)
Q Consensus       204 ~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l  233 (352)
                      .+....+.+........+.++|+||.....
T Consensus        74 ~d~~~~l~~~~~~a~~~~~d~ilIDTaGr~  103 (211)
T d2qy9a2          74 ADSASVIFDAIQAAKARNIDVLIADTAGRL  103 (211)
T ss_dssp             CCHHHHHHHHHHHHHHTTCSEEEECCCCCG
T ss_pred             CCHHHHHHHHHHHHHHcCCCEEEeccCCCc
Confidence            334444444444444457899999986544

>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=98.29  E-value=2.2e-07  Score=82.03  Aligned_cols=47  Identities=26%  Similarity=0.306  Sum_probs=33.2

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCC--CCCeEEEEeCCC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRG--GNGKVAYIDTEG  170 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg--~~~~vl~i~~e~  170 (352)
                      -+++|+++.|+||+|||||||+..++.  ..++..|.  .++++.|+.-..
T Consensus        58 ~i~~Ge~vaivG~nGsGKSTLl~~i~G--l~~p~~G~I~~~g~i~~v~Q~~  106 (281)
T d1r0wa_          58 NIEKGEMLAITGSTGSGKTSLLMLILG--ELEASEGIIKHSGRVSFCSQFS  106 (281)
T ss_dssp             EECTTCEEEEEESTTSSHHHHHHHHHT--SSCCSEEEEECCSCEEEECSSC
T ss_pred             EEcCCCEEEEECCCCChHHHHHHHHhC--CCcCCCcEEEECCEEEEEeccc
Confidence            589999999999999999999996543  33333321  245666665543

>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=98.26  E-value=3.1e-07  Score=74.80  Aligned_cols=45  Identities=16%  Similarity=0.203  Sum_probs=31.0

Q ss_pred             hcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          218 SEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       218 ~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                      ...+++++++|++......        .      ..+...|.++.++.++++|+++|..
T Consensus        96 ~~~~~~vlllDE~~~~~~~--------~------~~~~~~l~~~l~~~~~~il~~~h~~  140 (178)
T d1ye8a1          96 KKDRRKVIIIDEIGKMELF--------S------KKFRDLVRQIMHDPNVNVVATIPIR  140 (178)
T ss_dssp             HHCTTCEEEECCCSTTGGG--------C------HHHHHHHHHHHTCTTSEEEEECCSS
T ss_pred             HhcCCCceeecCCCccchh--------h------HHHHHHHHHHhccCCCEEEEEEccH
Confidence            3468999999997654321        1      1344556666677899999998864

>d2i1qa1 a.60.4.1 (A:5-64) DNA repair protein Rad51, N-terminal domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: All alpha proteins
fold: SAM domain-like
superfamily: Rad51 N-terminal domain-like
family: DNA repair protein Rad51, N-terminal domain
domain: DNA repair protein Rad51, N-terminal domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=98.25  E-value=1.2e-06  Score=58.14  Aligned_cols=56  Identities=27%  Similarity=0.453  Sum_probs=52.6

Q ss_pred             CCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHHHHhhcCC
Q 047388           37 QGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVNFGY   92 (352)
Q Consensus        37 ~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (352)
                      +|+.+...++|.++||.|++++..+++++|+++.|+++..+.++++.+++....+|
T Consensus         5 pGIG~~~a~~L~~~G~~tv~~l~~a~~eeL~~i~Gi~~~~A~~i~~~ar~~~d~g~   60 (60)
T d2i1qa1           5 PGVGPSTAEKLVEAGYIDFMKIATATVGELTDIEGISEKAAAKMIMGARDLCDLGF   60 (60)
T ss_dssp             TTCCHHHHHHHHHHTCCSHHHHHTCCHHHHHTSTTCCHHHHHHHHHHHHHHTTCSC
T ss_pred             CCCCHHHHHHHHHccCCCHHHHHhCCHHHHHHCCCCCHHHHHHHHHHHHHHcCCCC
Confidence            89999999999999999999999999999999999999999999999998876554

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=98.24  E-value=1.1e-06  Score=76.34  Aligned_cols=117  Identities=18%  Similarity=0.146  Sum_probs=66.5

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecC
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAY  201 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~  201 (352)
                      |++...-++++||||||||+++..+|...         +.++++++...-.+..        .|               .
T Consensus        41 g~~~~~~iLL~GppGtGKT~la~~iA~~~---------~~~~~~i~~~~l~~~~--------~g---------------~   88 (256)
T d1lv7a_          41 GGKIPKGVLMVGPPGTGKTLLAKAIAGEA---------KVPFFTISGSDFVEMF--------VG---------------V   88 (256)
T ss_dssp             --CCCCEEEEECCTTSCHHHHHHHHHHHH---------TCCEEEECSCSSTTSC--------CC---------------C
T ss_pred             CCCCCCeEEeeCCCCCCccHHHHHHHHHc---------CCCEEEEEhHHhhhcc--------hh---------------H
Confidence            44444568899999999999999998664         3457777765432110        00               1


Q ss_pred             CHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCC-cchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcc
Q 047388          202 TYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGR-GELADRQQKLGQMLSRLTKISEEFNVAVYMTNQ  274 (352)
Q Consensus       202 ~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~-g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h  274 (352)
                      ....    +.++.+......|.+|+||.+-.+.....++. +......+.+..++..+..+....++.||.++.
T Consensus        89 ~~~~----l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~v~vIatTn  158 (256)
T d1lv7a_          89 GASR----VRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATN  158 (256)
T ss_dssp             CHHH----HHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEEEEEES
T ss_pred             HHHH----HHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCC
Confidence            1111    22233344456889999999988865422211 111233334456666665444455666665544

>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=98.15  E-value=9.2e-06  Score=67.97  Aligned_cols=94  Identities=19%  Similarity=0.185  Sum_probs=58.8

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCCh---hhHHHHHHHcCCCcccccccEEEEec
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRP---DRIVPIAERFGMDPGAVLDNIIYARA  200 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~---~rl~~~~~~~~~~~~~~~~~i~~~~~  200 (352)
                      ....++.++||+|+||||.+-.+|.....      .+.+|..++++. ++.   +.++..++.++.+..         ..
T Consensus         8 ~~~~vi~lvGp~GvGKTTTiaKLA~~~~~------~g~kV~lit~Dt-~R~gA~eQL~~~a~~l~v~~~---------~~   71 (207)
T d1ls1a2           8 KDRNLWFLVGLQGSGKTTTAAKLALYYKG------KGRRPLLVAADT-QRPAAREQLRLLGEKVGVPVL---------EV   71 (207)
T ss_dssp             CSSEEEEEECCTTTTHHHHHHHHHHHHHH------TTCCEEEEECCS-SCHHHHHHHHHHHHHHTCCEE---------EC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHHH------CCCcEEEEeccc-ccchHHHHHHHHHHhcCCccc---------cc
Confidence            34678999999999999999999988765      578899998864 443   445556666666431         11


Q ss_pred             CCHHHHHHHHHHHHHHhhcCCceEEEEcccccc
Q 047388          201 YTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIAL  233 (352)
Q Consensus       201 ~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l  233 (352)
                      .+..+.................++|+||.....
T Consensus        72 ~~~~~~~~~~~~~~~~~~~~~~d~vlIDTaGr~  104 (207)
T d1ls1a2          72 MDGESPESIRRRVEEKARLEARDLILVDTAGRL  104 (207)
T ss_dssp             CTTCCHHHHHHHHHHHHHHHTCCEEEEECCCCS
T ss_pred             cccchhhHHHHHHHHHHhhccCcceeecccccc
Confidence            112222222222222222336688888876654

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=98.15  E-value=1.6e-06  Score=75.01  Aligned_cols=115  Identities=17%  Similarity=0.147  Sum_probs=62.3

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCC
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYT  202 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~  202 (352)
                      ++.-.-++++||||+|||+++..++..         .+.++++++...         ....+                  
T Consensus        39 ~~~~~giLl~GppGtGKT~la~aia~~---------~~~~~~~i~~~~---------l~~~~------------------   82 (247)
T d1ixza_          39 ARIPKGVLLVGPPGVGKTHLARAVAGE---------ARVPFITASGSD---------FVEMF------------------   82 (247)
T ss_dssp             CCCCSEEEEECCTTSSHHHHHHHHHHH---------TTCCEEEEEHHH---------HHHSC------------------
T ss_pred             CCCCceEEEecCCCCChhHHHHHHHHH---------cCCCEEEEEhHH---------hhhcc------------------
Confidence            333445899999999999999998865         345677775421         11100                  


Q ss_pred             HHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCC-cchHHHHHHHHHHHHHHHHHHHHhCcEEEEEc
Q 047388          203 YEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGR-GELADRQQKLGQMLSRLTKISEEFNVAVYMTN  273 (352)
Q Consensus       203 ~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~-g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~  273 (352)
                      ..+....+.++.+......+.+|+||++-.++.....+. +......+.+..++..|..+....++.||.++
T Consensus        83 ~g~~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~vivi~tT  154 (247)
T d1ixza_          83 VGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAAT  154 (247)
T ss_dssp             TTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEE
T ss_pred             ccHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeC
Confidence            001112233343444556788999999988865422111 11122333445555555554444556566443

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.13  E-value=2.6e-06  Score=74.40  Aligned_cols=124  Identities=14%  Similarity=0.080  Sum_probs=68.7

Q ss_pred             cCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEe
Q 047388          120 GGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYAR  199 (352)
Q Consensus       120 ~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~  199 (352)
                      ..|+++..-++|+||||+|||+|+..+|...         +.+.++++..      .   +...+   .           
T Consensus        35 ~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~---------~~~~~~~~~~------~---l~~~~---~-----------   82 (265)
T d1r7ra3          35 KFGMTPSKGVLFYGPPGCGKTLLAKAIANEC---------QANFISIKGP------E---LLTMW---F-----------   82 (265)
T ss_dssp             HCCCCCCCEEEEBCCTTSSHHHHHHHHHHHT---------TCEEEEECHH------H---HHTSC---T-----------
T ss_pred             hCCCCCCCeEEEECCCCCcchhHHHHHHHHh---------CCcEEEEEHH------H---hhhcc---c-----------
Confidence            3578888889999999999999999988764         3455555421      1   11000   0           


Q ss_pred             cCCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCc-chHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccccC
Q 047388          200 AYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRG-ELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIAD  278 (352)
Q Consensus       200 ~~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g-~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~~  278 (352)
                          ......+..+........+.+|+||.+-.++...-...+ ......+.+..++..|..+....++.||.+++....
T Consensus        83 ----~~~~~~l~~~f~~A~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vi~ttn~~~~  158 (265)
T d1r7ra3          83 ----GESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDI  158 (265)
T ss_dssp             ----TTHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------CCEEEECCBSCTT
T ss_pred             ----cchHHHHHHHHHHHHhcCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCCchh
Confidence                001111222223334467899999999988753211111 112222344566666666666778888887665544


Q ss_pred             C
Q 047388          279 P  279 (352)
Q Consensus       279 ~  279 (352)
                      .
T Consensus       159 l  159 (265)
T d1r7ra3         159 I  159 (265)
T ss_dssp             T
T ss_pred             C
Confidence            3

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.10  E-value=3.2e-06  Score=73.51  Aligned_cols=119  Identities=14%  Similarity=0.131  Sum_probs=66.0

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEec
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARA  200 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~  200 (352)
                      .|+++-.-++++||||+|||+++..+|...         +..+++++...-...                          
T Consensus        33 ~g~~~~~giLL~GppGtGKT~l~~ala~~~---------~~~~~~i~~~~l~~~--------------------------   77 (258)
T d1e32a2          33 IGVKPPRGILLYGPPGTGKTLIARAVANET---------GAFFFLINGPEIMSK--------------------------   77 (258)
T ss_dssp             CCCCCCCEEEEECCTTSSHHHHHHHHHHHT---------TCEEEEECHHHHTTS--------------------------
T ss_pred             CCCCCCceeEEecCCCCCchHHHHHHHHHh---------CCeEEEEEchhhccc--------------------------
Confidence            355555568999999999999999888753         345666543210000                          


Q ss_pred             CCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccccc
Q 047388          201 YTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVIA  277 (352)
Q Consensus       201 ~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~~  277 (352)
                      . .......+..+........+.+|+||.+-.++...-.+.++...  ..+..++..+.......++.||.+++-..
T Consensus        78 ~-~g~~~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~~~~~~--~~~~~~~~~~~~~~~~~~vlvi~tTn~~~  151 (258)
T d1e32a2          78 L-AGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVER--RIVSQLLTLMDGLKQRAHVIVMAATNRPN  151 (258)
T ss_dssp             C-TTHHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHH--HHHHHHHHHHHTCCCSSCEEEEEEESCGG
T ss_pred             c-cccHHHHHHHHHHHHHhcCCeEEEehhhhhhccCCCCCCCchHH--HHHHHhccccccccccCCccEEEeCCCcc
Confidence            0 00111122223333445688999999999987653333222222  23344444444444455666675554333

>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=98.05  E-value=1.4e-05  Score=67.10  Aligned_cols=93  Identities=16%  Similarity=0.128  Sum_probs=57.2

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCCh---hhHHHHHHHcCCCcccccccEEEEecC
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRP---DRIVPIAERFGMDPGAVLDNIIYARAY  201 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~---~rl~~~~~~~~~~~~~~~~~i~~~~~~  201 (352)
                      +-.++.++||+|+||||.+-.+|.....      .+.+|.++++.. ++.   +.++..++.++...         +...
T Consensus        10 ~p~vi~lvGptGvGKTTTiAKLAa~~~~------~~~kV~lit~Dt-~R~gA~eQL~~~a~~l~i~~---------~~~~   73 (213)
T d1vmaa2          10 PPFVIMVVGVNGTGKTTSCGKLAKMFVD------EGKSVVLAAADT-FRAAAIEQLKIWGERVGATV---------ISHS   73 (213)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHH------TTCCEEEEEECT-TCHHHHHHHHHHHHHHTCEE---------ECCS
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHH------CCCceEEEeecc-cccchhHHHHHHhhhcCccc---------cccC
Confidence            3458899999999999999889887755      567899998864 343   34555566655432         2222


Q ss_pred             CHHHHHHHHHHHHHHhhcCCceEEEEcccccc
Q 047388          202 TYEHQYNLLLGLAAKMSEEPFRLLIVDSVIAL  233 (352)
Q Consensus       202 ~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l  233 (352)
                      +..+....+..........+.++|+||.....
T Consensus        74 ~~~d~~~~~~~~~~~~~~~~~d~ilIDTaGr~  105 (213)
T d1vmaa2          74 EGADPAAVAFDAVAHALARNKDVVIIDTAGRL  105 (213)
T ss_dssp             TTCCHHHHHHHHHHHHHHTTCSEEEEEECCCC
T ss_pred             CCCcHHHHHHHHHHHHHHcCCCEEEEeccccc
Confidence            22222222222222223346788888876543

>d1pzna1 a.60.4.1 (A:35-95) DNA repair protein Rad51, N-terminal domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: All alpha proteins
fold: SAM domain-like
superfamily: Rad51 N-terminal domain-like
family: DNA repair protein Rad51, N-terminal domain
domain: DNA repair protein Rad51, N-terminal domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=97.96  E-value=1.1e-05  Score=53.58  Aligned_cols=53  Identities=30%  Similarity=0.453  Sum_probs=50.3

Q ss_pred             CCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHHHHhh
Q 047388           37 QGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIVN   89 (352)
Q Consensus        37 ~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~   89 (352)
                      +|+.+...++|.++||.|++++..+++.+|.++.|++...+.++++.+++.+.
T Consensus         7 ~GIG~~~a~~L~~~g~~sv~~l~~a~~~eL~~i~Gi~~~~A~~i~~~ar~~~~   59 (61)
T d1pzna1           7 PGVGPATAEKLREAGYDTLEAIAVASPIELKEVAGISEGTALKIIQAARKAAN   59 (61)
T ss_dssp             TTCCHHHHHHHHTTTCCSHHHHHTCCHHHHHHHHCCCHHHHHHHHHHHHHHCS
T ss_pred             CCCCHHHHHHHHHhcCCCHHHHHhCCHHHHHHCCCCCHHHHHHHHHHHHHHcc
Confidence            79999999999999999999999999999999999999999999999887754

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.96  E-value=3.4e-05  Score=66.97  Aligned_cols=123  Identities=16%  Similarity=0.147  Sum_probs=73.2

Q ss_pred             cccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHH
Q 047388          104 AVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAER  183 (352)
Q Consensus       104 ~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~  183 (352)
                      ..+.+.||+..+|-++  -+-+|+-..|+|++|+|||+|+.+++.+.+..     ...-++|...-..  .+.+.++.+.
T Consensus        48 i~~~l~TGIraID~l~--pigkGQr~~If~~~g~GKt~l~~~i~~~~~~~-----~~~v~V~~~iGer--~~ev~~~~~~  118 (276)
T d2jdid3          48 EQEILVTGIKVVDLLA--PYAKGGKIGLFGGAGVGKTVLIMELINNVAKA-----HGGYSVFAGVGER--TREGNDLYHE  118 (276)
T ss_dssp             CCCEECCSCHHHHHHS--CEETTCEEEEEECTTSSHHHHHHHHHHHHTTT-----CSSEEEEEEESCC--HHHHHHHHHH
T ss_pred             CCcccccCceeeeeec--cccCCCEEEeeCCCCCCHHHHHHHHHHHHHhh-----CCCeEEEEEeccC--hHHHHHHHHH
Confidence            3467999999999988  46689999999999999999999999886652     3456777754332  3333333332


Q ss_pred             ---cC-CCccccccc-EEEEecC-C-HHHHHHH---HHHHHHHhh-cCCce-EEEEcccccchh
Q 047388          184 ---FG-MDPGAVLDN-IIYARAY-T-YEHQYNL---LLGLAAKMS-EEPFR-LLIVDSVIALFR  235 (352)
Q Consensus       184 ---~~-~~~~~~~~~-i~~~~~~-~-~~~~~~~---l~~l~~~l~-~~~~~-lvvIDsl~~l~~  235 (352)
                         .+ ++..+.+++ +.+.... . .......   -..+.+.+. +.+-+ ++++||++.+..
T Consensus       119 ~~~~~~~~~~~~~~~tvvv~~~s~~~~~~r~~~~~~a~~iAEyf~~~~G~~VLv~~Dsltr~A~  182 (276)
T d2jdid3         119 MIESGVINLKDATSKVALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIFRFTQ  182 (276)
T ss_dssp             HHHHTSSCSSSSCCCEEEEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECTHHHHH
T ss_pred             HHhcCccccccccceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHhcCCCeEEEEEcchhHHHH
Confidence               22 222233344 3333222 1 1111111   112334444 43444 556799988754

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=97.96  E-value=3.1e-05  Score=64.77  Aligned_cols=92  Identities=16%  Similarity=0.197  Sum_probs=54.8

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCCh---hhHHHHHHHcCCCcccccccEEEEecC
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRP---DRIVPIAERFGMDPGAVLDNIIYARAY  201 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~---~rl~~~~~~~~~~~~~~~~~i~~~~~~  201 (352)
                      .-.++.++||+|+||||.+-.+|.....      .+.+|.++++.. ++.   +.++..++.+++..         ....
T Consensus        11 ~p~vi~lvGptGvGKTTTiAKLA~~~~~------~g~kV~lit~Dt-~R~ga~eQL~~~a~~l~v~~---------~~~~   74 (211)
T d1j8yf2          11 IPYVIMLVGVQGTGKATTAGKLAYFYKK------KGFKVGLVGADV-YRPAALEQLQQLGQQIGVPV---------YGEP   74 (211)
T ss_dssp             SSEEEEEECSCCC----HHHHHHHHHHH------TTCCEEEEECCC-SSHHHHHHHHHHHHHHTCCE---------ECCT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHH------CCCceEEEEeec-cccchhHHHHHhccccCcce---------eecc
Confidence            3468899999999999999889877654      567899998874 332   44556666666543         2222


Q ss_pred             CHHHHHHHHHHHHHHhhcCCceEEEEccccc
Q 047388          202 TYEHQYNLLLGLAAKMSEEPFRLLIVDSVIA  232 (352)
Q Consensus       202 ~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~  232 (352)
                      +..+....+.+........+.++|+||....
T Consensus        75 ~~~~~~~~~~~a~~~~~~~~~d~IlIDTaGr  105 (211)
T d1j8yf2          75 GEKDVVGIAKRGVEKFLSEKMEIIIVDTAGR  105 (211)
T ss_dssp             TCCCHHHHHHHHHHHHHHTTCSEEEEECCCS
T ss_pred             cchhhhHHHHHHHHHhhccCCceEEEecCCc
Confidence            2223333333222222334689999997654

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=97.75  E-value=0.00012  Score=61.29  Aligned_cols=102  Identities=15%  Similarity=0.146  Sum_probs=60.4

Q ss_pred             EEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCCHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYN  208 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~  208 (352)
                      +.|+|++|+|||.|+..++.....      .+..++|++...-     ...+.+.+.       .       ....... 
T Consensus        39 l~l~G~~G~GKTHLl~A~~~~~~~------~~~~~~~~~~~~~-----~~~~~~~~~-------~-------~~~~~~~-   92 (213)
T d1l8qa2          39 IFIYGSVGTGKTHLLQAAGNEAKK------RGYRVIYSSADDF-----AQAMVEHLK-------K-------GTINEFR-   92 (213)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHHH------TTCCEEEEEHHHH-----HHHHHHHHH-------H-------TCHHHHH-
T ss_pred             EEEECCCCCcHHHHHHHHHHHhcc------CccceEEechHHH-----HHHHHHHHH-------c-------cchhhHH-
Confidence            679999999999999998877665      5667889876532     111211110       0       0011111 


Q ss_pred             HHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcccc
Q 047388          209 LLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQVI  276 (352)
Q Consensus       209 ~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~~  276 (352)
                            ..+  ...++++||.+..+...        ...+.   .+.. +-..+.+.+..+|+++...
T Consensus        93 ------~~~--~~~dll~iDDi~~i~~~--------~~~~~---~lf~-lin~~~~~~~~iiits~~~  140 (213)
T d1l8qa2          93 ------NMY--KSVDLLLLDDVQFLSGK--------ERTQI---EFFH-IFNTLYLLEKQIILASDRH  140 (213)
T ss_dssp             ------HHH--HTCSEEEEECGGGGTTC--------HHHHH---HHHH-HHHHHHHTTCEEEEEESSC
T ss_pred             ------HHH--hhccchhhhhhhhhcCc--------hHHHH---HHHH-HHHHHhhccceEEEecCCc
Confidence                  112  15799999999877321        12222   3333 3334467788999887654

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=97.67  E-value=9.1e-05  Score=63.49  Aligned_cols=74  Identities=18%  Similarity=0.167  Sum_probs=45.1

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCCHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQY  207 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~  207 (352)
                      -++|+||||||||+++..+|...         +.+++.++.-..+.           |               .......
T Consensus        42 ~vLL~GppGtGKT~la~alA~~~---------~~~~~~i~~~~~~~-----------g---------------~~~~~~~   86 (246)
T d1d2na_          42 SVLLEGPPHSGKTALAAKIAEES---------NFPFIKICSPDKMI-----------G---------------FSETAKC   86 (246)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH---------TCSEEEEECGGGCT-----------T---------------CCHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHhhcc---------cccccccccccccc-----------c---------------ccccchh
Confidence            47899999999999999888653         33455554321100           0               0111112


Q ss_pred             HHHHHHHHHhhcCCceEEEEcccccchhc
Q 047388          208 NLLLGLAAKMSEEPFRLLIVDSVIALFRV  236 (352)
Q Consensus       208 ~~l~~l~~~l~~~~~~lvvIDsl~~l~~~  236 (352)
                      ..+.++........+.+|+||++-.+...
T Consensus        87 ~~i~~if~~A~~~~p~il~iDEid~l~~~  115 (246)
T d1d2na_          87 QAMKKIFDDAYKSQLSCVVVDDIERLLDY  115 (246)
T ss_dssp             HHHHHHHHHHHTSSEEEEEECCHHHHTTC
T ss_pred             hhhhhhhhhhhhcccceeehhhhhhHhhh
Confidence            23333433444567899999999887653

>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=97.55  E-value=0.00012  Score=60.32  Aligned_cols=25  Identities=20%  Similarity=0.222  Sum_probs=21.8

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcC
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQL  152 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~  152 (352)
                      ++.++|.|||||||++..|+.....
T Consensus         4 li~l~GlpgsGKSTla~~L~~~l~~   28 (213)
T d1bifa1           4 LIVMVGLPARGKTYISKKLTRYLNF   28 (213)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHh
Confidence            7899999999999999999876543

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=97.55  E-value=0.00016  Score=64.06  Aligned_cols=123  Identities=15%  Similarity=0.133  Sum_probs=67.2

Q ss_pred             hhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCccccc
Q 047388          113 QALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVL  192 (352)
Q Consensus       113 ~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~  192 (352)
                      +.+...| |.-.+..+.+++||||+|||.++..+|..+..       +..-+.++...-++                   
T Consensus       111 ~~~~~~~-~~~~~~g~~l~~G~pG~GKT~la~ala~~~~~-------~~~~~~~~~~~~~~-------------------  163 (321)
T d1w44a_         111 PVVAEFG-GHRYASGMVIVTGKGNSGKTPLVHALGEALGG-------KDKYATVRFGEPLS-------------------  163 (321)
T ss_dssp             CEEEEET-TEEEESEEEEEECSSSSCHHHHHHHHHHHHHT-------TSCCEEEEBSCSST-------------------
T ss_pred             hHHHHHh-hcccCCceEEEECCCCccHHHHHHHHHHHhcC-------CCCeEEEEhhHhhh-------------------
Confidence            3445555 33445557778999999999999998876431       11112233322111                   


Q ss_pred             ccEEEEecCCHH-HHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEE
Q 047388          193 DNIIYARAYTYE-HQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYM  271 (352)
Q Consensus       193 ~~i~~~~~~~~~-~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv  271 (352)
                       .    .....+ ...+++...    .  .+.+|+||++.++....-.+.+ .....+.+.+++..+..+....++.||.
T Consensus       164 -~----~~G~~e~~~~~~f~~a----~--~~~ilf~DEid~~~~~r~~~~~-~~~~~r~v~~lL~e~dg~~~~~~v~via  231 (321)
T d1w44a_         164 -G----YNTDFNVFVDDIARAM----L--QHRVIVIDSLKNVIGAAGGNTT-SGGISRGAFDLLSDIGAMAASRGCVVIA  231 (321)
T ss_dssp             -T----CBCCHHHHHHHHHHHH----H--HCSEEEEECCTTTC------------CCHHHHHHHHHHHHHHHHHTCEEEE
T ss_pred             -c----ccchHHHHHHHHHHHH----h--hccEEEeehhhhhccccccCCC-CCcchhhhhhhhhhccccccCCCeEEEE
Confidence             0    011122 223333332    2  2569999999998654321111 1111135678888888888888988887


Q ss_pred             Ecc
Q 047388          272 TNQ  274 (352)
Q Consensus       272 ~~h  274 (352)
                      ++.
T Consensus       232 atN  234 (321)
T d1w44a_         232 SLN  234 (321)
T ss_dssp             ECC
T ss_pred             eCC
Confidence            765

>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=97.54  E-value=0.00028  Score=61.18  Aligned_cols=118  Identities=18%  Similarity=0.176  Sum_probs=69.8

Q ss_pred             ccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHc
Q 047388          105 VIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERF  184 (352)
Q Consensus       105 ~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~  184 (352)
                      .+.+.||+..+|-++  -+-+|+-+.|+|++|+|||+|+.+++.+...      ....++|...-..  .....+..+.+
T Consensus        48 ~~~l~TGi~~ID~l~--pig~GQr~~Ifg~~g~GKt~l~~~~~~~~~~------~~~v~V~~~iGer--~~Ev~e~~~~~  117 (276)
T d1fx0a3          48 YEPLQTGLIAIDAMI--PVGRGQRELIIGDRQTGKTAVATDTILNQQG------QNVICVYVAIGQK--ASSVAQVVTNF  117 (276)
T ss_dssp             CSBCCCSCTTTTTTS--CCBTTCBCBEEESSSSSHHHHHHHHHHTCCT------TTCEEEEEEESCC--HHHHHHHHHHT
T ss_pred             CccccccceEEeccc--cccCCceEeeccCCCCChHHHHHHHHhhhcc------cCceeeeeeecch--hHHHHHHHHhh
Confidence            457999999999887  5778999999999999999999987766443      4456677654322  33444444443


Q ss_pred             CCCcccccccEEE-EecCC-H--HHH--HHHHHHHHHHhhcC-CceEEEEcccccch
Q 047388          185 GMDPGAVLDNIIY-ARAYT-Y--EHQ--YNLLLGLAAKMSEE-PFRLLIVDSVIALF  234 (352)
Q Consensus       185 ~~~~~~~~~~i~~-~~~~~-~--~~~--~~~l~~l~~~l~~~-~~~lvvIDsl~~l~  234 (352)
                      .  ....+++-.+ ....+ +  ...  ...-..+.+.+... +--++++||++.+.
T Consensus       118 ~--~~~~~~~tvvv~~tsd~p~~~r~~a~~~a~tiAEyfrd~G~~Vlll~Dsltr~A  172 (276)
T d1fx0a3         118 Q--ERGAMEYTIVVAETADSPATLQYLAPYTGAALAEYFMYRERHTLIIYDDLSKQA  172 (276)
T ss_dssp             G--GGTGGGSEEEEEECTTSCGGGTTHHHHHHHHHHHHHHHTTCEEEEEEECHHHHH
T ss_pred             c--cCCcceeeeecccccCccHHHHHHHHHHHHHHHHHHHHcCCceeEEeeccHHHH
Confidence            2  1223444333 22211 1  111  11112233344444 33466789998774

>d1c9ka_ c.37.1.11 (A:) Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU {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: RecA protein-like (ATPase-domain)
domain: Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU
species: Salmonella typhimurium [TaxId: 90371]

Probab=97.53  E-value=9e-05  Score=60.19  Aligned_cols=82  Identities=18%  Similarity=0.231  Sum_probs=47.9

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChh---hHHHHHHHcCCCcccccccEEEEec-CCH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPD---RIVPIAERFGMDPGAVLDNIIYARA-YTY  203 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~---rl~~~~~~~~~~~~~~~~~i~~~~~-~~~  203 (352)
                      ++.|+|++.||||.+|-+++.          ...+++|+.|-..++.+   |+....++.+       .++..... .+.
T Consensus         1 iiLVtGGarSGKS~~AE~l~~----------~~~~~~YiAT~~~~D~em~~RI~~Hr~rR~-------~~w~tiE~~~~l   63 (180)
T d1c9ka_           1 MILVTGGARSGKSRHAEALIG----------DAPQVLYIATSQILDDEMAARIQHHKDGRP-------AHWRTAECWRHL   63 (180)
T ss_dssp             CEEEEECTTSSHHHHHHHHHC----------SCSSEEEEECCCC------CHHHHHHHTSC-------TTEEEECCSSCG
T ss_pred             CEEEECCCCccHHHHHHHHHh----------cCCCcEEEEccCCCCHHHHHHHHHHHhcCc-------CCCEEecccccH
Confidence            578999999999999998752          35679999997776653   3333222222       12222211 111


Q ss_pred             HHHHHHHHHHHHHhhc--CCceEEEEcccccchhc
Q 047388          204 EHQYNLLLGLAAKMSE--EPFRLLIVDSVIALFRV  236 (352)
Q Consensus       204 ~~~~~~l~~l~~~l~~--~~~~lvvIDsl~~l~~~  236 (352)
                      .          ..+..  .+.+.|+||+++.+...
T Consensus        64 ~----------~~l~~~~~~~~~vLlDclt~~l~N   88 (180)
T d1c9ka_          64 D----------TLITADLAPDDAILLECITTMVTN   88 (180)
T ss_dssp             G----------GTSCTTSCTTCEEEEECHHHHHHH
T ss_pred             H----------HHHHhhcCcccchhhhhhhHHHHH
Confidence            1          11221  35689999999987653

>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=97.42  E-value=5e-05  Score=60.40  Aligned_cols=36  Identities=17%  Similarity=0.037  Sum_probs=29.0

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      ++.|+|++|||||||+.+++.....      .+.++.++..+
T Consensus         4 vi~itG~~GSGKTTL~~~L~~~l~~------~g~~v~v~~~d   39 (170)
T d1np6a_           4 LLAFAAWSGTGKTTLLKKLIPALCA------RGIRPGLIKHT   39 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHH------TTCCEEEEEEC
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHH------CCCeEEEeccc
Confidence            7899999999999999999876554      56667666554

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.41  E-value=0.0002  Score=62.33  Aligned_cols=126  Identities=16%  Similarity=0.183  Sum_probs=71.1

Q ss_pred             cccccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCcc--CCCCCeEEEEeCCCCCChhhHHHHH
Q 047388          104 AVIKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNM--RGGNGKVAYIDTEGTFRPDRIVPIA  181 (352)
Q Consensus       104 ~~~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~--gg~~~~vl~i~~e~~~~~~rl~~~~  181 (352)
                      ..+.+.||+..+|-++  -+-+|+-+.|+|++|+|||+|+.+++.+.......  ...+.-++|...-..  ...+.++.
T Consensus        48 i~e~l~TGIraID~l~--pig~GQr~~If~~~g~GKt~ll~~~~~~~~~~~~~~~~~~~~~~v~~~IGer--~~E~~e~~  123 (285)
T d2jdia3          48 VREPMQTGIKAVDSLV--PIGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQK--RSTVAQLV  123 (285)
T ss_dssp             CCSBCCCSCHHHHHHS--CCBTTCBCEEEESTTSSHHHHHHHHHHHTHHHHTSSCTTTCCEEEEEEESCC--HHHHHHHH
T ss_pred             CCcccccCceEEeccc--CccCCCEEEeecCCCCChHHHHHHHHHhHHhhccccccccceEEEEeeeCcc--HHHHHHHH
Confidence            3467999999999987  57799999999999999999999998774321100  002234556543222  33344444


Q ss_pred             HHcCCCccccccc-EEEEecCC-H-HHHHHH---HHHHHHHhhcCCce-EEEEcccccchh
Q 047388          182 ERFGMDPGAVLDN-IIYARAYT-Y-EHQYNL---LLGLAAKMSEEPFR-LLIVDSVIALFR  235 (352)
Q Consensus       182 ~~~~~~~~~~~~~-i~~~~~~~-~-~~~~~~---l~~l~~~l~~~~~~-lvvIDsl~~l~~  235 (352)
                      +.+.  ....+++ +.+....+ . ......   -..+.+.+...+-+ ++++||++.+..
T Consensus       124 ~~~~--~~~~~~~tvvv~~ts~~~~~~r~~~~~~a~tiAEyfrd~G~~VLll~Dsltr~A~  182 (285)
T d2jdia3         124 KRLT--DADAMKYTIVVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAV  182 (285)
T ss_dssp             HHHH--HTTCGGGEEEEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEETHHHHHH
T ss_pred             HHhc--ccccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEcChHHHHH
Confidence            3321  0122344 33333222 1 111111   11233444445555 457899998754

>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=97.40  E-value=0.00053  Score=58.17  Aligned_cols=45  Identities=13%  Similarity=0.003  Sum_probs=32.5

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhH
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRI  177 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl  177 (352)
                      .....++|+||||+|||+++..+|..         .+..+.+++.........+
T Consensus        50 ~~~~~lll~GPpG~GKTt~a~~la~~---------~~~~~~~~~~~~~~~~~~~   94 (253)
T d1sxja2          50 GVFRAAMLYGPPGIGKTTAAHLVAQE---------LGYDILEQNASDVRSKTLL   94 (253)
T ss_dssp             TSCSEEEEECSTTSSHHHHHHHHHHH---------TTCEEEEECTTSCCCHHHH
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHH---------HHhhhhccccccchhhHHH
Confidence            33457899999999999999988865         3456777776654444333

>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=97.39  E-value=5e-05  Score=60.75  Aligned_cols=36  Identities=22%  Similarity=0.192  Sum_probs=27.8

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      .|.++.|.|+|||||||++..++..         .+.+.++++.+
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~~---------lg~~~~~~~~d   38 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALANL---------PGVPKVHFHSD   38 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTC---------SSSCEEEECTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH---------hCCCEEEecHH
Confidence            4789999999999999999977542         34566666654

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=97.37  E-value=0.00021  Score=60.64  Aligned_cols=27  Identities=11%  Similarity=0.107  Sum_probs=24.2

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcC
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQL  152 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~  152 (352)
                      +.+++|+||+.+|||+++.+++.++.+
T Consensus        41 ~~~~iiTGpN~~GKSt~lk~i~l~~~l   67 (234)
T d1wb9a2          41 RRMLIITGPNMGGKSTYMRQTALIALM   67 (234)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             ceEEEEeccCchhhHHHHHHHHHHHHH
Confidence            578999999999999999999888655

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=97.35  E-value=0.00028  Score=53.78  Aligned_cols=53  Identities=13%  Similarity=0.026  Sum_probs=33.9

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHc
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERF  184 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~  184 (352)
                      +..|..+.|.+|+|+|||..+...+......     .+..++++...    .....+..+.+
T Consensus         4 l~~~~~~il~~~tGsGKT~~~~~~~~~~~~~-----~~~~vli~~p~----~~l~~q~~~~~   56 (140)
T d1yksa1           4 LKKGMTTVLDFHPGAGKTRRFLPQILAECAR-----RRLRTLVLAPT----RVVLSEMKEAF   56 (140)
T ss_dssp             TSTTCEEEECCCTTSSTTTTHHHHHHHHHHH-----TTCCEEEEESS----HHHHHHHHHHT
T ss_pred             HHcCCcEEEEcCCCCChhHHHHHHHHHHhhh-----cCceeeeeecc----hhHHHHHHHHh
Confidence            5679999999999999997765443333321     45667777644    33344444443

>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=97.23  E-value=9.4e-05  Score=59.31  Aligned_cols=35  Identities=23%  Similarity=0.042  Sum_probs=26.6

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeC
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDT  168 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~  168 (352)
                      .+.|+||||+|||||+.+++.....      .+..+.++.+
T Consensus         3 ~v~ItG~~GtGKTtl~~~i~~~l~~------~~~~v~~~~~   37 (189)
T d2i3ba1           3 HVFLTGPPGVGKTTLIHKASEVLKS------SGVPVDGFYT   37 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHHHH------TTCCCEEEEC
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHH------CCCEEEEEEe
Confidence            5789999999999999999877654      3444555443

>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=97.19  E-value=0.00024  Score=57.20  Aligned_cols=24  Identities=17%  Similarity=0.159  Sum_probs=21.0

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHH
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la  147 (352)
                      +.-.+++++|+|||||||++.+++
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~   35 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHL   35 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHT
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHH
Confidence            456799999999999999998774

>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=97.11  E-value=0.00034  Score=60.85  Aligned_cols=45  Identities=18%  Similarity=0.122  Sum_probs=38.4

Q ss_pred             cccccCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcC
Q 047388          106 IKITTGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQL  152 (352)
Q Consensus       106 ~~i~TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~  152 (352)
                      ....+|...+|-++  -+-+|+-..|+|++|+|||+|+.+++.+...
T Consensus        25 ~~~~~~~r~ID~l~--PigrGQr~~I~g~~g~GKT~l~~~i~~~~~~   69 (289)
T d1xpua3          25 STEDLTARVLDLAS--PIGRGQRGLIVAPPKAGKTMLLQNIAQSIAY   69 (289)
T ss_dssp             CSTHHHHHHHHHHS--CCBTTCEEEEEECSSSSHHHHHHHHHHHHHH
T ss_pred             Ccccccceeeeecc--cccCCCeeeEeCCCCCCHHHHHHHHHHHHhh
Confidence            34567788999887  5779999999999999999999999987654

>d1doqa_ a.60.3.1 (A:) C-terminal domain of RNA polymerase alpha subunit {Thermus thermophilus [TaxId: 274]}

class: All alpha proteins
fold: SAM domain-like
superfamily: C-terminal domain of RNA polymerase alpha subunit
family: C-terminal domain of RNA polymerase alpha subunit
domain: C-terminal domain of RNA polymerase alpha subunit
species: Thermus thermophilus [TaxId: 274]

Probab=97.10  E-value=0.00075  Score=45.34  Aligned_cols=60  Identities=33%  Similarity=0.511  Sum_probs=51.1

Q ss_pred             cchhhhcHHHHHhCCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHHH
Q 047388           24 EEDLFEAIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEK   86 (352)
Q Consensus        24 ~~~~~~~~~~l~~~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~   86 (352)
                      ++...++|+.|   +|+++....|+++||.|+.|++..+..+|.++.+++...+.++.+...+
T Consensus         3 ~~~L~~~I~~L---~LS~R~~N~L~~~gI~tv~dL~~~s~~dLl~i~n~G~ksl~EI~~~L~~   62 (69)
T d1doqa_           3 EEELDLPLEEL---GLSTRVLHSLKEEGIESVRALLALNLKDLKNIPGIGERSLEEIKEALEK   62 (69)
T ss_dssp             CSSCCCCHHHH---TCCHHHHHHHHHTTCCSHHHHHHSCHHHHTTSTTCCHHHHHHHHHHHHH
T ss_pred             hhHhCCcHHHc---CCCHHHHHHHHHcCCccHHHHHHCCHHHHHhCCCCCHHHHHHHHHHHHH
Confidence            34456678776   7999999999999999999999999999999999999877777665543

>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=97.06  E-value=0.00012  Score=59.61  Aligned_cols=31  Identities=26%  Similarity=0.246  Sum_probs=26.3

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHHhcC
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVCTQL  152 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~  152 (352)
                      +|+ +|-++.|+|+|||||||++..++.....
T Consensus        15 ~~~-~g~vI~L~G~pGSGKTTiAk~La~~l~~   45 (195)
T d1x6va3          15 GGF-RGCTVWLTGLSGAGKTTVSMALEEYLVC   45 (195)
T ss_dssp             CSC-CCEEEEEESSCHHHHHHHHHHHHHHHHH
T ss_pred             cCC-CCeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            466 6889999999999999999988876544

>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=97.06  E-value=0.0032  Score=52.97  Aligned_cols=25  Identities=24%  Similarity=0.088  Sum_probs=20.9

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcC
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQL  152 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~  152 (352)
                      .++|+||||+|||++++.++.....
T Consensus        36 ~~Ll~Gp~G~GKtt~a~~~~~~l~~   60 (239)
T d1njfa_          36 AYLFSGTRGVGKTSIARLLAKGLNC   60 (239)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHC
T ss_pred             eEEEECCCCCcHHHHHHHHHHHhcC
Confidence            5789999999999999987766543

>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=97.05  E-value=0.00016  Score=57.54  Aligned_cols=26  Identities=23%  Similarity=0.224  Sum_probs=23.4

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      |++-.+.|+|+|||||||++..|+..
T Consensus         3 pk~~~I~i~G~~GsGKTT~~~~La~~   28 (174)
T d1y63a_           3 PKGINILITGTPGTGKTSMAEMIAAE   28 (174)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHHH
Confidence            67888999999999999999988765

>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=97.02  E-value=0.00048  Score=58.03  Aligned_cols=22  Identities=32%  Similarity=0.229  Sum_probs=19.7

Q ss_pred             EEEecCCCCChhHHHHHHHHHh
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ++++||||+|||+++..+|...
T Consensus        38 ~L~~GPpGtGKT~lA~~la~~~   59 (238)
T d1in4a2          38 VLLAGPPGLGKTTLAHIIASEL   59 (238)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHhcc
Confidence            7899999999999999888764

>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=97.02  E-value=0.00017  Score=56.17  Aligned_cols=22  Identities=27%  Similarity=0.264  Sum_probs=19.4

Q ss_pred             cEEEEecCCCCChhHHHHHHHH
Q 047388          127 AITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      .++.|+|+|||||||++..++.
T Consensus         3 klIii~G~pGsGKTTla~~L~~   24 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIA   24 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4788999999999999998764

>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=97.01  E-value=0.00032  Score=55.76  Aligned_cols=37  Identities=19%  Similarity=0.196  Sum_probs=30.3

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      .++.|+|.+|||||||+..++.....      .+.+|..+..+
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L~~------~g~~v~vik~d   38 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAAVR------EGWRVGTVKHH   38 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHH------TTCCEEEEECC
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHh------CCCeEEEEEec
Confidence            47899999999999999999877665      56777777554

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=96.98  E-value=0.0011  Score=55.65  Aligned_cols=26  Identities=15%  Similarity=0.194  Sum_probs=23.3

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhcC
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQL  152 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~~  152 (352)
                      ++++|+||+.+|||+++.+++.+..+
T Consensus        36 ~~~iiTGpN~~GKSt~lk~i~l~~il   61 (224)
T d1ewqa2          36 ELVLITGPNMAGKSTFLRQTALIALL   61 (224)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHHHHHH
T ss_pred             cEEEEECCCccccchhhhhhHHHHHH
Confidence            58999999999999999999888654

>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=96.98  E-value=0.00022  Score=56.85  Aligned_cols=28  Identities=29%  Similarity=0.283  Sum_probs=24.3

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhc
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQ  151 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~  151 (352)
                      .+|-++.|+|.|||||||++..++....
T Consensus         4 ~~g~~I~l~G~~GsGKTTia~~La~~L~   31 (183)
T d1m8pa3           4 TQGFTIFLTGYMNSGKDAIARALQVTLN   31 (183)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            4688999999999999999998886643

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=96.96  E-value=0.00021  Score=56.54  Aligned_cols=23  Identities=17%  Similarity=0.143  Sum_probs=20.6

Q ss_pred             cEEEEecCCCCChhHHHHHHHHH
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .++.|+|+|||||||++..++..
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~   25 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQ   25 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            47899999999999999988765

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=96.96  E-value=0.00045  Score=59.10  Aligned_cols=24  Identities=29%  Similarity=0.141  Sum_probs=20.7

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHh
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ..++++||||||||+++..+|...
T Consensus        33 ~~ilL~GpPGtGKT~la~~la~~~   56 (273)
T d1gvnb_          33 TAFLLGGQPGSGKTSLRSAIFEET   56 (273)
T ss_dssp             EEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHh
Confidence            458899999999999999887653

>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=96.95  E-value=0.00067  Score=51.90  Aligned_cols=36  Identities=14%  Similarity=0.100  Sum_probs=27.1

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      ......|.+|+|+|||+++..++..         .+.+++++...
T Consensus         7 ~~~~~ll~apTGsGKT~~~~~~~~~---------~~~~vli~~P~   42 (136)
T d1a1va1           7 SFQVAHLHAPTGSGKSTKVPAAYAA---------QGYKVLVLNPS   42 (136)
T ss_dssp             SCEEEEEECCTTSCTTTHHHHHHHT---------TTCCEEEEESC
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHH---------cCCcEEEEcCh
Confidence            4567899999999999887655432         46678888764

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=96.93  E-value=0.00045  Score=54.80  Aligned_cols=24  Identities=17%  Similarity=0.155  Sum_probs=21.4

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ..++.|+|+|||||||++..++..
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~   26 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999988765

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.93  E-value=0.00025  Score=56.28  Aligned_cols=26  Identities=23%  Similarity=0.170  Sum_probs=22.9

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      .+.++.|+|+|||||||++..++...
T Consensus         5 ~~~iivl~G~~GsGKsT~a~~La~~l   30 (171)
T d1knqa_           5 DHHIYVLMGVSGSGKSAVASEVAHQL   30 (171)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            57799999999999999999887653

>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=96.92  E-value=0.006  Score=51.13  Aligned_cols=97  Identities=20%  Similarity=0.182  Sum_probs=60.8

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecC-CHH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAY-TYE  204 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~-~~~  204 (352)
                      -...+|+|..|||||..++..+..+..      .+..|+++..+..+.+.......++++.-+    .++...... +..
T Consensus        76 ~~~~LL~GdvGsGKT~V~~~a~~~~~~------~g~qv~~l~Pt~~La~Q~~~~~~~~~~~~~----~~v~~l~~~~~~~  145 (233)
T d2eyqa3          76 AMDRLVCGDVGFGKTEVAMRAAFLAVD------NHKQVAVLVPTTLLAQQHYDNFRDRFANWP----VRIEMISRFRSAK  145 (233)
T ss_dssp             CCEEEEECCCCTTTHHHHHHHHHHHHT------TTCEEEEECSSHHHHHHHHHHHHHHSTTTT----CCEEEESTTSCHH
T ss_pred             ccCeEEEcCCCCCcHHHHHHHHHHHHH------cCCceEEEccHHHhHHHHHHHHHHHHhhCC----CEEEeccCcccch
Confidence            357899999999999999988888776      788999998876555554444444544322    244444332 333


Q ss_pred             HHHHHHHHHH-----------HHh----hcCCceEEEEccccc
Q 047388          205 HQYNLLLGLA-----------AKM----SEEPFRLLIVDSVIA  232 (352)
Q Consensus       205 ~~~~~l~~l~-----------~~l----~~~~~~lvvIDsl~~  232 (352)
                      +..+....+.           ..+    .-.++.+||||+=..
T Consensus       146 ~~~~~~~~~~~g~~~iviGths~l~~~~~f~~LgLiIiDEeH~  188 (233)
T d2eyqa3         146 EQTQILAEVAEGKIDILIGTHKLLQSDVKFKDLGLLIVDEEHR  188 (233)
T ss_dssp             HHHHHHHHHHTTCCSEEEECTHHHHSCCCCSSEEEEEEESGGG
T ss_pred             hHHHHHHHHhCCCCCEEEeehhhhccCCccccccceeeechhh
Confidence            3333333332           112    112678999998543

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=96.91  E-value=0.00027  Score=63.92  Aligned_cols=40  Identities=28%  Similarity=0.194  Sum_probs=33.0

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      -|.|.+..++++||||+|||+||..+|..+         +++++.++..
T Consensus       149 ~~~~~~~~~~~~g~~~~gk~~~~~~~~~~~---------~~~~i~in~s  188 (362)
T d1svma_         149 YNIPKKRYWLFKGPIDSGKTTLAAALLELC---------GGKALNVNLP  188 (362)
T ss_dssp             HCCTTCCEEEEECSTTSSHHHHHHHHHHHH---------CCEEECCSSC
T ss_pred             hCCCCcCeEEEECCCCCCHHHHHHHHHHHc---------CCCEEEEECc
Confidence            589999999999999999999999887653         4566666544

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=96.84  E-value=0.00025  Score=56.24  Aligned_cols=23  Identities=26%  Similarity=0.156  Sum_probs=19.7

Q ss_pred             EEEEecCCCCChhHHHHHHHHHh
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      .+.|+|+|||||||+|..++...
T Consensus         6 ~I~i~G~pGsGKTTia~~La~~l   28 (173)
T d1rkba_           6 NILLTGTPGVGKTTLGKELASKS   28 (173)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            36799999999999999887653

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.83  E-value=0.00041  Score=56.19  Aligned_cols=36  Identities=28%  Similarity=0.227  Sum_probs=26.4

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      ++.|+|++||||||||..++.....      .+..+..++..
T Consensus        24 iIgI~G~~GSGKSTla~~L~~~l~~------~~~~~~~~~~~   59 (198)
T d1rz3a_          24 VLGIDGLSRSGKTTLANQLSQTLRE------QGISVCVFHMD   59 (198)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHH------TTCCEEEEEGG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhcc------ccccceecccc
Confidence            6789999999999999998765443      34445555543

>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=96.83  E-value=0.0021  Score=57.01  Aligned_cols=38  Identities=18%  Similarity=0.081  Sum_probs=28.5

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeC
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDT  168 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~  168 (352)
                      +.-.+.|+|+||+|||||...++.....      .+.+|..+..
T Consensus        53 ~~~~IgitG~pGaGKSTLi~~l~~~~~~------~g~~vavlav   90 (327)
T d2p67a1          53 NTLRLGVTGTPGAGKSTFLEAFGMLLIR------EGLKVAVIAV   90 (327)
T ss_dssp             CSEEEEEEECTTSCHHHHHHHHHHHHHH------TTCCEEEEEE
T ss_pred             CceEEEeeCCCCCCHHHHHHHHHHHHHh------cCCceeeecC
Confidence            3567999999999999999998876554      4455555443

>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=96.81  E-value=0.0013  Score=56.54  Aligned_cols=117  Identities=12%  Similarity=0.106  Sum_probs=64.6

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcCCCccCC-CCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCCHH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRG-GNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYE  204 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg-~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~  204 (352)
                      ..-++|+|+||+|||.++..+|.......-... .+..++.++...-..           |.              ....
T Consensus        39 k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~lia-----------g~--------------~~~g   93 (268)
T d1r6bx2          39 KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLA-----------GT--------------KYRG   93 (268)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---C-----------CC--------------CCSS
T ss_pred             cCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhc-----------cC--------------ccch
Confidence            456789999999999999998876553110000 223333333321100           00              0011


Q ss_pred             HHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEccc
Q 047388          205 HQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQV  275 (352)
Q Consensus       205 ~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h~  275 (352)
                      ++.+.+..+...+...+--+++||.+..++...-++.++.        .+.+.|+-+..+-.+.+|.++..
T Consensus        94 ~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~--------d~a~~Lkp~L~rg~i~vIgatT~  156 (268)
T d1r6bx2          94 DFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQV--------DAANLIKPLLSSGKIRVIGSTTY  156 (268)
T ss_dssp             CHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHH--------HHHHHHSSCSSSCCCEEEEEECH
T ss_pred             hHHHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCccc--------cHHHHhhHHHhCCCCeEEEeCCH
Confidence            2223333444455555666888999999986533221211        45666775555667888876553

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=96.78  E-value=0.00052  Score=54.89  Aligned_cols=26  Identities=12%  Similarity=-0.036  Sum_probs=22.4

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhcC
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQL  152 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~~  152 (352)
                      .++.|.|+|||||||++..++.....
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            58999999999999999988776543

>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=96.78  E-value=0.00029  Score=56.35  Aligned_cols=23  Identities=26%  Similarity=0.348  Sum_probs=20.7

Q ss_pred             cEEEEecCCCCChhHHHHHHHHH
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ..++|.|+||+||||||..|+..
T Consensus         8 K~I~i~G~~GsGKTTla~~La~~   30 (192)
T d1lw7a2           8 KTVAILGGESSGKSVLVNKLAAV   30 (192)
T ss_dssp             EEEEEECCTTSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999998875

>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=96.74  E-value=0.0043  Score=51.07  Aligned_cols=25  Identities=12%  Similarity=-0.145  Sum_probs=21.8

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcC
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQL  152 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~  152 (352)
                      .+++.||+|+|||+++..+|.....
T Consensus        26 ~lLl~Gp~G~GKtt~a~~~a~~l~~   50 (207)
T d1a5ta2          26 ALLIQALPGMGDDALIYALSRYLLC   50 (207)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHTC
T ss_pred             EEEEECCCCCcHHHHHHHHHHhccc
Confidence            4889999999999999999887653

>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=96.66  E-value=0.00069  Score=57.97  Aligned_cols=44  Identities=25%  Similarity=0.236  Sum_probs=27.7

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT  171 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~  171 (352)
                      ++.|+||||+|||+++..++...............+.|++....
T Consensus        48 ~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~   91 (287)
T d1w5sa2          48 IYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNA   91 (287)
T ss_dssp             EEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGC
T ss_pred             EEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccc
Confidence            45678999999999999887664321111112456677765443

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=96.63  E-value=0.0005  Score=53.58  Aligned_cols=22  Identities=18%  Similarity=0.232  Sum_probs=19.3

Q ss_pred             EEEEecCCCCChhHHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .+.|+|+|||||||++..+|..
T Consensus         4 ~I~l~G~~GsGKSTvak~La~~   25 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQQ   25 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4677899999999999988865

>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=0.00053  Score=55.41  Aligned_cols=24  Identities=21%  Similarity=0.223  Sum_probs=21.7

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      |.++.|+||||+||||++..++..
T Consensus         2 G~iivl~GpsG~GK~tl~~~L~~~   25 (182)
T d1znwa1           2 GRVVVLSGPSAVGKSTVVRCLRER   25 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhh
Confidence            889999999999999999887654

>d1xbta1 c.37.1.24 (A:18-150) Thymidine kinase, TK1, 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: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.61  E-value=0.0075  Score=45.94  Aligned_cols=41  Identities=22%  Similarity=0.152  Sum_probs=34.6

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT  171 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~  171 (352)
                      +|.+.+|+||=.||||+-+++.+.+...      .+.+|+.|....+
T Consensus         1 ~G~L~li~GpMfsGKTt~Li~~~~~~~~------~g~~v~~ikp~~D   41 (133)
T d1xbta1           1 RGQIQVILGPMFSGKSTELMRRVRRFQI------AQYKCLVIKYAKD   41 (133)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHHT------TTCCEEEEEETTC
T ss_pred             CcEEEEEEecccCHHHHHHHHHHHHHHH------cCCcEEEEecccc
Confidence            5899999999999999999998887766      5778888876543

>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=96.60  E-value=0.00059  Score=55.38  Aligned_cols=27  Identities=22%  Similarity=0.164  Sum_probs=22.9

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      |+|--+.|.|||||||||.|..||...
T Consensus         1 p~~~riil~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           1 PKGVRAVLLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHHHh
Confidence            567778899999999999999888653

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=96.53  E-value=0.00063  Score=55.37  Aligned_cols=23  Identities=17%  Similarity=0.134  Sum_probs=20.8

Q ss_pred             cEEEEecCCCCChhHHHHHHHHH
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .++.|.|||||||||+|..++..
T Consensus         7 ~iI~i~G~pGSGKsT~a~~La~~   29 (194)
T d1qf9a_           7 NVVFVLGGPGSGKGTQCANIVRD   29 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            58999999999999999988865

>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=96.46  E-value=0.00056  Score=55.80  Aligned_cols=26  Identities=19%  Similarity=0.141  Sum_probs=22.7

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ..+.++.|.|||||||||.|..++..
T Consensus         6 ~~~~iI~l~G~pGSGKsT~a~~La~~   31 (194)
T d3adka_           6 KKSKIIFVVGGPGSGKGTQCEKIVQK   31 (194)
T ss_dssp             HTSCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            35678999999999999999988764

>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=96.46  E-value=0.0046  Score=52.16  Aligned_cols=54  Identities=19%  Similarity=0.076  Sum_probs=35.4

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChh-hHHHHHHHcC
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPD-RIVPIAERFG  185 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~-rl~~~~~~~~  185 (352)
                      ..+.|+||||+|||+++..++......     ....++++......... .+.......+
T Consensus        44 ~~lll~GppGtGKT~l~~~l~~~l~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (276)
T d1fnna2          44 PRATLLGRPGTGKTVTLRKLWELYKDK-----TTARFVYINGFIYRNFTAIIGEIARSLN   98 (276)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHTTS-----CCCEEEEEETTTCCSHHHHHHHHHHHTT
T ss_pred             CceEEECCCCCCHHHHHHHHHHHHhcc-----cCCcEEEecchhhhhhhhhhhhhHHhhh
Confidence            468899999999999999888765432     34567777665443332 2333444443

>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=96.45  E-value=0.0019  Score=54.25  Aligned_cols=23  Identities=35%  Similarity=0.314  Sum_probs=19.9

Q ss_pred             EEEecCCCCChhHHHHHHHHHhc
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCTQ  151 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~~  151 (352)
                      ++++||||+|||+++..++....
T Consensus        38 ~Ll~GPpG~GKTtla~~la~~~~   60 (239)
T d1ixsb2          38 LLLFGPPGLGKTTLAHVIAHELG   60 (239)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            67999999999999998887643

>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=96.44  E-value=0.0088  Score=48.58  Aligned_cols=116  Identities=16%  Similarity=0.123  Sum_probs=60.4

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCC-CCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCCH
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRG-GNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTY  203 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg-~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~  203 (352)
                      ...-.+|+|+||+|||+++..+|.......-... .+..++.+|..      ++  ++   |.              ...
T Consensus        42 ~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~------~L--iA---g~--------------~~r   96 (195)
T d1jbka_          42 TKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMG------AL--VA---GA--------------KYR   96 (195)
T ss_dssp             SSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHH------HH--HT---TT--------------CSH
T ss_pred             CCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHH------HH--hc---cC--------------Ccc
Confidence            3456889999999999999998876543110000 12333332221      11  10   11              112


Q ss_pred             HHHHHHHHHHHHHhhcC-CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcc
Q 047388          204 EHQYNLLLGLAAKMSEE-PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQ  274 (352)
Q Consensus       204 ~~~~~~l~~l~~~l~~~-~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h  274 (352)
                      .++.+.+..+...+... +--+++||++..++...-+ .+.+        .+.+.|+-+..+-.+.+|.++.
T Consensus        97 G~~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~-~g~~--------d~~~~Lkp~L~rg~l~~IgatT  159 (195)
T d1jbka_          97 GEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKA-DGAM--------DAGNMLKPALARGELHCVGATT  159 (195)
T ss_dssp             HHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT-------CC--------CCHHHHHHHHHTTSCCEEEEEC
T ss_pred             HHHHHHHHHHHHHHhcCCCcEEEEcchHHHHhcCCCC-CCcc--------cHHHHHHHHHhCCCceEEecCC
Confidence            23334444444444333 3457899999999754221 1111        2345566655566788887654

>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus type 2 [TaxId: 11060]}

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: Dengue virus helicase
species: Dengue virus type 2 [TaxId: 11060]

Probab=96.43  E-value=0.0025  Score=55.23  Aligned_cols=53  Identities=9%  Similarity=-0.058  Sum_probs=35.4

Q ss_pred             CCCCCcEEEEecCCCCChhH-HHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHc
Q 047388          122 GIETGAITEAFGEFRSGKTQ-LAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERF  184 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTt-l~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~  184 (352)
                      -+.+|..+.+.+|+|||||+ ++..++.....      .+.+++|+...    ..-..++++++
T Consensus         5 ~~~~~~~~lv~~~TGsGKT~~~l~~~~~~~~~------~~~~~lvi~Pt----r~La~q~~~~l   58 (305)
T d2bmfa2           5 IFRKKRLTIMDLHPGAGKTKRYLPAIVREAIK------RGLRTLILAPT----RVVAAEMEEAL   58 (305)
T ss_dssp             SSSTTCEEEECCCTTSSTTTTHHHHHHHHHHH------HTCCEEEEESS----HHHHHHHHHHT
T ss_pred             HhhcCCcEEEEECCCCCHHHHHHHHHHHHHHh------cCCEEEEEccH----HHHHHHHHHHH
Confidence            36789999999999999995 44444433333      35678988653    33445566654

>d2b8ta1 c.37.1.24 (A:11-149) Thymidine kinase, TK1, N-terminal domain {Ureaplasma urealyticum [TaxId: 2130]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Ureaplasma urealyticum [TaxId: 2130]

Probab=96.41  E-value=0.0011  Score=51.18  Aligned_cols=40  Identities=18%  Similarity=0.013  Sum_probs=33.5

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT  171 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~  171 (352)
                      |.+..|+||=.||||+-++..+.+...      .+.+|+.|....+
T Consensus         2 G~L~~i~GpMfsGKTteLi~~~~~~~~------~~~kv~~ikp~~D   41 (139)
T d2b8ta1           2 GWIEFITGPMFAGKTAELIRRLHRLEY------ADVKYLVFKPKID   41 (139)
T ss_dssp             CEEEEEECSTTSCHHHHHHHHHHHHHH------TTCCEEEEEECCC
T ss_pred             cEEEEEEccccCHHHHHHHHHHHHHHH------CCCcEEEEEEccc
Confidence            789999999999999988888777665      5778988877644

>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=96.38  E-value=0.015  Score=47.33  Aligned_cols=43  Identities=23%  Similarity=0.092  Sum_probs=29.5

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      .+.-+.+.|+||+|||+++..++........   ....++++..++
T Consensus        14 ~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~---~h~D~~~i~~~~   56 (198)
T d2gnoa2          14 EGISILINGEDLSYPREVSLELPEYVEKFPP---KASDVLEIDPEG   56 (198)
T ss_dssp             SSEEEEEECSSSSHHHHHHHHHHHHHHTSCC---CTTTEEEECCSS
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHhcccc---CCCCEEEEeCCc
Confidence            3568999999999999999988865433111   122466666553

>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=96.35  E-value=0.0011  Score=58.55  Aligned_cols=28  Identities=21%  Similarity=0.254  Sum_probs=22.0

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      +.|++. ++++||||||||.||.++|...
T Consensus        46 ~~~~~~-iLl~GPpG~GKT~lAkalA~~~   73 (309)
T d1ofha_          46 EVTPKN-ILMIGPTGVGKTEIARRLAKLA   73 (309)
T ss_dssp             HCCCCC-EEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCCce-EEEECCCCCCHHHHHHHHhhcc
Confidence            335544 4689999999999999988764

>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=96.34  E-value=0.0016  Score=52.11  Aligned_cols=35  Identities=14%  Similarity=-0.015  Sum_probs=26.9

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEe
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYID  167 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~  167 (352)
                      .+++|.|+|||||||++..++.....      .+..+..++
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L~~------~~~~~~~~~   36 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEILDN------QGINNKIIN   36 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHT------TTCCEEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH------cCCCEEEEE
Confidence            47899999999999999988766543      455565555

>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=96.31  E-value=0.001  Score=55.09  Aligned_cols=41  Identities=22%  Similarity=0.075  Sum_probs=31.0

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      ..|.++.|+|.|||||||++..++......     .+..+++++++
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~~l~~~-----~~~~~~~ldgD   62 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEHQLVRD-----RRVHAYRLDGD   62 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHHHHH-----HCCCEEEECHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHh-----cCceEEEEcch
Confidence            578899999999999999999887654321     23467777665

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.29  E-value=0.0011  Score=54.00  Aligned_cols=25  Identities=16%  Similarity=0.106  Sum_probs=21.6

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHH
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .-.++.|.|||||||||+|..++..
T Consensus         7 ~~~iI~i~GppGSGKsT~a~~La~~   31 (196)
T d1ukza_           7 QVSVIFVLGGPGAGKGTQCEKLVKD   31 (196)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            4458999999999999999988764

>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=96.27  E-value=0.00097  Score=53.41  Aligned_cols=22  Identities=18%  Similarity=0.135  Sum_probs=19.5

Q ss_pred             EEEecCCCCChhHHHHHHHHHh
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      +.|.|+|||||||+|..+|...
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6799999999999999887654

>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=96.27  E-value=0.0032  Score=51.94  Aligned_cols=39  Identities=18%  Similarity=0.192  Sum_probs=30.8

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeC
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDT  168 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~  168 (352)
                      ++|-++.|.|+.||||||++..++.....      .+.+|+++..
T Consensus         1 ~rG~lI~ieG~dGsGKsT~~~~L~~~L~~------~g~~v~~~~~   39 (209)
T d1nn5a_           1 RRGALIVLEGVDRAGKSTQSRKLVEALCA------AGHRAELLRF   39 (209)
T ss_dssp             CCCCEEEEEESTTSSHHHHHHHHHHHHHH------TTCCEEEEES
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHHHHHHH------CCCcEEEEeC
Confidence            46889999999999999999987765544      4667777653

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.22  E-value=0.0011  Score=53.69  Aligned_cols=22  Identities=14%  Similarity=0.125  Sum_probs=19.9

Q ss_pred             EEEEecCCCCChhHHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ++.|.|||||||||.|..+|..
T Consensus         3 iI~i~GppGSGKsT~a~~La~~   24 (194)
T d1teva_           3 VVFVLGGPGAGKGTQCARIVEK   24 (194)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999988765

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.21  E-value=0.0013  Score=54.25  Aligned_cols=23  Identities=17%  Similarity=0.226  Sum_probs=20.2

Q ss_pred             EEEEecCCCCChhHHHHHHHHHh
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ++.|+|++|||||||+..++...
T Consensus         4 iIgI~G~~gSGKSTla~~L~~~l   26 (213)
T d1uj2a_           4 LIGVSGGTASGKSSVCAKIVQLL   26 (213)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            68899999999999999887654

>d1lb2b_ a.60.3.1 (B:) C-terminal domain of RNA polymerase alpha subunit {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: SAM domain-like
superfamily: C-terminal domain of RNA polymerase alpha subunit
family: C-terminal domain of RNA polymerase alpha subunit
domain: C-terminal domain of RNA polymerase alpha subunit
species: Escherichia coli [TaxId: 562]

Probab=96.15  E-value=0.0037  Score=42.13  Aligned_cols=51  Identities=14%  Similarity=0.131  Sum_probs=44.6

Q ss_pred             HhCCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHH
Q 047388           35 ISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAE   85 (352)
Q Consensus        35 ~~~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~   85 (352)
                      ....++.+....|+++||.|+.|++..+..+|.++.+++..-+.++.+...
T Consensus         9 ~~L~lS~R~~N~L~~~gI~tvgdL~~~s~~dLl~~~n~G~KSl~EI~~~L~   59 (72)
T d1lb2b_           9 DDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLA   59 (72)
T ss_dssp             GGGCCCHHHHHHHHHTTCCBHHHHHTCCHHHHHHSTTCCHHHHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHhHcCCcCHHHHHhCCHHHHHhCCCCcHhHHHHHHHHHH
Confidence            446899999999999999999999999999999999999877776655444

>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=96.15  E-value=0.015  Score=52.76  Aligned_cols=40  Identities=15%  Similarity=0.038  Sum_probs=29.2

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT  171 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~  171 (352)
                      .++.+++|+||+||||||++..++.....      ...+  +++.|++
T Consensus       156 ~~~GliLvtGpTGSGKSTTl~~~l~~~~~------~~~~--i~tiEdP  195 (401)
T d1p9ra_         156 RPHGIILVTGPTGSGKSTTLYAGLQELNS------SERN--ILTVEDP  195 (401)
T ss_dssp             SSSEEEEEECSTTSCHHHHHHHHHHHHCC------TTSC--EEEEESS
T ss_pred             hhhceEEEEcCCCCCccHHHHHHhhhhcC------CCce--EEEeccC
Confidence            35669999999999999999988766533      2234  3566665

>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=96.12  E-value=0.0027  Score=53.83  Aligned_cols=26  Identities=23%  Similarity=0.190  Sum_probs=22.4

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      .+.++.|+|++|+|||+|+.+++...
T Consensus        28 ~~~~i~i~G~~G~GKTsLl~~~~~~~   53 (283)
T d2fnaa2          28 RAPITLVLGLRRTGKSSIIKIGINEL   53 (283)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             cCCEEEEEcCCCCcHHHHHHHHHHHC
Confidence            45789999999999999999887653

>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=96.12  E-value=0.0015  Score=53.86  Aligned_cols=25  Identities=20%  Similarity=0.226  Sum_probs=22.3

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHH
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .|.++.|+||||+|||||+..++..
T Consensus         1 ~G~livi~GPSG~GK~tl~~~L~~~   25 (205)
T d1s96a_           1 QGTLYIVSAPSGAGKSSLIQALLKT   25 (205)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhh
Confidence            4889999999999999999988764

>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=96.10  E-value=0.0013  Score=53.32  Aligned_cols=23  Identities=17%  Similarity=-0.016  Sum_probs=19.6

Q ss_pred             EEEEecCCCCChhHHHHHHHHHh
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      .+.|.|||||||||+|..|+...
T Consensus         5 ~I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           5 KVMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             CEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            36799999999999999887654

>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=96.08  E-value=0.0014  Score=52.63  Aligned_cols=22  Identities=23%  Similarity=0.101  Sum_probs=19.5

Q ss_pred             EEEecCCCCChhHHHHHHHHHh
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      +.|.|+|||||||+|..|+...
T Consensus         3 I~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           3 VLLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6788999999999999988664

>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=96.07  E-value=0.0015  Score=52.46  Aligned_cols=23  Identities=17%  Similarity=0.019  Sum_probs=20.1

Q ss_pred             EEEEecCCCCChhHHHHHHHHHh
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      .+.|.|+|||||||+|..||...
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            46789999999999999888764

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Hel308 helicase
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.06  E-value=0.0046  Score=50.44  Aligned_cols=45  Identities=24%  Similarity=0.247  Sum_probs=30.1

Q ss_pred             hhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          114 ALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       114 ~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      .++.++.|     .-+.+++|+|+|||+.+.-.+.....      .+++++|+...
T Consensus        33 ai~~l~~~-----~~~il~apTGsGKT~~a~l~i~~~~~------~~~~vl~l~P~   77 (202)
T d2p6ra3          33 AVEKVFSG-----KNLLLAMPTAAGKTLLAEMAMVREAI------KGGKSLYVVPL   77 (202)
T ss_dssp             HHHHHTTC-----SCEEEECSSHHHHHHHHHHHHHHHHH------TTCCEEEEESS
T ss_pred             HHHHHHcC-----CCEEEEcCCCCchhHHHHHHHHHHhh------ccCcceeeccc
Confidence            46666643     34679999999999876433333333      45689998654

>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=96.05  E-value=0.0069  Score=52.15  Aligned_cols=52  Identities=13%  Similarity=0.105  Sum_probs=35.2

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHH
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIV  178 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~  178 (352)
                      ...++.|+|..|+||||||.+++......  .+.....++|++....++...+.
T Consensus        43 ~~~~v~I~GmgGiGKTtLA~~v~~~~~~~--~~~~f~~~~Wv~vs~~~~~~~l~   94 (277)
T d2a5yb3          43 DSFFLFLHGRAGSGKSVIASQALSKSDQL--IGINYDSIVWLKDSGTAPKSTFD   94 (277)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHCSST--BTTTBSEEEEEECCCCSTTHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHhhhhh--hhhcCceEEEEEecCCCCHHHHH
Confidence            45689999999999999999876542210  01134578898876665554443

>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

Probab=96.03  E-value=0.012  Score=47.52  Aligned_cols=36  Identities=19%  Similarity=0.074  Sum_probs=25.0

Q ss_pred             EEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      +.+++|+|+|||..+..++......     .+++++|+...
T Consensus        26 ~lv~~pTGsGKT~i~~~~~~~~~~~-----~~~~il~i~P~   61 (200)
T d1wp9a1          26 CLIVLPTGLGKTLIAMMIAEYRLTK-----YGGKVLMLAPT   61 (200)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHHH-----SCSCEEEECSS
T ss_pred             eEEEeCCCCcHHHHHHHHHHHHHHh-----cCCcEEEEcCc
Confidence            5688999999998766555443321     35678998754

>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=96.03  E-value=0.0017  Score=53.45  Aligned_cols=25  Identities=20%  Similarity=0.235  Sum_probs=21.9

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcC
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQL  152 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~  152 (352)
                      ++.|.|||||||||.|..++-..-+
T Consensus         5 iI~I~GppGSGKgT~ak~La~~~gl   29 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMAEALQW   29 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            8999999999999999999876543

>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=96.02  E-value=0.0035  Score=52.31  Aligned_cols=33  Identities=36%  Similarity=0.411  Sum_probs=25.4

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEe
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYID  167 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~  167 (352)
                      ++.|+|++|||||||+..+.....       .+..+..++
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~~-------~~~~~~ivn   34 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYLE-------DNYKVAYVN   34 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHT-------TTSCEEEEE
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh-------hCCeEEEEe
Confidence            689999999999999998876542       344566664

>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=96.00  E-value=0.0016  Score=53.00  Aligned_cols=22  Identities=18%  Similarity=0.206  Sum_probs=19.2

Q ss_pred             EEEEecCCCCChhHHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+.|.|+|||||||+|..+|..
T Consensus         8 rIiliG~PGSGKtT~a~~La~~   29 (189)
T d2ak3a1           8 RAAIMGAPGSGKGTVSSRITKH   29 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4678899999999999998865

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.97  E-value=0.0017  Score=52.20  Aligned_cols=21  Identities=24%  Similarity=0.099  Sum_probs=18.4

Q ss_pred             EEEecCCCCChhHHHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~  149 (352)
                      +.|.|+|||||||+|..++..
T Consensus         5 Ivl~G~pGSGKtT~a~~La~~   25 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQER   25 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            567899999999999988765

>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=95.95  E-value=0.0027  Score=55.67  Aligned_cols=44  Identities=25%  Similarity=0.276  Sum_probs=31.9

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCCh
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRP  174 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~  174 (352)
                      -++.|+|++||||||||..+.......    ..+.+|..+++++-+-+
T Consensus        81 ~iIGIaG~sgSGKSTla~~L~~lL~~~----~~~~~v~~Is~D~F~~~  124 (308)
T d1sq5a_          81 YIISIAGSVAVGKSTTARVLQALLSRW----PEHRRVELITTDGFLHP  124 (308)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHTTS----TTCCCEEEEEGGGGBCC
T ss_pred             EEEEEeCCCCCCCcHHHHHHHHHHhhh----cCCCceEEEeeeeeECC
Confidence            489999999999999999776554321    13467888888764433

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=95.93  E-value=0.0017  Score=51.95  Aligned_cols=23  Identities=17%  Similarity=0.014  Sum_probs=19.6

Q ss_pred             EEEEecCCCCChhHHHHHHHHHh
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      .+.|.|||||||||.|..++...
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            36789999999999999888653

>d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Helicase-like "domain" of reverse gyrase
domain: Helicase-like "domain" of reverse gyrase
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=95.92  E-value=0.0062  Score=50.94  Aligned_cols=45  Identities=16%  Similarity=0.106  Sum_probs=32.7

Q ss_pred             hHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          115 LDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       115 LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      ++.+|.     |+-+.+.+|+|+|||..+...+.....      .+.+++|+....
T Consensus        52 i~~~l~-----g~~~~i~apTGsGKT~~~~~~~~~~~~------~~~rvliv~Pt~   96 (237)
T d1gkub1          52 AKRILR-----KESFAATAPTGVGKTSFGLAMSLFLAL------KGKRCYVIFPTS   96 (237)
T ss_dssp             HHHHHT-----TCCEECCCCBTSCSHHHHHHHHHHHHT------TSCCEEEEESCH
T ss_pred             HHHHHC-----CCCEEEEecCCChHHHHHHHHHHHHHH------hcCeEEEEeccH
Confidence            566663     567889999999999877655555444      467899988653

>d1z3eb1 a.60.3.1 (B:245-311) C-terminal domain of RNA polymerase alpha subunit {Bacillus subtilis [TaxId: 1423]}

class: All alpha proteins
fold: SAM domain-like
superfamily: C-terminal domain of RNA polymerase alpha subunit
family: C-terminal domain of RNA polymerase alpha subunit
domain: C-terminal domain of RNA polymerase alpha subunit
species: Bacillus subtilis [TaxId: 1423]

Probab=95.86  E-value=0.011  Score=39.12  Aligned_cols=51  Identities=20%  Similarity=0.283  Sum_probs=44.9

Q ss_pred             HhCCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHH
Q 047388           35 ISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAE   85 (352)
Q Consensus        35 ~~~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~   85 (352)
                      ...++++.....|+++||.|+.|++..+..+|.++.+++...+.++.+...
T Consensus        10 ~~L~LS~R~~N~Lk~~~I~tv~dL~~~s~~dLl~~~nfG~kSl~EIk~~L~   60 (67)
T d1z3eb1          10 EELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKAKLE   60 (67)
T ss_dssp             GGSCCBHHHHHHHHHTTCCBHHHHHTSCHHHHHTSTTCCHHHHHHHHHHHH
T ss_pred             HHhcCCHHHHHHHHHcCCcCHHHHHHCCHHHHHhCCCCchhhHHHHHHHHH
Confidence            446899999999999999999999999999999999999887777765544

>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=95.84  E-value=0.0022  Score=53.50  Aligned_cols=23  Identities=26%  Similarity=-0.000  Sum_probs=20.0

Q ss_pred             EEEEecCCCCChhHHHHHHHHHh
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      .+.|+||||+|||+++..+|...
T Consensus        47 ~lll~Gp~G~GKTtla~~iak~l   69 (231)
T d1iqpa2          47 HLLFAGPPGVGKTTAALALAREL   69 (231)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Confidence            37899999999999999887654

>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=95.82  E-value=0.0036  Score=52.12  Aligned_cols=22  Identities=23%  Similarity=0.135  Sum_probs=19.9

Q ss_pred             EEEecCCCCChhHHHHHHHHHh
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      +.|+||||+|||++++.++..+
T Consensus        36 lll~Gp~G~GKTtl~~~i~~~l   57 (237)
T d1sxjd2          36 MLFYGPPGTGKTSTILALTKEL   57 (237)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCChHHHHHHHHHHH
Confidence            7899999999999999988764

>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=95.78  E-value=0.0022  Score=50.90  Aligned_cols=23  Identities=17%  Similarity=0.104  Sum_probs=19.5

Q ss_pred             EEEEecCCCCChhHHHHHHHHHh
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      .+.|+|+|||||||++..+|...
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~L   26 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARAL   26 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            46688999999999999888654

>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=95.78  E-value=0.0026  Score=52.49  Aligned_cols=25  Identities=20%  Similarity=0.145  Sum_probs=20.9

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcC
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQL  152 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~  152 (352)
                      ++.|.|||||||||.|..||...-.
T Consensus         5 ~IaIdGp~GsGKgT~ak~La~~lg~   29 (223)
T d1q3ta_           5 QIAIDGPASSGKSTVAKIIAKDFGF   29 (223)
T ss_dssp             EEEEECSSCSSHHHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4678899999999999999876543

>d1u9la_ a.60.4.2 (A:) Transcription elongation protein NusA {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: SAM domain-like
superfamily: Rad51 N-terminal domain-like
family: NusA extra C-terminal domains
domain: Transcription elongation protein NusA
species: Escherichia coli [TaxId: 562]

Probab=95.72  E-value=0.013  Score=38.53  Aligned_cols=54  Identities=28%  Similarity=0.298  Sum_probs=48.6

Q ss_pred             HhCCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHHHHh
Q 047388           35 ISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIV   88 (352)
Q Consensus        35 ~~~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~   88 (352)
                      +...+.....+.|..-||.+++++++.+..+|..+-|+...-+..+.+.++..+
T Consensus        10 ~~LdVDe~lA~lLv~EGF~siEeIAyv~~~eL~~IegfDee~a~eL~~RA~~~L   63 (68)
T d1u9la_          10 KYLDIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNAL   63 (68)
T ss_dssp             HHHTCCHHHHHHHHHTTCCCHHHHHHSCHHHHTTSTTCCHHHHHHHHHHHHHHH
T ss_pred             HHcCCcHHHHHHHHHhccCcHHHHhcCCHHHHHHhcccCHHHHHHHHHHHHHHH
Confidence            446899999999999999999999999999999999999988888888777654

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecG helicase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=95.68  E-value=0.0074  Score=51.54  Aligned_cols=52  Identities=17%  Similarity=0.119  Sum_probs=37.9

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHc
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERF  184 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~  184 (352)
                      ...+|.|..|||||..+...+..+..      .+..|+++..+..+.........+.+
T Consensus       105 m~rLL~GdvGSGKT~Va~~a~~~~~~------~g~q~~~m~Pt~~La~Qh~~~~~~~f  156 (264)
T d1gm5a3         105 MNRLLQGDVGSGKTVVAQLAILDNYE------AGFQTAFMVPTSILAIQHYRRTVESF  156 (264)
T ss_dssp             CCCEEECCSSSSHHHHHHHHHHHHHH------HTSCEEEECSCHHHHHHHHHHHHHHH
T ss_pred             ceeeeeccccccccHHHHHHHHHHHh------cccceeEEeehHhhhHHHHHHHHHhh
Confidence            35689999999999999887777666      67889998877554444444444444

>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=95.66  E-value=0.003  Score=49.70  Aligned_cols=23  Identities=30%  Similarity=0.288  Sum_probs=19.5

Q ss_pred             EEEecCCCCChhHHHHHHHHHhc
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCTQ  151 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~~  151 (352)
                      +.|+|+|||||||++..+|...-
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            56779999999999998887643

>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=95.64  E-value=0.0036  Score=51.41  Aligned_cols=27  Identities=15%  Similarity=0.044  Sum_probs=23.5

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhc
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQ  151 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~  151 (352)
                      +|.+++|.|+.||||||++..++....
T Consensus         1 rgkfIviEG~dGsGKsT~~~~L~~~L~   27 (210)
T d4tmka_           1 RSKYIVIEGLEGAGKTTARNVVVETLE   27 (210)
T ss_dssp             CCCEEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            588999999999999999998876544

>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=95.64  E-value=0.0052  Score=52.59  Aligned_cols=39  Identities=18%  Similarity=0.117  Sum_probs=34.7

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      ..++.++|.-|+||||++.++|...+.      .+.+|+.+|...
T Consensus        20 ~~iii~sGKGGVGKTT~a~nLA~~lA~------~G~rVllvD~Dp   58 (279)
T d1ihua2          20 HGLIMLMGKGGVGKTTMAAAIAVRLAD------MGFDVHLTTSDP   58 (279)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHH------TTCCEEEEESCC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHH------CCCcEEEEeCCC
Confidence            568889999999999999999988876      678999999984

>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=95.62  E-value=0.0036  Score=49.30  Aligned_cols=23  Identities=22%  Similarity=0.216  Sum_probs=18.8

Q ss_pred             EEEecCCCCChhHHHHHHHHHhc
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCTQ  151 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~~  151 (352)
                      +.|+|+|||||||++..++...-
T Consensus         4 IvliG~~G~GKSTig~~La~~l~   26 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKALG   26 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            45669999999999998876543

>d1g5ta_ c.37.1.11 (A:) ATP:corrinoid adenosyltransferase CobA {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: RecA protein-like (ATPase-domain)
domain: ATP:corrinoid adenosyltransferase CobA
species: Salmonella typhimurium [TaxId: 90371]

Probab=95.60  E-value=0.035  Score=43.24  Aligned_cols=130  Identities=14%  Similarity=0.118  Sum_probs=71.7

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCCHH
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYE  204 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~  204 (352)
                      +|-+.+.+| +|=||||-|+-+|..++-      .+.+|+++-.--.-...-.....+..+......-..+ +....+.+
T Consensus         2 kG~i~vytG-~GKGKTTAAlG~alRA~G------~G~rV~ivQFlKg~~~~ge~~~~~~~~~~~~~~~~~~-~~~~~~~e   73 (157)
T d1g5ta_           2 RGIIIVFTG-NGKGKTTAAFGTAARAVG------HGKNVGVVQFIKGTWPNGERNLLEPHGVEFQVMATGF-TWETQNRE   73 (157)
T ss_dssp             CCCEEEEES-SSSCHHHHHHHHHHHHHH------TTCCEEEEESSCCSSCCHHHHHHGGGTCEEEECCTTC-CCCGGGHH
T ss_pred             CcEEEEEeC-CCCCcHHHHHHHHHHHhc------CCCEEEEEEEecCCcccchhhhhcccCcEEEEecCCC-cccCCChH
Confidence            455555555 688999999999888764      7889999876432111112233333322211000011 01111122


Q ss_pred             HHH----HHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcc
Q 047388          205 HQY----NLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQ  274 (352)
Q Consensus       205 ~~~----~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h  274 (352)
                      ...    ..+....+.+.+...++||+|++.......+-     ..     .+++..|+.  +-.++-||+|-+
T Consensus        74 ~~~~~a~~~~~~a~~~~~~~~~dllILDEi~~Ai~~gli-----~~-----~~v~~ll~~--rp~~~evVlTGr  135 (157)
T d1g5ta_          74 ADTAACMAVWQHGKRMLADPLLDMVVLDELTYMVAYDYL-----PL-----EEVISALNA--RPGHQTVIITGR  135 (157)
T ss_dssp             HHHHHHHHHHHHHHHHTTCTTCSEEEEETHHHHHHTTSS-----CH-----HHHHHHHHT--SCTTCEEEEECS
T ss_pred             HHHHHHHHHHHHHHHHhhcCccCEEeHHHHHHHHHcCCC-----CH-----HHHHHHHHh--CCCCCEEEEECC
Confidence            221    22334445566678999999999887765442     21     266666654  345778888744

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=95.58  E-value=0.0019  Score=56.02  Aligned_cols=37  Identities=19%  Similarity=0.214  Sum_probs=25.5

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      ++.|+|+|||||||++..+......      .+-+++.++..+
T Consensus         6 IIgIaG~SGSGKTTva~~l~~i~~~------~~v~~~iI~~Ds   42 (288)
T d1a7ja_           6 IISVTGSSGAGTSTVKHTFDQIFRR------EGVKAVSIEGDA   42 (288)
T ss_dssp             EEEEESCC---CCTHHHHHHHHHHH------HTCCEEEEEGGG
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHhh------cCCCeEEEeCCC
Confidence            8999999999999999977654332      345677887764

>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=95.54  E-value=0.0028  Score=53.38  Aligned_cols=23  Identities=17%  Similarity=0.122  Sum_probs=20.6

Q ss_pred             EEEecCCCCChhHHHHHHHHHhc
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCTQ  151 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~~  151 (352)
                      +.|+||||+|||+++..++....
T Consensus        36 lll~Gp~G~GKTt~~~~la~~l~   58 (252)
T d1sxje2          36 LLLYGPNGTGKKTRCMALLESIF   58 (252)
T ss_dssp             EEEECSTTSSHHHHHHTHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHhhc
Confidence            78999999999999999987754

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=95.54  E-value=0.0047  Score=51.45  Aligned_cols=33  Identities=30%  Similarity=0.433  Sum_probs=27.6

Q ss_pred             cCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHH
Q 047388          110 TGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       110 TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la  147 (352)
                      .|++.|-..|     .|.++.++|+||+|||||+..+.
T Consensus        84 ~g~~~L~~~l-----~~kt~~~~G~SGVGKSTLiN~L~  116 (225)
T d1u0la2          84 MGIEELKEYL-----KGKISTMAGLSGVGKSSLLNAIN  116 (225)
T ss_dssp             TTHHHHHHHH-----SSSEEEEECSTTSSHHHHHHHHS
T ss_pred             hhHhhHHHHh-----cCCeEEEECCCCCCHHHHHHhhc
Confidence            5667777766     47899999999999999998774

>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=95.54  E-value=0.0055  Score=50.74  Aligned_cols=23  Identities=26%  Similarity=0.053  Sum_probs=19.7

Q ss_pred             EEEecCCCCChhHHHHHHHHHhc
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCTQ  151 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~~  151 (352)
                      +.|+||||+|||+++..++....
T Consensus        39 ~ll~Gp~G~GKTt~a~~la~~l~   61 (224)
T d1sxjb2          39 MIISGMPGIGKTTSVHCLAHELL   61 (224)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCchhhHHHHHHHHh
Confidence            68999999999999998876543

>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=95.52  E-value=0.079  Score=41.04  Aligned_cols=22  Identities=14%  Similarity=0.212  Sum_probs=19.2

Q ss_pred             EEEecCCCCChhHHHHHHHHHh
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ++|+|.+|+|||+|+..++..-
T Consensus         7 i~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999999987653

>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=95.51  E-value=0.023  Score=51.13  Aligned_cols=115  Identities=12%  Similarity=0.059  Sum_probs=50.7

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcCCCccCC-CCCeEEEEeCCCCCChhhHHHHHHHcCCCcccccccEEEEecCCHH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRG-GNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYE  204 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg-~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~~~  204 (352)
                      ..-.+|+|+||+|||.++..+|..+....-... .+..++.+|...-      ..-+              .+     ..
T Consensus        43 k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l------~ag~--------------~~-----~g   97 (387)
T d1qvra2          43 KNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSL------LAGA--------------KY-----RG   97 (387)
T ss_dssp             CCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC------------------------------------
T ss_pred             CCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhh------hccc--------------Cc-----ch
Confidence            444688899999999999887765433111111 2344444444321      0000              00     11


Q ss_pred             HHHHHHHHHHHHhhcC-CceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEEEEcc
Q 047388          205 HQYNLLLGLAAKMSEE-PFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVYMTNQ  274 (352)
Q Consensus       205 ~~~~~l~~l~~~l~~~-~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~viv~~h  274 (352)
                      ++.+.+..+...+... +.-+++||++..++...-+ .|+        ..+.+.|+-+..+-.+.+|.++.
T Consensus        98 ~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~-~g~--------~d~a~~Lkp~L~rg~~~~I~~tT  159 (387)
T d1qvra2          98 EFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKA-EGA--------VDAGNMLKPALARGELRLIGATT  159 (387)
T ss_dssp             CHHHHHHHHHHHHHTTCSSEEEEECCC----------------------------HHHHHTTCCCEEEEEC
T ss_pred             hHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCC-CCc--------ccHHHHHHHHHhCCCcceeeecC
Confidence            1222233333334334 3456899999999764211 111        14566677766667788887655

>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=95.50  E-value=0.1  Score=40.65  Aligned_cols=21  Identities=24%  Similarity=0.251  Sum_probs=19.1

Q ss_pred             EEEecCCCCChhHHHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~  149 (352)
                      +++.|.+|+|||+|+.++..+
T Consensus         8 I~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998765

>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=95.46  E-value=0.0053  Score=50.83  Aligned_cols=22  Identities=23%  Similarity=0.144  Sum_probs=19.6

Q ss_pred             EEEecCCCCChhHHHHHHHHHh
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      +.|+||||+|||+++..+|...
T Consensus        38 lLl~Gp~G~GKttl~~~la~~l   59 (227)
T d1sxjc2          38 LLFYGPPGTGKTSTIVALAREI   59 (227)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCChhHHHHHHHHHh
Confidence            6799999999999999888764

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.42  E-value=0.0036  Score=50.52  Aligned_cols=22  Identities=23%  Similarity=0.157  Sum_probs=19.4

Q ss_pred             EEEEecCCCCChhHHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .++|+||||+||||++..++..
T Consensus         3 pIvl~GpsG~GK~tl~~~L~~~   24 (186)
T d1gkya_           3 PIVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHh
Confidence            3789999999999999988765

>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=95.42  E-value=0.0067  Score=50.23  Aligned_cols=39  Identities=28%  Similarity=0.298  Sum_probs=32.8

Q ss_pred             CcEEEEe-cCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          126 GAITEAF-GEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       126 G~i~~I~-G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      |.++.++ +..|+||||++.++|...+.      .+.+|+++|.+.
T Consensus         2 ~~vIav~~~kGGvGKTtia~nLA~~la~------~g~~VlliD~D~   41 (237)
T d1g3qa_           2 GRIISIVSGKGGTGKTTVTANLSVALGD------RGRKVLAVDGDL   41 (237)
T ss_dssp             CEEEEEECSSTTSSHHHHHHHHHHHHHH------TTCCEEEEECCT
T ss_pred             CeEEEEECCCCCCcHHHHHHHHHHHHHh------CCCCEEEEeCCC
Confidence            5566666 88999999999999998876      678999999864

>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=95.41  E-value=0.2  Score=38.57  Aligned_cols=21  Identities=19%  Similarity=0.216  Sum_probs=19.0

Q ss_pred             EEEecCCCCChhHHHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ++|+|++|+|||+|+.+++.+
T Consensus         6 i~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           6 VVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            689999999999999998765

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.40  E-value=0.0037  Score=50.70  Aligned_cols=22  Identities=23%  Similarity=0.129  Sum_probs=19.2

Q ss_pred             EEEEecCCCCChhHHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .++|+||||+||||++..++..
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~   23 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQE   23 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHh
Confidence            3789999999999999988765

>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=95.37  E-value=0.12  Score=39.95  Aligned_cols=22  Identities=23%  Similarity=0.291  Sum_probs=19.3

Q ss_pred             EEEecCCCCChhHHHHHHHHHh
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ++|.|++|+|||+|+.+++.+-
T Consensus         7 ivlvG~~~vGKTsli~~~~~~~   28 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEKK   28 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999999987653

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=95.36  E-value=0.0045  Score=47.75  Aligned_cols=22  Identities=23%  Similarity=0.131  Sum_probs=19.5

Q ss_pred             EEEecCCCCChhHHHHHHHHHh
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ++|+|+||+|||+|+..++.+-
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6799999999999999987663

>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=95.33  E-value=0.092  Score=40.41  Aligned_cols=22  Identities=27%  Similarity=0.250  Sum_probs=19.2

Q ss_pred             EEEecCCCCChhHHHHHHHHHh
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ++|.|.+|+|||+|+.++..+-
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~~   24 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYDS   24 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999999987653

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=95.32  E-value=0.0065  Score=51.77  Aligned_cols=38  Identities=11%  Similarity=0.126  Sum_probs=33.3

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      ..+.|+|.-|+||||++.++|...+.      .+.+|+.||.+.
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~LA~------~G~rVllID~D~   39 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGLHA------MGKTIMVVGCDP   39 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHT------TTCCEEEEEECT
T ss_pred             CEEEEECCCcCCHHHHHHHHHHHHHh------CCCcEEEEecCC
Confidence            35778999999999999999999887      688999999873

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=95.29  E-value=0.004  Score=50.21  Aligned_cols=20  Identities=35%  Similarity=0.409  Sum_probs=17.8

Q ss_pred             EEEEecCCCCChhHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la  147 (352)
                      ++.|+|++||||||+|..+.
T Consensus         5 IIgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           5 IIGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             EEEEEECTTSCHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            78899999999999998663

>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=95.28  E-value=0.24  Score=38.11  Aligned_cols=22  Identities=18%  Similarity=0.235  Sum_probs=19.2

Q ss_pred             EEEecCCCCChhHHHHHHHHHh
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      +++.|++|+|||+|+.++...-
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~~   27 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            5789999999999999987653

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.27  E-value=0.0051  Score=49.32  Aligned_cols=24  Identities=17%  Similarity=0.232  Sum_probs=20.8

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ..+++|+||||+|||||+..++..
T Consensus         3 ~k~ivl~Gpsg~GK~tl~~~L~~~   26 (178)
T d1kgda_           3 RKTLVLLGAHGVGRRHIKNTLITK   26 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHh
Confidence            457999999999999999988754

>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=95.27  E-value=0.0065  Score=47.63  Aligned_cols=29  Identities=21%  Similarity=0.258  Sum_probs=25.7

Q ss_pred             CCCCcEEEEecCCCCChhHHHHHHHHHhc
Q 047388          123 IETGAITEAFGEFRSGKTQLAHTLCVCTQ  151 (352)
Q Consensus       123 l~~G~i~~I~G~~GsGKTtl~~~la~~~~  151 (352)
                      .++|.++.+.|+=|+|||||+..++...-
T Consensus        30 ~~~g~ii~L~G~LGaGKTtfvr~~~~~lg   58 (158)
T d1htwa_          30 TEKAIMVYLNGDLGAGKTTLTRGMLQGIG   58 (158)
T ss_dssp             CSSCEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CCCCeEEEEecCCCccHHHHHHHHHhhcc
Confidence            46899999999999999999999987643

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=95.25  E-value=0.0063  Score=53.69  Aligned_cols=44  Identities=18%  Similarity=0.077  Sum_probs=30.1

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCC
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTF  172 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~  172 (352)
                      ..-.+.|+|+||+|||||...++......    |..-.|+-+|...++
T Consensus        50 ~~~~igitG~pGaGKSTli~~l~~~~~~~----g~~vaViavDpss~~   93 (323)
T d2qm8a1          50 RAIRVGITGVPGVGKSTTIDALGSLLTAA----GHKVAVLAVDPSSTR   93 (323)
T ss_dssp             CSEEEEEECCTTSCHHHHHHHHHHHHHHT----TCCEEEEEECGGGGS
T ss_pred             CceEEeeeCCCCCCHHHHHHHHHHHHhhc----CCceeeeecccccHH
Confidence            35679999999999999999988765431    133345555554443

>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=95.12  E-value=0.24  Score=38.22  Aligned_cols=21  Identities=19%  Similarity=0.112  Sum_probs=18.8

Q ss_pred             EEEecCCCCChhHHHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ++|+|++|+|||+|+.+++.+
T Consensus         7 ivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           7 VIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999998754

>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=94.99  E-value=0.15  Score=39.88  Aligned_cols=22  Identities=27%  Similarity=0.188  Sum_probs=19.3

Q ss_pred             EEEecCCCCChhHHHHHHHHHh
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      +.++|++|+|||+|+..+..+-
T Consensus        10 i~vvG~~~vGKTsli~~l~~~~   31 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDDT   31 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999999987643

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.98  E-value=0.0068  Score=52.41  Aligned_cols=41  Identities=17%  Similarity=0.169  Sum_probs=28.2

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      =++.|+|++|||||||+..+.......  + +....|..++.++
T Consensus        28 ~iIGi~G~qGSGKSTl~~~l~~~L~~~--~-~~~~~v~~iS~Dd   68 (286)
T d1odfa_          28 LFIFFSGPQGSGKSFTSIQIYNHLMEK--Y-GGEKSIGYASIDD   68 (286)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHHH--H-GGGSCEEEEEGGG
T ss_pred             EEEEeECCCCCCHHHHHHHHHHHHHHH--h-CCCcceEeeccCC
Confidence            488999999999999998776543221  0 0133577777665

>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=94.91  E-value=0.011  Score=50.72  Aligned_cols=37  Identities=16%  Similarity=0.111  Sum_probs=33.1

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      ++.+.|.-|+||||++.++|...+.      .+.+|+.+|++.
T Consensus        10 ~i~~sGKGGVGKTTvaa~lA~~lA~------~G~rVLlvD~Dp   46 (296)
T d1ihua1          10 YLFFTGKGGVGKTSISCATAIRLAE------QGKRVLLVSTDP   46 (296)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHH------TTCCEEEEECCT
T ss_pred             EEEEECCCcChHHHHHHHHHHHHHH------CCCCEEEEeCCC
Confidence            7788999999999999999988876      688999999984

>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=94.87  E-value=0.01  Score=54.11  Aligned_cols=35  Identities=20%  Similarity=0.260  Sum_probs=27.1

Q ss_pred             EEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      +.|+|++|+|||+++..++.+...      .+.+++.+|..
T Consensus        53 ~~I~G~tGsGKT~~l~~li~~~~~------~g~~~iiiD~k   87 (433)
T d1e9ra_          53 LLVNGATGTGKSVLLRELAYTGLL------RGDRMVIVDPN   87 (433)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHHH------TTCEEEEEEET
T ss_pred             EEEEeCCCCcHHHHHHHHHHHHHh------CCCCEEEEeCC
Confidence            799999999999998887777654      45566666654

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=94.77  E-value=0.0083  Score=48.84  Aligned_cols=38  Identities=18%  Similarity=0.147  Sum_probs=31.5

Q ss_pred             CChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          111 GSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       111 G~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      -+..|-.+| .|.|+...+.|.|||++|||.||..++..
T Consensus        39 Fl~~l~~~l-~~~PKkn~i~~~GP~~TGKS~f~~sl~~~   76 (205)
T d1tuea_          39 FLGALKSFL-KGTPKKNCLVFCGPANTGKSYFGMSFIHF   76 (205)
T ss_dssp             HHHHHHHHH-HTCTTCSEEEEESCGGGCHHHHHHHHHHH
T ss_pred             HHHHHHHHH-cCCCCceEEEEECCCCccHHHHHHHHHHH
Confidence            345566667 57899999999999999999999987655

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=94.76  E-value=0.0079  Score=48.49  Aligned_cols=19  Identities=21%  Similarity=0.312  Sum_probs=17.9

Q ss_pred             EEEecCCCCChhHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la  147 (352)
                      +.|+|+||+|||||+..+.
T Consensus        26 I~lvG~~n~GKSTLin~L~   44 (195)
T d1svia_          26 IALAGRSNVGKSSFINSLI   44 (195)
T ss_dssp             EEEEEBTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHhc
Confidence            9999999999999999885

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=94.63  E-value=0.014  Score=47.32  Aligned_cols=35  Identities=20%  Similarity=0.151  Sum_probs=26.8

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeC
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDT  168 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~  168 (352)
                      ++.|.|..||||||++..++.....      .+.+|.++..
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l~~------~g~~v~~~~~   36 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAFRA------AGRSVATLAF   36 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHH------TTCCEEEEES
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH------CCCCEEEEec
Confidence            6899999999999999988765433      4556776654

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=94.62  E-value=0.015  Score=47.91  Aligned_cols=38  Identities=32%  Similarity=0.291  Sum_probs=31.4

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCC
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGT  171 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~  171 (352)
                      |....|..|+||||++.++|...+.      .+.+|+++|....
T Consensus         4 Iav~s~KGGvGKTtia~nlA~~la~------~g~~VlliD~D~~   41 (232)
T d1hyqa_           4 ITVASGKGGTGKTTITANLGVALAQ------LGHDVTIVDADIT   41 (232)
T ss_dssp             EEEEESSSCSCHHHHHHHHHHHHHH------TTCCEEEEECCCS
T ss_pred             EEEECCCCCChHHHHHHHHHHHHHh------CCCCEEEEeCCCC
Confidence            3445589999999999999998876      6789999998743

>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=94.60  E-value=0.011  Score=48.13  Aligned_cols=35  Identities=17%  Similarity=0.038  Sum_probs=30.3

Q ss_pred             EEEEecC-CCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeC
Q 047388          128 ITEAFGE-FRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDT  168 (352)
Q Consensus       128 i~~I~G~-~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~  168 (352)
                      .+.|+|- +|+||||++..+|.....      .+.+|++|+.
T Consensus         3 ~~~i~gt~~GVGKTtvs~~La~aLa~------~G~rVl~id~   38 (224)
T d1byia_           3 RYFVTGTDTEVGKTVASCALLQAAKA------AGYRTAGYKP   38 (224)
T ss_dssp             EEEEEESSTTSCHHHHHHHHHHHHHH------TTCCEEEECS
T ss_pred             eEEEEECCCCccHHHHHHHHHHHHHH------CCCeEEEECc
Confidence            4678888 499999999999998877      7889999984

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=94.54  E-value=0.0091  Score=46.24  Aligned_cols=21  Identities=29%  Similarity=0.188  Sum_probs=19.0

Q ss_pred             EEEecCCCCChhHHHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ++|+|+||+|||+|+..++..
T Consensus         8 I~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           8 ILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999988754

>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=94.47  E-value=0.0062  Score=53.75  Aligned_cols=37  Identities=22%  Similarity=0.328  Sum_probs=26.8

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEe
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYID  167 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~  167 (352)
                      ..+.-++|+|++|||||||+..++..  .|     ...+++.|.
T Consensus       164 ~~~~nili~G~tgSGKTT~l~al~~~--i~-----~~~rivtiE  200 (323)
T d1g6oa_         164 AIGKNVIVCGGTGSGKTTYIKSIMEF--IP-----KEERIISIE  200 (323)
T ss_dssp             HHTCCEEEEESTTSSHHHHHHHHGGG--SC-----TTCCEEEEE
T ss_pred             HhCCCEEEEeeccccchHHHHHHhhh--cc-----cccceeecc
Confidence            33556899999999999999876533  23     356677763

>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=94.46  E-value=0.013  Score=50.40  Aligned_cols=38  Identities=16%  Similarity=0.164  Sum_probs=32.8

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      ..+.|.|.-|+||||++.++|...+.      .+.+|+.||...
T Consensus         3 r~IaisgKGGVGKTT~a~NLA~~LA~------~G~rVLlID~Dp   40 (289)
T d2afhe1           3 RQCAIYGKGGIGKSTTTQNLVAALAE------MGKKVMIVGCDP   40 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHH------TTCCEEEEEECS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHH------CCCCEEEEecCC
Confidence            45678999999999999999988776      678999999874

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=94.21  E-value=0.013  Score=53.94  Aligned_cols=26  Identities=23%  Similarity=0.215  Sum_probs=22.3

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHhcC
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCTQL  152 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~~~  152 (352)
                      +-+++.||||||||.|+.++|..+-.
T Consensus        50 sNILliGPTGvGKTlLAr~LAk~l~V   75 (443)
T d1g41a_          50 KNILMIGPTGVGKTEIARRLAKLANA   75 (443)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHTTC
T ss_pred             ccEEEECCCCCCHHHHHHHHHHHhCC
Confidence            36899999999999999999876543

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.18  E-value=0.012  Score=45.11  Aligned_cols=21  Identities=33%  Similarity=0.202  Sum_probs=18.5

Q ss_pred             EEEecCCCCChhHHHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ++|.|+|++|||+|+..+...
T Consensus         3 I~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           3 LLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            679999999999999988654

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=94.18  E-value=0.02  Score=47.44  Aligned_cols=34  Identities=29%  Similarity=0.271  Sum_probs=25.7

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      +++|+|.-|||||||+.+++..  .      .+.++..|-.|
T Consensus         5 v~iitGFLGaGKTTll~~lL~~--~------~~~riaVI~Ne   38 (222)
T d1nija1           5 VTLLTGFLGAGKTTLLRHILNE--Q------HGYKIAVIENE   38 (222)
T ss_dssp             EEEEEESSSSSCHHHHHHHHHS--C------CCCCEEEECSS
T ss_pred             EEEEeeCCCCCHHHHHHHHHhc--C------CCCcEEEEEec
Confidence            7899999999999999988763  1      34466666544

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=94.14  E-value=0.0098  Score=46.85  Aligned_cols=24  Identities=29%  Similarity=0.245  Sum_probs=19.6

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHH
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la  147 (352)
                      ++.--++|+|++|+|||+|+.++.
T Consensus        11 ~k~~kI~lvG~~~vGKTsLl~~l~   34 (186)
T d1f6ba_          11 KKTGKLVFLGLDNAGKTTLLHMLK   34 (186)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHh
Confidence            344458899999999999999774

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=94.12  E-value=0.012  Score=46.27  Aligned_cols=22  Identities=18%  Similarity=0.150  Sum_probs=19.1

Q ss_pred             cEEEEecCCCCChhHHHHHHHH
Q 047388          127 AITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      --++|+|.+|+|||+|+.++..
T Consensus        16 ~kI~vvG~~~~GKSsLi~rl~~   37 (177)
T d1zj6a1          16 HKVIIVGLDNAGKTTILYQFSM   37 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            3478999999999999998864

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=94.11  E-value=0.012  Score=47.94  Aligned_cols=19  Identities=37%  Similarity=0.478  Sum_probs=17.1

Q ss_pred             EEEEecCCCCChhHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTL  146 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~l  146 (352)
                      ++.|+|++||||||+|..+
T Consensus         4 iIgITG~igSGKStv~~~l   22 (205)
T d1jjva_           4 IVGLTGGIGSGKTTIANLF   22 (205)
T ss_dssp             EEEEECSTTSCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            6889999999999999855

>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=94.11  E-value=0.014  Score=46.53  Aligned_cols=24  Identities=25%  Similarity=0.169  Sum_probs=20.7

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      |.-++|.|+||+|||++++.++..
T Consensus        14 g~gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          14 GLGVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHT
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHc
Confidence            556899999999999999987754

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=94.09  E-value=0.013  Score=46.67  Aligned_cols=24  Identities=25%  Similarity=0.104  Sum_probs=20.5

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      |.-++|.|+||+|||++++.++..
T Consensus        15 g~gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          15 GVGVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHTT
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc
Confidence            556899999999999999987653

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=94.07  E-value=0.013  Score=47.85  Aligned_cols=20  Identities=30%  Similarity=0.474  Sum_probs=17.9

Q ss_pred             EEEEecCCCCChhHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la  147 (352)
                      ++.|+|.+||||||+|..+.
T Consensus         5 iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHH
Confidence            78999999999999998654

>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=94.02  E-value=0.0084  Score=48.32  Aligned_cols=23  Identities=22%  Similarity=0.104  Sum_probs=19.7

Q ss_pred             CcEEEEecCCCCChhHHHHHHHH
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      .-++.|.|..||||||++..++.
T Consensus         9 p~~I~ieG~~GsGKTTl~~~L~~   31 (197)
T d2vp4a1           9 PFTVLIEGNIGSGKTTYLNHFEK   31 (197)
T ss_dssp             CEEEEEECSTTSCHHHHHHTTGG
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            34899999999999999997654

>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=93.98  E-value=0.017  Score=51.99  Aligned_cols=24  Identities=21%  Similarity=0.365  Sum_probs=20.3

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHH
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      .+.+++|+|++|+|||+++-.|+.
T Consensus        24 ~~~l~~i~G~NGsGKS~ileAi~~   47 (427)
T d1w1wa_          24 ESNFTSIIGPNGSGKSNMMDAISF   47 (427)
T ss_dssp             TCSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            355999999999999999887654

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.93  E-value=0.015  Score=45.42  Aligned_cols=21  Identities=19%  Similarity=0.330  Sum_probs=18.9

Q ss_pred             EEEecCCCCChhHHHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ++++|++|+|||+|+.+++.+
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999998764

>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=93.92  E-value=0.0068  Score=50.63  Aligned_cols=33  Identities=15%  Similarity=0.143  Sum_probs=26.1

Q ss_pred             cCChhhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHH
Q 047388          110 TGSQALDELLGGGIETGAITEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       110 TG~~~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la  147 (352)
                      .|++.|-..|     .|..+.+.|+||+|||||+..+.
T Consensus        86 ~gl~~L~~~l-----~~~~~vl~G~SGVGKSSLiN~L~  118 (231)
T d1t9ha2          86 DSLADIIPHF-----QDKTTVFAGQSGVGKSSLLNAIS  118 (231)
T ss_dssp             TTCTTTGGGG-----TTSEEEEEESHHHHHHHHHHHHC
T ss_pred             hHHHHHHHhh-----ccceEEEECCCCccHHHHHHhhc
Confidence            4666666666     36788999999999999998764

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=93.91  E-value=0.016  Score=45.52  Aligned_cols=20  Identities=25%  Similarity=0.280  Sum_probs=18.3

Q ss_pred             EEEEecCCCCChhHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la  147 (352)
                      .+.|+|++|+|||||+.+|+
T Consensus         2 ~V~liG~~n~GKSsLi~~L~   21 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLV   21 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            57899999999999999876

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.89  E-value=0.055  Score=44.24  Aligned_cols=25  Identities=28%  Similarity=0.228  Sum_probs=22.4

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHH
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      +|.++.|.|.-||||||++..++..
T Consensus         2 kGk~I~iEG~DGsGKST~~~~L~~~   26 (214)
T d1tmka_           2 RGKLILIEGLDRTGKTTQCNILYKK   26 (214)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CeEEEEEECCCCCcHHHHHHHHHHH
Confidence            6899999999999999999977654

>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=93.85  E-value=0.026  Score=49.39  Aligned_cols=25  Identities=20%  Similarity=0.052  Sum_probs=21.3

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHh
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ...+.++||||+|||.|+.++|...
T Consensus        52 ~~~~lf~Gp~GvGKT~lak~la~~l   76 (315)
T d1r6bx3          52 VGSFLFAGPTGVGKTEVTVQLSKAL   76 (315)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEECCCcchhHHHHHHHHhhc
Confidence            3467899999999999999998763

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=93.75  E-value=0.015  Score=45.19  Aligned_cols=19  Identities=21%  Similarity=0.225  Sum_probs=17.3

Q ss_pred             EEEecCCCCChhHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la  147 (352)
                      ++|.|++|+|||+|+..+.
T Consensus         5 i~ivG~~~~GKTsLi~~l~   23 (165)
T d1ksha_           5 LLMLGLDNAGKTTILKKFN   23 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHc
Confidence            6799999999999999874

>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=93.71  E-value=0.029  Score=48.02  Aligned_cols=120  Identities=13%  Similarity=0.047  Sum_probs=57.0

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHHcCCCccc------cc-ccEEEEec
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGA------VL-DNIIYARA  200 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~~~~~~~~------~~-~~i~~~~~  200 (352)
                      -+.|+|..|+|||||+-.++...-.....|....+....|..    ++.     +..|+....      +. ..+.+.+.
T Consensus         8 ni~i~gh~~~GKTtL~e~ll~~~g~~~~~g~v~~~~~~~D~~----~~E-----~~r~~si~~~~~~~~~~~~~~n~iDt   78 (276)
T d2bv3a2           8 NIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFM----EQE-----RERGITITAAVTTCFWKDHRINIIDA   78 (276)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHTSSCC----------------------------CCCCCCCSEEEEEETTEEEEEECC
T ss_pred             EEEEEeCCCCCHHHHHHHHHHhcCccccccceecCceEEecc----HHH-----HhcCCccccceeeeccCCeEEEEecC
Confidence            478999999999999998887655433333222222222222    110     122322211      00 12444444


Q ss_pred             CCHHHHHHHHHHHHHHhhcCCceEEEEcccccchhcccCCCcchHHHHHHHHHHHHHHHHHHHHhCcEEE-EEccccc
Q 047388          201 YTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFTGRGELADRQQKLGQMLSRLTKISEEFNVAVY-MTNQVIA  277 (352)
Q Consensus       201 ~~~~~~~~~l~~l~~~l~~~~~~lvvIDsl~~l~~~~~~~~g~~~~r~~~l~~i~~~L~~la~~~~~~vi-v~~h~~~  277 (352)
                      +...+..   ......+.....-++|||.....-                  .-...+-+.|++++++.| ++|.+-+
T Consensus        79 PG~~dF~---~e~~~~l~~~D~avlVvda~~Gv~------------------~~T~~~w~~a~~~~lP~i~fINKmDr  135 (276)
T d2bv3a2          79 PGHVDFT---IEVERSMRVLDGAIVVFDSSQGVE------------------PQSETVWRQAEKYKVPRIAFANKMDK  135 (276)
T ss_dssp             CSSSSCS---TTHHHHHHHCCEEEEEEETTTSSC------------------HHHHHHHHHHHTTTCCEEEEEECTTS
T ss_pred             CchhhhH---HHHHHHHHhhhheEEeccccCCcc------------------hhHHHHHHHHHHcCCCEEEEEecccc
Confidence            3222211   112223334467899999765441                  112234466678888855 6677765

>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=93.69  E-value=0.028  Score=48.20  Aligned_cols=41  Identities=12%  Similarity=-0.036  Sum_probs=26.5

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      -..|.|+||||||+.+..-+...+..  .+....++++++...
T Consensus        16 ~~lI~g~aGTGKTt~l~~rv~~ll~~--~~~~~~~ILvlt~tn   56 (306)
T d1uaaa1          16 PCLVLAGAGSGKTRVITNKIAHLIRG--CGYQARHIAAVTFTN   56 (306)
T ss_dssp             EEEECCCTTSCHHHHHHHHHHHHHHH--HCCCGGGEEEEESSH
T ss_pred             CEEEEeeCCccHHHHHHHHHHHHHHh--cCCChhHEEEEeCcH
Confidence            35788999999999876644433210  011346798888753

>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=93.63  E-value=0.021  Score=45.22  Aligned_cols=25  Identities=24%  Similarity=0.137  Sum_probs=21.3

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHh
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      |.=++|.|+||+|||+++..++...
T Consensus        15 g~gvli~G~sg~GKS~la~~l~~~g   39 (169)
T d1ko7a2          15 GVGVLITGDSGIGKSETALELIKRG   39 (169)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHTT
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHcC
Confidence            5568999999999999998877653

>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=93.62  E-value=0.027  Score=49.24  Aligned_cols=27  Identities=30%  Similarity=0.182  Sum_probs=22.5

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhc
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQ  151 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~  151 (352)
                      +...+.++||+|+|||.++..+|....
T Consensus        52 p~~~~lf~Gp~G~GKt~lak~la~~l~   78 (315)
T d1qvra3          52 PIGSFLFLGPTGVGKTELAKTLAATLF   78 (315)
T ss_dssp             CSEEEEEBSCSSSSHHHHHHHHHHHHH
T ss_pred             CceEEEEECCCcchHHHHHHHHHHHhc
Confidence            344678999999999999999987753

>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=93.59  E-value=0.0038  Score=50.05  Aligned_cols=22  Identities=18%  Similarity=0.243  Sum_probs=18.9

Q ss_pred             EEEEecCCCCChhHHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      +++|+|++|||||+++..+...
T Consensus        26 ~tvi~G~NGsGKStil~Ai~~~   47 (222)
T d1qhla_          26 VTTLSGGNGAGKSTTMAAFVTA   47 (222)
T ss_dssp             HHHHHSCCSHHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            7899999999999999866543

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.58  E-value=0.018  Score=45.32  Aligned_cols=22  Identities=18%  Similarity=0.095  Sum_probs=19.1

Q ss_pred             EEEecCCCCChhHHHHHHHHHh
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ++++|++|+|||+|+..++.+-
T Consensus         6 ivvvG~~~vGKTsli~r~~~~~   27 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDKR   27 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHhcCC
Confidence            6789999999999999887653

>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=93.57  E-value=0.025  Score=48.95  Aligned_cols=41  Identities=12%  Similarity=-0.043  Sum_probs=26.5

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      .+.|.|+||||||+.+.+-++..+...  +-.+.++++++...
T Consensus        26 ~~lV~g~aGSGKTt~l~~ri~~ll~~~--~~~p~~il~lt~t~   66 (318)
T d1pjra1          26 PLLIMAGAGSGKTRVLTHRIAYLMAEK--HVAPWNILAITFTN   66 (318)
T ss_dssp             CEEEEECTTSCHHHHHHHHHHHHHHTT--CCCGGGEEEEESSH
T ss_pred             CEEEEecCCccHHHHHHHHHHHHHHcC--CCCHHHeEeEeccH
Confidence            367889999999998876444333210  01346788887654

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.56  E-value=0.018  Score=45.02  Aligned_cols=22  Identities=23%  Similarity=0.142  Sum_probs=19.4

Q ss_pred             EEEecCCCCChhHHHHHHHHHh
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ++++|++|+|||+|+.+++.+.
T Consensus         6 i~viG~~~vGKTsli~~l~~~~   27 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6889999999999999987653

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.53  E-value=0.018  Score=45.25  Aligned_cols=21  Identities=19%  Similarity=0.139  Sum_probs=19.1

Q ss_pred             EEEecCCCCChhHHHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ++|+|.+|+|||+|+.+++..
T Consensus         8 i~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           8 LVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999998764

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=93.52  E-value=0.019  Score=44.72  Aligned_cols=21  Identities=24%  Similarity=0.240  Sum_probs=18.4

Q ss_pred             EEEecCCCCChhHHHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ++|.|++|+|||+|+.++...
T Consensus         5 i~i~G~~~~GKTsLl~~l~~~   25 (164)
T d1zd9a1           5 LTLVGLQYSGKTTFVNVIASG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            578999999999999998654

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.49  E-value=0.019  Score=45.12  Aligned_cols=21  Identities=29%  Similarity=0.306  Sum_probs=18.8

Q ss_pred             EEEecCCCCChhHHHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ++|+|++|+|||+|+.+++..
T Consensus         5 i~~vG~~~vGKSsLi~~~~~~   25 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVND   25 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            679999999999999998764

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.41  E-value=0.02  Score=44.84  Aligned_cols=21  Identities=24%  Similarity=0.292  Sum_probs=18.6

Q ss_pred             EEEecCCCCChhHHHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ++++|++|+|||+|+.+++.+
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            678999999999999988754

>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=93.41  E-value=0.019  Score=49.47  Aligned_cols=22  Identities=23%  Similarity=0.318  Sum_probs=18.9

Q ss_pred             cEEEEecCCCCChhHHHHHHHH
Q 047388          127 AITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      .+++|+|++|||||+++..+..
T Consensus        25 ~lnvlvG~NgsGKS~iL~Ai~~   46 (308)
T d1e69a_          25 RVTAIVGPNGSGKSNIIDAIKW   46 (308)
T ss_dssp             SEEEEECCTTTCSTHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHH
Confidence            3999999999999999876644

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.39  E-value=0.02  Score=45.57  Aligned_cols=20  Identities=25%  Similarity=0.204  Sum_probs=18.0

Q ss_pred             EEEecCCCCChhHHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~  148 (352)
                      ++|.|++|+|||+|+.+++.
T Consensus         8 i~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhc
Confidence            67999999999999998864

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.37  E-value=0.022  Score=46.00  Aligned_cols=22  Identities=32%  Similarity=0.181  Sum_probs=19.7

Q ss_pred             EEEEecCCCCChhHHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .++|+|+|++|||+|+..++..
T Consensus         5 ~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           5 SIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            6899999999999999988754

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=93.36  E-value=0.02  Score=44.82  Aligned_cols=21  Identities=19%  Similarity=0.124  Sum_probs=19.1

Q ss_pred             EEEecCCCCChhHHHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ++++|++|+|||+|+..++.+
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            789999999999999988765

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.32  E-value=0.021  Score=44.70  Aligned_cols=21  Identities=24%  Similarity=0.292  Sum_probs=19.0

Q ss_pred             EEEecCCCCChhHHHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ++++|++|+|||+|+.+++.+
T Consensus         5 i~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            679999999999999999865

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.30  E-value=0.02  Score=44.66  Aligned_cols=22  Identities=32%  Similarity=0.351  Sum_probs=19.3

Q ss_pred             EEEecCCCCChhHHHHHHHHHh
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ++|+|.+|+|||+|+.+++.+-
T Consensus         6 ivlvG~~~vGKTsLi~r~~~~~   27 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCENK   27 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6899999999999999987653

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.24  E-value=0.022  Score=44.81  Aligned_cols=21  Identities=19%  Similarity=0.227  Sum_probs=19.1

Q ss_pred             EEEecCCCCChhHHHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ++++|++|+|||+|+.+++.+
T Consensus         9 I~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999998765

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.18  E-value=0.022  Score=44.43  Aligned_cols=22  Identities=18%  Similarity=0.185  Sum_probs=19.2

Q ss_pred             EEEecCCCCChhHHHHHHHHHh
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ++|.|++|+|||+|+.+++.+-
T Consensus         7 v~liG~~~vGKTsLl~~~~~~~   28 (167)
T d1xtqa1           7 IAILGYRSVGKSSLTIQFVEGQ   28 (167)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999999987653

>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=93.15  E-value=0.15  Score=40.03  Aligned_cols=19  Identities=37%  Similarity=0.581  Sum_probs=17.7

Q ss_pred             EEEecCCCCChhHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la  147 (352)
                      +.|.|.|.+|||||+..++
T Consensus         8 IaiiG~~naGKSTL~n~L~   26 (179)
T d1wb1a4           8 LGIFGHIDHGKTTLSKVLT   26 (179)
T ss_dssp             EEEEECTTSSHHHHHHHHH
T ss_pred             EEEEeCCCCcHHHHHHHHH
Confidence            7899999999999999876

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.04  E-value=0.024  Score=44.18  Aligned_cols=21  Identities=19%  Similarity=0.118  Sum_probs=18.8

Q ss_pred             EEEecCCCCChhHHHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~  149 (352)
                      +.+.|++|+|||+|+.+++..
T Consensus         5 i~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999998764

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.03  E-value=0.025  Score=44.27  Aligned_cols=22  Identities=23%  Similarity=0.232  Sum_probs=19.2

Q ss_pred             EEEecCCCCChhHHHHHHHHHh
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ++++|++|+|||+|+.+++..-
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~~   30 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            5799999999999999987653

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.02  E-value=0.024  Score=45.88  Aligned_cols=22  Identities=32%  Similarity=0.150  Sum_probs=19.6

Q ss_pred             EEEEecCCCCChhHHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .++|.|++++|||+|+..+...
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4789999999999999988764

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=93.01  E-value=0.025  Score=44.94  Aligned_cols=21  Identities=24%  Similarity=0.240  Sum_probs=18.7

Q ss_pred             EEEecCCCCChhHHHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ++++|.+|+|||+|+.+++..
T Consensus         5 v~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988753

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=93.00  E-value=0.044  Score=46.63  Aligned_cols=35  Identities=17%  Similarity=0.158  Sum_probs=29.6

Q ss_pred             hHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHH
Q 047388          115 LDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       115 LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      |=..|.|+.+.-..+.|.||+++|||+|+..++..
T Consensus        93 l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~~  127 (267)
T d1u0ja_          93 FLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHT  127 (267)
T ss_dssp             HHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHHH
Confidence            33456789999999999999999999999877654

>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=92.99  E-value=0.024  Score=44.39  Aligned_cols=22  Identities=23%  Similarity=0.178  Sum_probs=19.5

Q ss_pred             EEEecCCCCChhHHHHHHHHHh
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ++|.|++|+|||+|+.+++.+-
T Consensus         8 i~lvG~~~vGKTsLi~~l~~~~   29 (171)
T d2ew1a1           8 IVLIGNAGVGKTCLVRRFTQGL   29 (171)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7899999999999999988653

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=92.99  E-value=0.023  Score=44.80  Aligned_cols=20  Identities=25%  Similarity=0.179  Sum_probs=18.0

Q ss_pred             EEEEecCCCCChhHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la  147 (352)
                      .+.|+|+|++|||||+..+.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~   21 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLT   21 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            47899999999999999875

>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=92.97  E-value=0.025  Score=43.89  Aligned_cols=21  Identities=29%  Similarity=0.434  Sum_probs=19.1

Q ss_pred             EEEecCCCCChhHHHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~  149 (352)
                      +++.|++|+|||+|+.+++.+
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999998765

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.87  E-value=0.026  Score=44.43  Aligned_cols=21  Identities=19%  Similarity=0.139  Sum_probs=19.0

Q ss_pred             EEEecCCCCChhHHHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ++|+|.+|+|||+|+.+++.+
T Consensus         9 v~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           9 LVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998764

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.85  E-value=0.027  Score=44.30  Aligned_cols=21  Identities=19%  Similarity=0.232  Sum_probs=18.9

Q ss_pred             EEEecCCCCChhHHHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~  149 (352)
                      +++.|++|+|||+|+..+...
T Consensus         7 i~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           7 VVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988764

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=92.81  E-value=0.03  Score=44.14  Aligned_cols=21  Identities=24%  Similarity=0.297  Sum_probs=19.1

Q ss_pred             EEEEecCCCCChhHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~  148 (352)
                      ++.|+|.+|+|||+|+..++.
T Consensus         7 ~I~lvG~~~~GKSSLin~l~~   27 (178)
T d1wf3a1           7 FVAIVGKPNVGKSTLLNNLLG   27 (178)
T ss_dssp             EEEEECSTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            799999999999999998764

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.81  E-value=0.028  Score=43.81  Aligned_cols=22  Identities=18%  Similarity=0.155  Sum_probs=19.3

Q ss_pred             EEEecCCCCChhHHHHHHHHHh
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ++++|.+|+|||+|+.+++.+-
T Consensus         6 ivvvG~~~vGKTsli~r~~~~~   27 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            6799999999999999987653

>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=92.80  E-value=0.015  Score=48.12  Aligned_cols=25  Identities=16%  Similarity=0.121  Sum_probs=21.4

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHH
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ++.++.|.|+.||||||++..++..
T Consensus         1 ~~k~I~ieG~dGsGKST~~~~L~~~   25 (241)
T d1p5zb_           1 RIKKISIEGNIAAGKSTFVNILKQL   25 (241)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGGG
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHH
Confidence            3678999999999999999977654

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=92.80  E-value=0.025  Score=44.37  Aligned_cols=20  Identities=30%  Similarity=0.267  Sum_probs=17.8

Q ss_pred             EEEEecCCCCChhHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la  147 (352)
                      -++++|++|+|||+|+.++.
T Consensus        18 kI~vvG~~~vGKSsLi~~l~   37 (176)
T d1fzqa_          18 RILLLGLDNAGKTTLLKQLA   37 (176)
T ss_dssp             EEEEEESTTSSHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            48899999999999999774

>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=92.79  E-value=0.031  Score=49.77  Aligned_cols=43  Identities=19%  Similarity=0.175  Sum_probs=27.5

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      +.++.|.|+||+|||+++..++.....-.  ...+.+++.....+
T Consensus       163 ~~~~vI~G~pGTGKTt~i~~~l~~l~~~~--~~~~~~I~l~ApTg  205 (359)
T d1w36d1         163 RRISVISGGPGTGKTTTVAKLLAALIQMA--DGERCRIRLAAPTG  205 (359)
T ss_dssp             BSEEEEECCTTSTHHHHHHHHHHHHHHTC--SSCCCCEEEEBSSH
T ss_pred             CCeEEEEcCCCCCceehHHHHHHHHHHHH--hccCCeEEEecCcH
Confidence            56999999999999999876544332110  01345566665543

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.72  E-value=0.027  Score=45.19  Aligned_cols=22  Identities=23%  Similarity=0.101  Sum_probs=19.5

Q ss_pred             EEEecCCCCChhHHHHHHHHHh
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ++|+|++|+|||+|+.+++..-
T Consensus         9 ivvvG~~~vGKTsli~~l~~~~   30 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSDDT   30 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHhhCC
Confidence            7899999999999999997653

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=92.69  E-value=0.032  Score=42.96  Aligned_cols=21  Identities=24%  Similarity=0.237  Sum_probs=18.4

Q ss_pred             EEEEecCCCCChhHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+.|+|+|++|||+|+.+++.
T Consensus         3 kI~lvG~~nvGKSsLin~l~~   23 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAG   23 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999998863

>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=92.67  E-value=0.019  Score=50.44  Aligned_cols=21  Identities=24%  Similarity=0.357  Sum_probs=18.7

Q ss_pred             EEEEecCCCCChhHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~  148 (352)
                      =++|.|+||+|||+|+..++.
T Consensus        30 ~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_          30 GVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             CEEEECCGGGCTTHHHHHHHH
T ss_pred             eEEEECCCCccHHHHHHHHHH
Confidence            379999999999999998874

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.65  E-value=0.03  Score=43.75  Aligned_cols=20  Identities=25%  Similarity=0.219  Sum_probs=17.7

Q ss_pred             EEEecCCCCChhHHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~  148 (352)
                      ++|+|++|+|||+|+..+..
T Consensus         4 i~lvG~~~vGKTsLi~~~~~   23 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGG   23 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCcCHHHHHHHHhC
Confidence            67899999999999998754

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.63  E-value=0.029  Score=44.19  Aligned_cols=22  Identities=23%  Similarity=0.039  Sum_probs=19.1

Q ss_pred             EEEecCCCCChhHHHHHHHHHh
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ++|.|++|+|||+|+.+++.+-
T Consensus         5 ivvvG~~~vGKTsLi~~~~~~~   26 (177)
T d1kmqa_           5 LVIVGDGACGKTCLLIVNSKDQ   26 (177)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            5788999999999999987653

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.48  E-value=0.033  Score=43.53  Aligned_cols=21  Identities=24%  Similarity=0.101  Sum_probs=19.1

Q ss_pred             EEEecCCCCChhHHHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ++|+|++|+|||+|+.+++.+
T Consensus         9 i~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           9 VMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998764

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.32  E-value=0.035  Score=43.42  Aligned_cols=21  Identities=19%  Similarity=0.153  Sum_probs=18.5

Q ss_pred             EEEecCCCCChhHHHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~  149 (352)
                      +.++|++|+|||+|+..++..
T Consensus         7 i~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            567899999999999998764

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=92.22  E-value=0.027  Score=44.70  Aligned_cols=19  Identities=21%  Similarity=0.205  Sum_probs=17.0

Q ss_pred             EEEecCCCCChhHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la  147 (352)
                      +.|+|+|++|||+|+..+.
T Consensus         4 VaiiG~~nvGKSSLin~L~   22 (185)
T d1lnza2           4 VGLVGFPSVGKSTLLSVVS   22 (185)
T ss_dssp             EEEESSTTSSHHHHHHHSE
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            6899999999999998764

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=92.17  E-value=0.04  Score=43.14  Aligned_cols=21  Identities=24%  Similarity=0.268  Sum_probs=18.8

Q ss_pred             EEEEecCCCCChhHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~  148 (352)
                      ++.|.|.|++|||+|+..+..
T Consensus         7 ~I~iiG~~nvGKSSLin~L~~   27 (179)
T d1egaa1           7 FIAIVGRPNVGKSTLLNKLLG   27 (179)
T ss_dssp             EEEEECSSSSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            588999999999999998864

>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=92.12  E-value=0.24  Score=44.43  Aligned_cols=20  Identities=35%  Similarity=0.368  Sum_probs=18.1

Q ss_pred             EEEecCCCCChhHHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~  148 (352)
                      +.|+|.||+|||+|...+..
T Consensus        59 Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          59 VAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             EEEEECTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            89999999999999997753

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.06  E-value=0.039  Score=43.26  Aligned_cols=21  Identities=29%  Similarity=0.335  Sum_probs=18.3

Q ss_pred             EEEecCCCCChhHHHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~  149 (352)
                      +++.|++|+|||+|+..++..
T Consensus         6 v~lvG~~~vGKTsLi~~~~~~   26 (172)
T d2g3ya1           6 VVLIGEQGVGKSTLANIFAGV   26 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988643

>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=92.01  E-value=0.067  Score=47.61  Aligned_cols=29  Identities=28%  Similarity=0.236  Sum_probs=23.6

Q ss_pred             CCCCCCcEEEEecCCCCChhHHHHHHHHHh
Q 047388          121 GGIETGAITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       121 GGl~~G~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ...|++. ++++||+|+|||-++.++|...
T Consensus        64 ~~~p~~n-iLfiGPTGvGKTElAk~LA~~~   92 (364)
T d1um8a_          64 VELSKSN-ILLIGPTGSGKTLMAQTLAKHL   92 (364)
T ss_dssp             TTCCCCC-EEEECCTTSSHHHHHHHHHHHT
T ss_pred             ccCCCcc-eeeeCCCCccHHHHHHHHHhhc
Confidence            4677776 5677999999999999998653

>d2bgwa1 a.60.2.5 (A:160-229) DNA repair endonuclease XPF {Aeropyrum pernix [TaxId: 56636]}

class: All alpha proteins
fold: SAM domain-like
superfamily: RuvA domain 2-like
family: Hef domain-like
domain: DNA repair endonuclease XPF
species: Aeropyrum pernix [TaxId: 56636]

Probab=91.89  E-value=0.13  Score=33.85  Aligned_cols=52  Identities=17%  Similarity=0.316  Sum_probs=44.6

Q ss_pred             HHHh-CCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHH
Q 047388           33 KLIS-QGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAE   85 (352)
Q Consensus        33 ~l~~-~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~   85 (352)
                      .|.+ +|+.+...+.|.++ |.+++.+..++.++|+++.|++...+..+.+...
T Consensus        14 ~L~~IpgIG~~~a~~L~~~-F~s~~~l~~As~eeL~~v~GIG~~~A~~I~~~~~   66 (70)
T d2bgwa1          14 ILQSFPGIGRRTAERILER-FGSLERFFTASKAEISKVEGIGEKRAEEIKKILM   66 (70)
T ss_dssp             HHHTSTTCCHHHHHHHHHH-HSSHHHHTTCCHHHHHHSTTCCHHHHHHHHHHHH
T ss_pred             HHcCCCCcCHHHHHHHHHH-hCCHHHHHHcCHHHHHcCCCCCHHHHHHHHHHHh
Confidence            3533 99999999999988 8899999999999999999999988877766543

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=91.89  E-value=0.025  Score=44.46  Aligned_cols=20  Identities=25%  Similarity=0.140  Sum_probs=17.6

Q ss_pred             EEEEecCCCCChhHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la  147 (352)
                      -++++|++|+|||+|+.+++
T Consensus        14 kIvlvG~~~vGKTSli~rl~   33 (173)
T d1e0sa_          14 RILMLGLDAAGKTTILYKLK   33 (173)
T ss_dssp             EEEEEEETTSSHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            37799999999999999764

>d2a1ja1 a.60.2.5 (A:837-898) DNA repair endonuclease XPF {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: SAM domain-like
superfamily: RuvA domain 2-like
family: Hef domain-like
domain: DNA repair endonuclease XPF
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.80  E-value=0.16  Score=32.54  Aligned_cols=48  Identities=21%  Similarity=0.342  Sum_probs=41.6

Q ss_pred             CCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHHH
Q 047388           37 QGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEK   86 (352)
Q Consensus        37 ~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~   86 (352)
                      +|+++...+.|- +.|.+++.+..++..+|+++.| +...+..+.+...+
T Consensus         9 PGIg~~~~~~Ll-~~f~Si~~l~~As~~eL~~v~G-~~~~A~~i~~f~~~   56 (62)
T d2a1ja1           9 PGVNAKNCRSLM-HHVKNIAELAALSQDELTSILG-NAANAKQLYDFIHT   56 (62)
T ss_dssp             TTCCHHHHHHHH-HHCSSHHHHHTCCHHHHHHHHS-CHHHHHHHHHHHHC
T ss_pred             CCCCHHHHHHHH-HHhccHHHHHhCCHHHHHHCcC-cHHHHHHHHHHHhh
Confidence            999999999997 5899999999999999999999 87767777665443

>d1xx6a1 c.37.1.24 (A:2-142) Thymidine kinase, TK1, N-terminal domain {Clostridium acetobutylicum [TaxId: 1488]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Clostridium acetobutylicum [TaxId: 1488]

Probab=91.66  E-value=0.098  Score=39.79  Aligned_cols=40  Identities=18%  Similarity=0.179  Sum_probs=33.8

Q ss_pred             CCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          125 TGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      .|.+.+|+||=.|||||-+++.+.+...      .+.+|+.|....
T Consensus         6 ~G~l~lI~GpMfSGKTteLi~~~~~~~~------~g~~vl~i~~~~   45 (141)
T d1xx6a1           6 HGWVEVIVGPMYSGKSEELIRRIRRAKI------AKQKIQVFKPEI   45 (141)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHH------TTCCEEEEEEC-
T ss_pred             ceeEEEEEeccccHHHHHHHHHHHHhhh------cCCcEEEEEecc
Confidence            6899999999999999999998877665      577888887654

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=91.63  E-value=0.048  Score=45.15  Aligned_cols=22  Identities=27%  Similarity=0.187  Sum_probs=19.2

Q ss_pred             cEEEEecCCCCChhHHHHHHHH
Q 047388          127 AITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~  148 (352)
                      .++.|+|..||||||+|..|+-
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999987753

>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=91.62  E-value=0.044  Score=43.33  Aligned_cols=23  Identities=22%  Similarity=0.125  Sum_probs=20.2

Q ss_pred             EEEEecCCCCChhHHHHHHHHHh
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      -++|+|.+|+|||+|+.+++..-
T Consensus         7 KivviG~~~vGKTsli~~~~~~~   29 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTNA   29 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999987653

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.55  E-value=0.045  Score=43.43  Aligned_cols=22  Identities=23%  Similarity=0.137  Sum_probs=19.5

Q ss_pred             EEEecCCCCChhHHHHHHHHHh
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ++|+|.+|+|||+|+.+++.+.
T Consensus        12 i~lvG~~~vGKTsLi~r~~~~~   33 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYANDA   33 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHhhCC
Confidence            7899999999999999987653

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.52  E-value=0.047  Score=43.17  Aligned_cols=22  Identities=27%  Similarity=0.362  Sum_probs=19.3

Q ss_pred             EEEecCCCCChhHHHHHHHHHh
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      +++.|++|+|||+|+.+++.+-
T Consensus         5 ivliG~~~vGKTsli~r~~~~~   26 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKDC   26 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999999987653

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=91.46  E-value=0.033  Score=44.02  Aligned_cols=26  Identities=23%  Similarity=0.152  Sum_probs=20.8

Q ss_pred             CCCCCcEEEEecCCCCChhHHHHHHH
Q 047388          122 GIETGAITEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       122 Gl~~G~i~~I~G~~GsGKTtl~~~la  147 (352)
                      |-.+---++++|++|+|||+|+.++.
T Consensus        13 ~~~k~~KI~lvG~~~vGKTsLi~~l~   38 (182)
T d1moza_          13 GSNKELRILILGLDGAGKTTILYRLQ   38 (182)
T ss_dssp             TCSSCEEEEEEEETTSSHHHHHHHTC
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHh
Confidence            44555568899999999999998763

>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=91.38  E-value=0.069  Score=45.36  Aligned_cols=24  Identities=33%  Similarity=0.310  Sum_probs=20.3

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhc
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQ  151 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~  151 (352)
                      .+.|.|..|+|||||+-+++...-
T Consensus         4 Nv~iiGh~~~GKTtL~e~ll~~~g   27 (267)
T d2dy1a2           4 TVALVGHAGSGKTTLTEALLYKTG   27 (267)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHcC
Confidence            468999999999999998876543

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.36  E-value=0.049  Score=43.44  Aligned_cols=22  Identities=23%  Similarity=0.155  Sum_probs=19.3

Q ss_pred             EEEecCCCCChhHHHHHHHHHh
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      +++.|++|+|||+|+.+++..-
T Consensus         6 vvllG~~~vGKTSli~r~~~~~   27 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTNK   27 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999999987654

>d2a1jb1 a.60.2.5 (B:219-296) DNA excision repair protein ERCC-1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: SAM domain-like
superfamily: RuvA domain 2-like
family: Hef domain-like
domain: DNA excision repair protein ERCC-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.33  E-value=0.13  Score=34.80  Aligned_cols=56  Identities=16%  Similarity=0.283  Sum_probs=47.5

Q ss_pred             hcHHHHHh-CCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHH
Q 047388           29 EAIDKLIS-QGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAE   85 (352)
Q Consensus        29 ~~~~~l~~-~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~   85 (352)
                      ..+..|.+ +|+.+.+...|.++ |.|++++..++.++|..+.|++...+..+.+...
T Consensus        16 ~~~~~L~~I~gIg~~~a~~L~~~-F~s~~~i~~A~~eeL~~i~GiG~~~A~~i~~~f~   72 (78)
T d2a1jb1          16 RVTECLTTVKSVNKTDSQTLLTT-FGSLEQLIAASREDLALCPGLGPQKARRLFDVLH   72 (78)
T ss_dssp             HHHHHHTTSTTCCHHHHHHHHHH-HSSHHHHHSCCHHHHHTSSSCCSHHHHHHHHHHH
T ss_pred             HHHHHhcCCCCcCHHHHHHHHHH-hCCcHHHHhhhHHHHHHhhhhhHHHHHHHHHHHc
Confidence            45666733 99999999999987 9999999999999999999999988877766443

>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=91.30  E-value=0.036  Score=43.69  Aligned_cols=19  Identities=21%  Similarity=0.282  Sum_probs=17.3

Q ss_pred             EEEecCCCCChhHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLC  147 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la  147 (352)
                      +.|+|.|++|||||+..+.
T Consensus         4 VaivG~~nvGKSTLin~L~   22 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMT   22 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            7899999999999999775

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.29  E-value=0.049  Score=43.38  Aligned_cols=21  Identities=19%  Similarity=0.267  Sum_probs=18.2

Q ss_pred             EEEecCCCCChhHHHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ++|.|.+|+|||+|+.++...
T Consensus         5 ivllG~~~vGKTsll~r~~f~   25 (200)
T d1zcba2           5 ILLLGAGESGKSTFLKQMRII   25 (200)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            679999999999999998433

>d1kfta_ a.60.2.3 (A:) Excinuclease UvrC C-terminal domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: SAM domain-like
superfamily: RuvA domain 2-like
family: Excinuclease UvrC C-terminal domain
domain: Excinuclease UvrC C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=91.26  E-value=0.054  Score=34.24  Aligned_cols=46  Identities=20%  Similarity=0.268  Sum_probs=42.1

Q ss_pred             CCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHH
Q 047388           37 QGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEA   83 (352)
Q Consensus        37 ~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~   83 (352)
                      +|+.+...++|.++ |.+++.+..++.++|.++.|++..-+++|++.
T Consensus         8 ~gVG~~~a~~L~~~-F~s~~~i~~As~eeL~~v~GIg~~~A~~I~~~   53 (56)
T d1kfta_           8 EGVGPKRRQMLLKY-MGGLQGLRNASVEEIAKVPGISQGLAEKIFWS   53 (56)
T ss_dssp             TTCSSSHHHHHHHH-HSCHHHHHHCCHHHHTTSSSTTSHHHHHHHHH
T ss_pred             CCccHHHHHHHHHH-hCCHHHHHHhhHHHHHhcCCCCHHHHHHHHHH
Confidence            89999999999998 99999999999999999999999888877654

>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=91.19  E-value=0.032  Score=43.79  Aligned_cols=21  Identities=19%  Similarity=0.120  Sum_probs=8.3

Q ss_pred             EEEecCCCCChhHHHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~  149 (352)
                      ++|.|.+|+|||+|+.+++.+
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEECCCCC------------
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            688999999999999988754

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.10  E-value=0.035  Score=43.50  Aligned_cols=20  Identities=20%  Similarity=0.197  Sum_probs=17.0

Q ss_pred             EEEecCCCCChhHHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~  148 (352)
                      ++++|++|+|||+|+.+++.
T Consensus         6 i~vvG~~~vGKTsli~~~~~   25 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLT   25 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC-
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67899999999999987754

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.00  E-value=0.058  Score=42.52  Aligned_cols=22  Identities=32%  Similarity=0.522  Sum_probs=19.3

Q ss_pred             EEEecCCCCChhHHHHHHHHHh
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      +++.|++|+|||+|+.+++..-
T Consensus         8 i~vlG~~~vGKTsLi~~~~~~~   29 (175)
T d2bmja1           8 LGVLGDARSGKSSLIHRFLTGS   29 (175)
T ss_dssp             EEEECCTTTTHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6899999999999999987653

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=91.00  E-value=0.059  Score=42.47  Aligned_cols=21  Identities=19%  Similarity=0.218  Sum_probs=18.2

Q ss_pred             EEEEecCCCCChhHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCV  148 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~  148 (352)
                      -+.|+|.+|+|||||+..++.
T Consensus        10 kV~iiG~~~~GKSTLin~l~~   30 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILN   30 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHC
Confidence            478999999999999987753

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=90.40  E-value=0.036  Score=43.47  Aligned_cols=19  Identities=26%  Similarity=0.267  Sum_probs=17.0

Q ss_pred             EEEEecCCCCChhHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTL  146 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~l  146 (352)
                      -+.|+|+|++|||+|+..+
T Consensus        18 ~I~lvG~~NvGKSSL~n~L   36 (188)
T d1puia_          18 EVAFAGRSNAGKSSALNTL   36 (188)
T ss_dssp             EEEEEECTTSSHHHHHTTT
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            3899999999999999765

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=90.33  E-value=0.08  Score=43.37  Aligned_cols=23  Identities=17%  Similarity=0.232  Sum_probs=19.8

Q ss_pred             EEEecCCCCChhHHHHHHHHHhc
Q 047388          129 TEAFGEFRSGKTQLAHTLCVCTQ  151 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~~~  151 (352)
                      ++|.|.+|+|||+|+.++...-.
T Consensus         9 illlG~~~vGKTsll~~~~~~~~   31 (221)
T d1azta2           9 LLLLGAGESGKSTIVKQMRILHV   31 (221)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCCc
Confidence            68999999999999999876543

>d1x2ia1 a.60.2.5 (A:2-69) ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]}

class: All alpha proteins
fold: SAM domain-like
superfamily: RuvA domain 2-like
family: Hef domain-like
domain: ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

Probab=90.27  E-value=0.19  Score=32.87  Aligned_cols=48  Identities=13%  Similarity=0.203  Sum_probs=43.2

Q ss_pred             CCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHH
Q 047388           37 QGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAE   85 (352)
Q Consensus        37 ~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~   85 (352)
                      +|+.+...++|.++ |.|++.+..++.++|.++.|++...++.+.+...
T Consensus        16 ~gIG~~~a~~L~~~-f~s~~~i~~As~eeL~~i~GIG~~~A~~I~~~~~   63 (68)
T d1x2ia1          16 PHVSATLARRLLKH-FGSVERVFTASVAELMKVEGIGEKIAKEIRRVIT   63 (68)
T ss_dssp             TTCCHHHHHHHHHH-HCSHHHHHHCCHHHHTTSTTCCHHHHHHHHHHHH
T ss_pred             CCcCHHHHHHHHHH-cCCHHHHHHhHHHHHHhCCCcCHHHHHHHHHHHh
Confidence            89999999999998 9999999999999999999999988887766543

>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=90.21  E-value=0.075  Score=43.81  Aligned_cols=24  Identities=17%  Similarity=0.144  Sum_probs=20.9

Q ss_pred             cEEEEecCCCCChhHHHHHHHHHh
Q 047388          127 AITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       127 ~i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      .+++|.|.-||||||++..++...
T Consensus         3 k~IviEG~~GsGKST~~~~L~~~l   26 (241)
T d2ocpa1           3 RRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHH
Confidence            378999999999999999887653

>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=89.87  E-value=0.077  Score=44.69  Aligned_cols=22  Identities=14%  Similarity=0.104  Sum_probs=19.5

Q ss_pred             EEEEecCCCCChhHHHHHHHHH
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~  149 (352)
                      .++|+|.||+|||+|+..+...
T Consensus        34 ~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          34 TILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            4889999999999999988754

>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=89.81  E-value=0.091  Score=41.54  Aligned_cols=21  Identities=19%  Similarity=0.260  Sum_probs=19.0

Q ss_pred             EEEecCCCCChhHHHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~  149 (352)
                      +++.|.+|+|||+|+.++...
T Consensus         5 iv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            689999999999999998765

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.69  E-value=0.17  Score=43.08  Aligned_cols=49  Identities=20%  Similarity=0.266  Sum_probs=33.1

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhc-CC-------Cc----------cCCCCCeEEEEeCCCCCCh
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQ-LP-------TN----------MRGGNGKVAYIDTEGTFRP  174 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~-~~-------~~----------~gg~~~~vl~i~~e~~~~~  174 (352)
                      =.++.|+|+.++|||+|+.+++.... .+       .+          ..+.+..++++|+|+....
T Consensus        32 v~vvsi~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~Giw~~~~~~~~~~~~~~~~lDteG~~~~   98 (277)
T d1f5na2          32 MVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPHPKKPGHILVLLDTEGLGDV   98 (277)
T ss_dssp             EEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEECSSSTTCEEEEEEECCBCCG
T ss_pred             EEEEEEECCCCCCHHHHHHHHcCCCCCCccCCCCCCCCCceEEEEeeccCCCCceEEEEeccccccc
Confidence            35899999999999999998764321 00       00          0123456889999986554

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=89.67  E-value=0.03  Score=43.06  Aligned_cols=21  Identities=24%  Similarity=0.200  Sum_probs=18.6

Q ss_pred             EEEecCCCCChhHHHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~  149 (352)
                      +.|+|.|++|||+|+..+...
T Consensus         3 I~liG~~n~GKSSLin~l~g~   23 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLNE   23 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            689999999999999988754

>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=89.36  E-value=0.097  Score=41.17  Aligned_cols=21  Identities=19%  Similarity=0.279  Sum_probs=18.7

Q ss_pred             EEEecCCCCChhHHHHHHHHH
Q 047388          129 TEAFGEFRSGKTQLAHTLCVC  149 (352)
Q Consensus       129 ~~I~G~~GsGKTtl~~~la~~  149 (352)
                      +++.|..|+|||+|+.++...
T Consensus         5 ivllG~~~vGKTsl~~r~~~~   25 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKII   25 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhhC
Confidence            689999999999999998654

>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=88.92  E-value=0.22  Score=41.45  Aligned_cols=39  Identities=13%  Similarity=0.089  Sum_probs=27.0

Q ss_pred             CcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCC
Q 047388          126 GAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEG  170 (352)
Q Consensus       126 G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~  170 (352)
                      ..-+.|.|++|+|||.+|..+......      .....+.++...
T Consensus        23 ~~pvlI~Ge~GtGK~~~A~~ih~~s~~------~~~~~~~~~~~~   61 (247)
T d1ny5a2          23 ECPVLITGESGVGKEVVARLIHKLSDR------SKEPFVALNVAS   61 (247)
T ss_dssp             CSCEEEECSTTSSHHHHHHHHHHHSTT------TTSCEEEEETTT
T ss_pred             CCCEEEECCCCcCHHHHHHHHHHhcCC------cccccccchhhh
Confidence            445899999999999999877543322      345566666653

>d2olra1 c.91.1.1 (A:228-540) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Escherichia coli [TaxId: 562]

Probab=87.74  E-value=0.13  Score=44.38  Aligned_cols=21  Identities=38%  Similarity=0.558  Sum_probs=18.6

Q ss_pred             CCCcEEEEecCCCCChhHHHH
Q 047388          124 ETGAITEAFGEFRSGKTQLAH  144 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~  144 (352)
                      +.|++.+++|-||+|||||..
T Consensus        12 ~~~~~alfFGLSGTGKTTLs~   32 (313)
T d2olra1          12 EKGDVAVFFGLSGTGKTTLST   32 (313)
T ss_dssp             TTSCEEEEECSTTSSHHHHHC
T ss_pred             CCCCEEEEEccCCCCccccee
Confidence            458999999999999999874

>d1j3ba1 c.91.1.1 (A:212-529) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Thermus thermophilus [TaxId: 274]

Probab=87.37  E-value=0.13  Score=44.45  Aligned_cols=20  Identities=35%  Similarity=0.522  Sum_probs=18.0

Q ss_pred             CCcEEEEecCCCCChhHHHH
Q 047388          125 TGAITEAFGEFRSGKTQLAH  144 (352)
Q Consensus       125 ~G~i~~I~G~~GsGKTtl~~  144 (352)
                      .|++.+++|-||+|||||..
T Consensus        13 ~~~valffGLSGTGKTTLs~   32 (318)
T d1j3ba1          13 EGDVAVFFGLSGTGKTTLST   32 (318)
T ss_dssp             TCCEEEEEECTTSCHHHHTC
T ss_pred             CCCEEEEEccCCCCcccccc
Confidence            57899999999999999864

>d2q0zx1 a.289.1.1 (X:33-208) Protein pro2281 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Sec63 N-terminal domain-like
superfamily: Sec63 N-terminal domain-like
family: Sec63 N-terminal domain
domain: Protein pro2281
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.19  E-value=0.41  Score=37.39  Aligned_cols=52  Identities=10%  Similarity=0.217  Sum_probs=45.7

Q ss_pred             HHhCCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHH
Q 047388           34 LISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAE   85 (352)
Q Consensus        34 l~~~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~   85 (352)
                      +|=+++++..+.+|.++|+.|+.++...++.++...++++..+..++.+.+.
T Consensus       122 ~Qlp~~~~~~~~kl~~~~i~sl~~l~~~~~~e~~~ll~~~~~~~~~i~~~~~  173 (176)
T d2q0zx1         122 KQLPHFTSEHIKRCTDKGVESVFDIMEMEDEERNALLQLTDSQIADVARFCN  173 (176)
T ss_dssp             GGSTTCCHHHHHHHHHTTCCSHHHHHHSCHHHHHHHHCCCHHHHHHHHHHHT
T ss_pred             cCCCcCCHHHHHHHHHCCCCCHHHHHhCCHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3458899999999999999999999999999999999999988877776554

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=87.18  E-value=0.19  Score=43.89  Aligned_cols=34  Identities=18%  Similarity=0.159  Sum_probs=25.8

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEe
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYID  167 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~  167 (352)
                      .|.|-|+-|+||||++..++.....      .+.+++|+.
T Consensus         7 rI~IEG~iGsGKSTl~~~L~~~l~~------~g~~v~~~~   40 (331)
T d1osna_           7 RIYLDGAYGIGKTTAAEEFLHHFAI------TPNRILLIG   40 (331)
T ss_dssp             EEEEEESSSSCTTHHHHHHHHTTTT------SGGGEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhh------cCCceEEEe
Confidence            3789999999999999988765443      345666654

>d1ii2a1 c.91.1.1 (A:201-523) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Trypanosoma cruzi [TaxId: 5693]

Probab=86.87  E-value=0.16  Score=43.87  Aligned_cols=21  Identities=38%  Similarity=0.540  Sum_probs=18.7

Q ss_pred             CCCcEEEEecCCCCChhHHHH
Q 047388          124 ETGAITEAFGEFRSGKTQLAH  144 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~  144 (352)
                      +.|++.+++|-||+|||||..
T Consensus        12 ~~gd~alfFGLSGTGKTTLs~   32 (323)
T d1ii2a1          12 KQGDVTVFFGLSGTGKTTLSA   32 (323)
T ss_dssp             TTCCEEEEECCTTSSHHHHHC
T ss_pred             CCCCEEEEEccCCCCccccee
Confidence            357899999999999999984

>d1y88a1 a.60.4.3 (A:128-186) Hypothetical protein AF1548, C-terminal domain {Archaeoglobus fulgidus [TaxId: 2234]}

class: All alpha proteins
fold: SAM domain-like
superfamily: Rad51 N-terminal domain-like
family: Hypothetical protein AF1548, C-terminal domain
domain: Hypothetical protein AF1548, C-terminal domain
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=86.74  E-value=1.5  Score=25.82  Aligned_cols=51  Identities=24%  Similarity=0.406  Sum_probs=42.4

Q ss_pred             CCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHHHHh
Q 047388           37 QGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAEKIV   88 (352)
Q Consensus        37 ~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~   88 (352)
                      ..+....+..|.++|+.-|.|+.....+.|-. .|++..++++++..+.+..
T Consensus         6 lridkevldelvraglvfcrdvvsageeklre-iglsakkareviaeakkvi   56 (59)
T d1y88a1           6 LRIDKEVLDELVRAGLVFCRDVVSAGEEKLRE-IGLSAKKAREVIAEAKKVI   56 (59)
T ss_dssp             SSCCHHHHHHHHHTTCCBHHHHHHHCHHHHHH-TTCCHHHHHHHHHHHHHHH
T ss_pred             eeecHHHHHHHHHhchhhhHHHHhhhHHHHHH-hccchHHHHHHHHHHHhhc
Confidence            35788899999999999999999988877766 5999988888887776653

>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DNA repair protein RAD25
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=86.19  E-value=0.4  Score=38.40  Aligned_cols=42  Identities=19%  Similarity=-0.008  Sum_probs=28.4

Q ss_pred             hhHHhhcCCCCCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          114 ALDELLGGGIETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       114 ~LD~~L~GGl~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      .++.++.+     .-..|.+|+|+|||..+..++..         .+.+++++...
T Consensus        78 av~~~~~~-----~~~ll~~~tG~GKT~~a~~~~~~---------~~~~~Liv~p~  119 (206)
T d2fz4a1          78 ALERWLVD-----KRGCIVLPTGSGKTHVAMAAINE---------LSTPTLIVVPT  119 (206)
T ss_dssp             HHHHHTTT-----SEEEEEESSSTTHHHHHHHHHHH---------SCSCEEEEESS
T ss_pred             HHHHHHhC-----CCcEEEeCCCCCceehHHhHHHH---------hcCceeEEEcc
Confidence            45555533     23468899999999888766543         34578888754

>d1g8fa3 c.37.1.15 (A:390-511) ATP sulfurylase C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=85.27  E-value=0.58  Score=34.20  Aligned_cols=53  Identities=9%  Similarity=0.055  Sum_probs=34.8

Q ss_pred             CCCcEEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCCCCCChhhHHHHHHH
Q 047388          124 ETGAITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAER  183 (352)
Q Consensus       124 ~~G~i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e~~~~~~rl~~~~~~  183 (352)
                      ..|=.+.+.|-+|+||+|++..+......-  .  .+..+-.++..+   ..|+..++..
T Consensus         4 kqgf~i~~tg~~~~gk~~ia~al~~~l~q~--~--G~R~vtll~~~n---i~ri~fva~e   56 (122)
T d1g8fa3           4 KQGFSIVLGNSLTVSREQLSIALLSTFLQF--G--GGRYYKIFEHNN---KTELLSLIQD   56 (122)
T ss_dssp             GCCEEEEECTTCCSCHHHHHHHHHHHHTTS--C--SCCCEEECCCTT---CHHHHTTHHH
T ss_pred             ccceEEEEeCCCCCCHHHHHHHHHHHHHHh--c--CCcceEEecCCC---HHHHHHHHHH
Confidence            357788999999999999999776665431  0  234565666654   3455544443

>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=84.70  E-value=0.3  Score=39.86  Aligned_cols=23  Identities=26%  Similarity=0.380  Sum_probs=20.0

Q ss_pred             EEEEecCCCCChhHHHHHHHHHh
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCT  150 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~  150 (352)
                      ++.|.|.+.+|||||+..+....
T Consensus         7 ~IaIiGh~d~GKSTL~~~L~~~~   29 (227)
T d1g7sa4           7 IVSVLGHVDHGKTTLLDHIRGSA   29 (227)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEEeCCCccHHHHHHHHHhhc
Confidence            58999999999999998887654

>d1dxsa_ a.60.1.2 (A:) C-terminal domain of p73 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: SAM domain-like
superfamily: SAM/Pointed domain
family: SAM (sterile alpha motif) domain
domain: C-terminal domain of p73
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.26  E-value=0.57  Score=29.29  Aligned_cols=51  Identities=16%  Similarity=0.111  Sum_probs=39.5

Q ss_pred             HHHhCCCCHHHHHHHHHcCCCchhhhhcCChhhHHhhhCCCHHHHHHHHHHHH
Q 047388           33 KLISQGINAGDVKKLQDAGIYTCNGLMMHTKKHLTGIKGLSEAKVEKICEAAE   85 (352)
Q Consensus        33 ~l~~~~~~~~~~~~l~~~g~~t~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~   85 (352)
                      -|++.|+. .....+.++||.|++.+...+.++|.+ .|++..--.++++.+.
T Consensus         5 wL~~lgL~-~Y~~~F~~~G~~~l~~l~~lt~eDL~~-lGI~~~hr~kilk~i~   55 (57)
T d1dxsa_           5 FLTGLGCP-NCIEYFTSQGLQSIYHLQNLTIEDLGA-LKIPEQYRMTIWRGLQ   55 (57)
T ss_dssp             HHHHTTCT-TSHHHHHTTTCCCHHHHHTCCHHHHHH-TTCCTTTHHHHHHHHH
T ss_pred             HHHHCCcH-HHHHHHHHccCCcHHHHHHhhHHHHHH-cCCCHHHHHHHHHHHH
Confidence            45666776 678899999999999999999999988 5777544556665543

>d1hv8a1 c.37.1.19 (A:3-210) Putative DEAD box RNA helicase {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: Tandem AAA-ATPase domain
domain: Putative DEAD box RNA helicase
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=82.54  E-value=3.2  Score=32.79  Aligned_cols=38  Identities=13%  Similarity=-0.085  Sum_probs=23.6

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEEeCC
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYIDTE  169 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i~~e  169 (352)
                      -+.+.+++|+|||......+......    +.+-.++++...
T Consensus        44 d~iv~a~TGsGKT~~~~l~~~~~~~~----~~~~~~lil~pt   81 (208)
T d1hv8a1          44 NIVAQARTGSGKTASFAIPLIELVNE----NNGIEAIILTPT   81 (208)
T ss_dssp             EEEEECCSSSSHHHHHHHHHHHHSCS----SSSCCEEEECSC
T ss_pred             Ceeeechhcccccceeeccccccccc----ccCcceEEEeec
Confidence            46788999999998765444433221    134457776544

>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=82.35  E-value=0.53  Score=40.91  Aligned_cols=32  Identities=16%  Similarity=0.259  Sum_probs=23.7

Q ss_pred             EEEEecCCCCChhHHHHHHHHHhcCCCccCCCCCeEEEE
Q 047388          128 ITEAFGEFRSGKTQLAHTLCVCTQLPTNMRGGNGKVAYI  166 (352)
Q Consensus       128 i~~I~G~~GsGKTtl~~~la~~~~~~~~~gg~~~~vl~i  166 (352)
                      .|.|-|+-|+||||++..++....       .++.++++
T Consensus         8 rI~iEG~iGsGKSTl~~~L~~~l~-------~~~~v~~~   39 (333)
T d1p6xa_           8 RIYLDGVYGIGKSTTGRVMASAAS-------GGSPTLYF   39 (333)
T ss_dssp             EEEEECSTTSSHHHHHHHHHSGGG-------CSSCEEEE
T ss_pred             EEEEECCccCCHHHHHHHHHHHhc-------cCCCeEEE
Confidence            478999999999999997765433       23456665