Psyllid ID: psy16186

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-
Protein Sequence
MSGPWDELESKLKKPCPTKSMLEFENTTHISSEWEMVLQSSQPLWLGLRCLSSMIHLDLAVEHAMYVYDTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPNN
Secondary Structure (PSIPRED)
cccccccEEEcccccccHHHHHHHHHccccccHHHHHHcccccHHHHHccccHHHHHHHHHHHHHHHHcccEEEEccHHHHHcccccccHHHHHHHHHHHHHHHHHccccc
Secondary Structure Prediction (SSPRO)
ccccHHHHHHHHHcHHHHHHHEEEccccccccHHHHHHccccccEEEEEcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHcccc
Coil and Loop (DISEMBL)
msgpwdelesklkkpcptksmlefenttHISSEWEMVLQSSQPLWLGLRCLSSMIHLDLAVEHAMYVYDTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPNN
Flexible Loop (DISEMBL)
msgpwdelesklkkpcptksMLEFENTTHISSEWEMVLQSSQPLWLGLRCLSSMIHLDLAVEHAMYVYDTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPNN
Low Complexity Region (SEG)
MSGPWDELESKLKKPCPTKSMLEFENTTHISSEWEMVLQSSQPLWLGLRCLSSMIHLDLAVEHAMYVYDTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPNN
Disordered region (IsUnstruct)
***************************THISSEWEMVLQSSQPLWLGLRCLSSMIHLDLAVEHAMYVYDTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLS****
Disordered Region (DISOPRED)
MSGPWDELESKLKKPCPTKSMLEFENTTHISSEWEMVLQSSQPLWLGLRCLSSMIHLDLAVEHAMYVYDTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSL***
Disordered Region (DISEMBL)
************KKPCPTKSMLEFENTTHISSEWEMVLQSSQPLWLGLRCLSSMIHLDLAVEHAMYVYDTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPNN
Disordered Region (DISPRO)
***PWDELESKLKKPCPTKSMLEFENTTHISSEWEMVLQSSQPLWLGLRCLSSMIHLDLAVEHAMYVYDTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSL***
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MSGPWDELESKLKKPCPTKSMLEFENTTHISSEWEMVLQSSQPLWLGLRCLSSMIHLDLAVEHAMYVYDTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPNN
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	111	2.2.26 [Sep-21-2011]
Q96RR1	684	Twinkle protein, mitochon	no	N/A	0.405	0.065	0.533	9e-07
Q8CIW5	685	Twinkle protein, mitochon	yes	N/A	0.405	0.065	0.466	8e-06
Q5ZIW1	669	Twinkle protein, mitochon	yes	N/A	0.405	0.067	0.422	1e-05

>sp|Q96RR1|PEO1_HUMAN Twinkle protein, mitochondrial OS=Homo sapiens GN=PEO1 PE=1 SV=1

 Score = 52.4 bits (124), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 24/45 (53%), Positives = 30/45 (66%)

Query: 61  VEHAMYVYDTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYF 105
           ++HA+YVYD  HVIIDN+QFM+G    + DR   QD II V   F
Sbjct: 501 MQHAVYVYDICHVIIDNLQFMMGHEQLSTDRIAAQDYIIGVFRKF 545

Involved in mitochondrial DNA (mtDNA) metabolism. Could function as an adenine nucleotide-dependent DNA helicase. Function inferred to be critical for lifetime maintenance of mtDNA integrity. In vitro, forms in combination with POLG, a processive replication machinery, which can use double-stranded DNA (dsDNA) as template to synthesize single-stranded DNA (ssDNA) molecules. May be a key regulator of mtDNA copy number in mammals.
Homo sapiens (taxid: 9606)
EC: 3EC: .EC: 6EC: .EC: 4EC: .EC: 1EC: 2

>sp|Q8CIW5|PEO1_MOUSE Twinkle protein, mitochondrial OS=Mus musculus GN=Peo1 PE=2 SV=1

 Score = 49.3 bits (116), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 21/45 (46%), Positives = 29/45 (64%)

Query: 61  VEHAMYVYDTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYF 105
           ++HA+YVYD  HV+IDN+QFM+G    + DR   QD I+     F
Sbjct: 502 MQHAVYVYDVCHVVIDNLQFMMGHEQLSSDRIAAQDYIVGAFRKF 546

Involved in mitochondrial DNA (mtDNA) metabolism. Could function as an adenine nucleotide-dependent DNA helicase. Function infered to be critical for lifetime maintenance of mtDNA integrity. May be a key regulator of mtDNA copy number in mammals.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|Q5ZIW1|PEO1_CHICK Twinkle protein, mitochondrial OS=Gallus gallus GN=PEO1 PE=2 SV=1

 Score = 48.1 bits (113), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/45 (42%), Positives = 29/45 (64%)

Query: 61  VEHAMYVYDTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYF 105
           ++HA+Y+YD  HV++DN+QFM+G    + DR   QD I+     F
Sbjct: 507 MQHAVYMYDITHVVVDNLQFMMGHEQLSADRLAAQDFIVGAFRKF 551


  Database: swissprot
    Posted date:  Mar 23, 2013  2:32 AM
  Number of letters in database: 191,569,459
  Number of sequences in database:  539,616
  
Lambda     K      H
   0.321    0.135    0.416 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 39,443,485
Number of Sequences: 539616
Number of extensions: 1285324
Number of successful extensions: 2495
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 2492
Number of HSP's gapped (non-prelim): 3
length of query: 111
length of database: 191,569,459
effective HSP length: 79
effective length of query: 32
effective length of database: 148,939,795
effective search space: 4766073440
effective search space used: 4766073440
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.8 bits)

Involved in mitochondrial DNA (mtDNA) metabolism. Could function as an adenine nucleotide-dependent DNA helicase. Function inferred to be critical for lifetime maintenance of mtDNA integrity.

Gallus gallus (taxid: 9031)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

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	111
345490046	623	PREDICTED: twinkle protein, mitochondria	0.459	0.081	0.566	4e-08
195033436	616	GH10441 [Drosophila grimshawi] gi|193904	0.675	0.121	0.414	5e-08
270003724	403	hypothetical protein TcasGA2_TC002994 [T	0.459	0.126	0.528	6e-08
189235245	491	PREDICTED: similar to pom1 [Tribolium ca	0.459	0.103	0.528	8e-08
307166665	940	Twinkle protein, mitochondrial [Camponot	0.360	0.042	0.642	9e-08
195387513	641	GJ21636 [Drosophila virilis] gi|19414889	0.675	0.117	0.393	2e-07
383862285	555	PREDICTED: twinkle protein, mitochondria	0.459	0.091	0.528	3e-07
380019396	447	PREDICTED: twinkle protein, mitochondria	0.459	0.114	0.509	3e-07
328789280	452	PREDICTED: twinkle protein, mitochondria	0.459	0.112	0.509	5e-07
322795386	542	hypothetical protein SINV_00308 [Solenop	0.360	0.073	0.682	5e-07

>gi|345490046|ref|XP_001604051.2| PREDICTED: twinkle protein, mitochondrial-like [Nasonia vitripennis]

 Score = 62.0 bits (149), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 30/53 (56%), Positives = 37/53 (69%), Gaps = 2/53 (3%)

Query: 60  AVEHAMYVYDTGHVIIDNVQFMLGLSDSA--LDRFYMQDTIIQVLLYFLSLPN 110
           AVEHA YV+D  HVIIDNVQFM+G+SD +  +DRF+ QD II     F +  N
Sbjct: 471 AVEHATYVHDIAHVIIDNVQFMMGMSDESKFVDRFWKQDKIIGSFRTFATKFN 523

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195033436|ref|XP_001988685.1| GH10441 [Drosophila grimshawi] gi|193904685|gb|EDW03552.1| GH10441 [Drosophila grimshawi]

 Score = 61.6 bits (148), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 39/94 (41%), Positives = 49/94 (52%), Gaps = 19/94 (20%)

Query: 23  EFENTTHISSEWE------MVLQSSQPLWLGLRCLSSMIHLDLAVEHAMYVYDTGHVIID 76
           EFE   H +SE+E      M     QPL   L           A+EHA YV+D  HVIID
Sbjct: 437 EFE---HWASEFERLPLYFMTFHGQQPLKPVLE----------AIEHAQYVHDISHVIID 483

Query: 77  NVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN 110
           N+QFM+G+S    D+F+ QD+II     F S  N
Sbjct: 484 NLQFMMGVSSYRGDKFWEQDSIIAAFRAFASKHN 517

Source: Drosophila grimshawi

Species: Drosophila grimshawi

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|270003724|gb|EFA00172.1| hypothetical protein TcasGA2_TC002994 [Tribolium castaneum]

 Score = 61.6 bits (148), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 28/53 (52%), Positives = 37/53 (69%), Gaps = 2/53 (3%)

Query: 60  AVEHAMYVYDTGHVIIDNVQFMLGLSDSA--LDRFYMQDTIIQVLLYFLSLPN 110
           AVEHA YV+D  HVIIDNVQFM+G+++ +  +DRF+ QD II     F +  N
Sbjct: 256 AVEHATYVHDIAHVIIDNVQFMMGITEDSRHMDRFWTQDVIIAAFRSFATRKN 308

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|189235245|ref|XP_970366.2| PREDICTED: similar to pom1 [Tribolium castaneum]

 Score = 61.2 bits (147), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 28/53 (52%), Positives = 37/53 (69%), Gaps = 2/53 (3%)

Query: 60  AVEHAMYVYDTGHVIIDNVQFMLGLSDSA--LDRFYMQDTIIQVLLYFLSLPN 110
           AVEHA YV+D  HVIIDNVQFM+G+++ +  +DRF+ QD II     F +  N
Sbjct: 344 AVEHATYVHDIAHVIIDNVQFMMGITEDSRHMDRFWTQDVIIAAFRSFATRKN 396

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307166665|gb|EFN60662.1| Twinkle protein, mitochondrial [Camponotus floridanus]

 Score = 60.8 bits (146), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 27/42 (64%), Positives = 34/42 (80%), Gaps = 2/42 (4%)

Query: 60  AVEHAMYVYDTGHVIIDNVQFMLGLSDSA--LDRFYMQDTII 99
           AVEHA YV+D  HVIIDN+QFM+G+SD +  +DRF+ QD II
Sbjct: 789 AVEHATYVHDIAHVIIDNMQFMMGISDESKHMDRFWKQDKII 830

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195387513|ref|XP_002052440.1| GJ21636 [Drosophila virilis] gi|194148897|gb|EDW64595.1| GJ21636 [Drosophila virilis]

 Score = 60.1 bits (144), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 37/94 (39%), Positives = 50/94 (53%), Gaps = 19/94 (20%)

Query: 23  EFENTTHISSEWE------MVLQSSQPLWLGLRCLSSMIHLDLAVEHAMYVYDTGHVIID 76
           EFE   H ++E++      M  Q  QPL   L           A+EHA YV+D  HVIID
Sbjct: 462 EFE---HWATEFDRLPMYFMTFQGQQPLKPVLE----------AIEHAQYVHDISHVIID 508

Query: 77  NVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN 110
           N+QFM+G+S    D+F+ QD+II     F +  N
Sbjct: 509 NLQFMMGVSSYRGDKFWEQDSIIAAFRGFATKHN 542

Source: Drosophila virilis

Species: Drosophila virilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383862285|ref|XP_003706614.1| PREDICTED: twinkle protein, mitochondrial-like [Megachile rotundata]

 Score = 59.3 bits (142), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 28/53 (52%), Positives = 35/53 (66%), Gaps = 2/53 (3%)

Query: 60  AVEHAMYVYDTGHVIIDNVQFMLGLSDSA--LDRFYMQDTIIQVLLYFLSLPN 110
           AVEHA YV+D  HV+IDNVQFM+G S  +  +DRF+ QD II     F +  N
Sbjct: 403 AVEHATYVHDIAHVVIDNVQFMMGTSADSRHMDRFWTQDNIISRFRNFATKSN 455

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380019396|ref|XP_003693593.1| PREDICTED: twinkle protein, mitochondrial-like [Apis florea]

 Score = 58.9 bits (141), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 27/53 (50%), Positives = 38/53 (71%), Gaps = 2/53 (3%)

Query: 60  AVEHAMYVYDTGHVIIDNVQFMLGLSDSA--LDRFYMQDTIIQVLLYFLSLPN 110
           AVEHA YV+D  HV+IDNVQFM+G+++ +  +DRF+ QD II     F ++ N
Sbjct: 305 AVEHATYVHDIAHVVIDNVQFMMGMTNDSKYVDRFWKQDDIIAKFRNFATVYN 357

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328789280|ref|XP_003251258.1| PREDICTED: twinkle protein, mitochondrial-like [Apis mellifera]

 Score = 58.5 bits (140), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 27/53 (50%), Positives = 37/53 (69%), Gaps = 2/53 (3%)

Query: 60  AVEHAMYVYDTGHVIIDNVQFMLGLSDSA--LDRFYMQDTIIQVLLYFLSLPN 110
           AVEHA YV+D  HV+IDNVQFM+G+++ +  +DRF+ QD II     F +  N
Sbjct: 305 AVEHATYVHDIAHVVIDNVQFMMGMTNDSKYIDRFWKQDDIIAKFRNFATTYN 357

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322795386|gb|EFZ18165.1| hypothetical protein SINV_00308 [Solenopsis invicta]

 Score = 58.5 bits (140), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 28/41 (68%), Positives = 32/41 (78%), Gaps = 1/41 (2%)

Query: 60  AVEHAMYVYDTGHVIIDNVQFMLGLS-DSALDRFYMQDTII 99
           AVEHA YV+D  HVIIDNVQFM+G+S D   DRF+ QD II
Sbjct: 390 AVEHATYVHDIAHVIIDNVQFMMGMSEDITSDRFWKQDKII 430

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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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	111
UNIPROTKB|B4JE32	616	GH10441 "GH10441" [Drosophila	0.459	0.082	0.529	2.9e-08
UNIPROTKB|B4KJD8	620	GI24377 "GI24377" [Drosophila	0.459	0.082	0.509	6.1e-08
UNIPROTKB|B0XE78	660	CpipJ_CPIJ017385 "Pom1" [Culex	0.459	0.077	0.509	6.7e-08
UNIPROTKB|B4LRC5	641	GJ21636 "GJ21636" [Drosophila	0.459	0.079	0.509	8.2e-08
UNIPROTKB|B4HWB5	613	GM12211 "GM12211" [Drosophila	0.459	0.083	0.509	9.9e-08
UNIPROTKB|B4Q887	613	GD22331 "GD22331" [Drosophila	0.459	0.083	0.509	9.9e-08
UNIPROTKB|B4MTK6	618	GK23862 "GK23862" [Drosophila	0.459	0.082	0.509	1e-07
FB|FBgn0032154	613	mtDNA-helicase "mitochondrial	0.459	0.083	0.509	1.3e-07
UNIPROTKB|Q16JS5	671	AAEL013237 "AAEL013237-PA" [Ae	0.459	0.076	0.509	1.4e-07
UNIPROTKB|B3N8J2	613	GG24002 "GG24002" [Drosophila	0.459	0.083	0.509	1.6e-07

UNIPROTKB|B4JE32 GH10441 "GH10441" [Drosophila grimshawi (taxid:7222)]

 Score = 137 (53.3 bits), Expect = 2.9e-08, P = 2.9e-08
 Identities = 27/51 (52%), Positives = 35/51 (68%)

Query:    60 AVEHAMYVYDTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN 110
             A+EHA YV+D  HVIIDN+QFM+G+S    D+F+ QD+II     F S  N
Sbjct:   467 AIEHAQYVHDISHVIIDNLQFMMGVSSYRGDKFWEQDSIIAAFRAFASKHN 517

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

GO:0006264 "mitochondrial DNA replication" evidence=ISS

GO:0042645 "mitochondrial nucleoid" evidence=ISS

GO:0043139 "5'-3' DNA helicase activity" evidence=ISS

UNIPROTKB|B4KJD8 GI24377 "GI24377" [Drosophila mojavensis (taxid:7230)]

 Score = 134 (52.2 bits), Expect = 6.1e-08, P = 6.1e-08
 Identities = 26/51 (50%), Positives = 35/51 (68%)

Query:    60 AVEHAMYVYDTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN 110
             A+EHA YV+D  HVIIDN+QFM+G+S    D+F+ QD+II     F +  N
Sbjct:   471 AIEHAQYVHDISHVIIDNLQFMMGISSYRGDKFWEQDSIIAAFRGFATKHN 521

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

GO:0006264 "mitochondrial DNA replication" evidence=ISS

GO:0042645 "mitochondrial nucleoid" evidence=ISS

GO:0043139 "5'-3' DNA helicase activity" evidence=ISS

UNIPROTKB|B0XE78 CpipJ_CPIJ017385 "Pom1" [Culex quinquefasciatus (taxid:7176)]

 Score = 134 (52.2 bits), Expect = 6.7e-08, P = 6.7e-08
 Identities = 27/53 (50%), Positives = 37/53 (69%)

Query:    60 AVEHAMYVYDTGHVIIDNVQFMLGLSDSA--LDRFYMQDTIIQVLLYFLSLPN 110
             A+EHA YV+D  HVIIDN+QFM+G+S+ +  LDR++ QD II     F +  N
Sbjct:   508 AIEHAQYVHDIQHVIIDNLQFMMGVSEESKHLDRYWKQDAIIASFRTFATRKN 560

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

GO:0006264 "mitochondrial DNA replication" evidence=ISS

GO:0042645 "mitochondrial nucleoid" evidence=ISS

GO:0043139 "5'-3' DNA helicase activity" evidence=ISS

UNIPROTKB|B4LRC5 GJ21636 "GJ21636" [Drosophila virilis (taxid:7244)]

 Score = 133 (51.9 bits), Expect = 8.2e-08, P = 8.2e-08
 Identities = 26/51 (50%), Positives = 35/51 (68%)

Query:    60 AVEHAMYVYDTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN 110
             A+EHA YV+D  HVIIDN+QFM+G+S    D+F+ QD+II     F +  N
Sbjct:   492 AIEHAQYVHDISHVIIDNLQFMMGVSSYRGDKFWEQDSIIAAFRGFATKHN 542

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

GO:0006264 "mitochondrial DNA replication" evidence=ISS

GO:0042645 "mitochondrial nucleoid" evidence=ISS

GO:0043139 "5'-3' DNA helicase activity" evidence=ISS

UNIPROTKB|B4HWB5 GM12211 "GM12211" [Drosophila sechellia (taxid:7238)]

 Score = 132 (51.5 bits), Expect = 9.9e-08, P = 9.9e-08
 Identities = 26/51 (50%), Positives = 35/51 (68%)

Query:    60 AVEHAMYVYDTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN 110
             A+EHA YV+D  HVIIDN+QFM+G+S    D+F+ QD+II     F +  N
Sbjct:   467 AIEHASYVHDVMHVIIDNLQFMMGVSSFRGDKFFEQDSIIAAFRSFATKHN 517

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

GO:0006264 "mitochondrial DNA replication" evidence=ISS

GO:0042645 "mitochondrial nucleoid" evidence=ISS

GO:0043139 "5'-3' DNA helicase activity" evidence=ISS

UNIPROTKB|B4Q887 GD22331 "GD22331" [Drosophila simulans (taxid:7240)]

 Score = 132 (51.5 bits), Expect = 9.9e-08, P = 9.9e-08
 Identities = 26/51 (50%), Positives = 35/51 (68%)

Query:    60 AVEHAMYVYDTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN 110
             A+EHA YV+D  HVIIDN+QFM+G+S    D+F+ QD+II     F +  N
Sbjct:   467 AIEHASYVHDVMHVIIDNLQFMMGVSSFRGDKFFEQDSIIAAFRSFATKHN 517

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

GO:0006264 "mitochondrial DNA replication" evidence=ISS

GO:0042645 "mitochondrial nucleoid" evidence=ISS

GO:0043139 "5'-3' DNA helicase activity" evidence=ISS

UNIPROTKB|B4MTK6 GK23862 "GK23862" [Drosophila willistoni (taxid:7260)]

 Score = 132 (51.5 bits), Expect = 1.0e-07, P = 1.0e-07
 Identities = 26/51 (50%), Positives = 35/51 (68%)

Query:    60 AVEHAMYVYDTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN 110
             A+EHA YV+D  HVIIDN+QFM+G+S    D+F+ QD+II     F +  N
Sbjct:   473 AIEHASYVHDVQHVIIDNLQFMMGVSSYRGDKFWEQDSIIAAFRSFATKHN 523

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

GO:0006264 "mitochondrial DNA replication" evidence=ISS

GO:0042645 "mitochondrial nucleoid" evidence=ISS

GO:0043139 "5'-3' DNA helicase activity" evidence=ISS

FB|FBgn0032154 mtDNA-helicase "mitochondrial DNA helicase" [Drosophila melanogaster (taxid:7227)]

 Score = 131 (51.2 bits), Expect = 1.3e-07, P = 1.3e-07
 Identities = 26/51 (50%), Positives = 35/51 (68%)

Query:    60 AVEHAMYVYDTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN 110
             A+EHA YV+D  HVIIDN+QFM+G+S    D+F+ QD+II     F +  N
Sbjct:   467 AIEHASYVHDVMHVIIDNLQFMMGVSTFRGDKFFEQDSIIAAFRSFATKHN 517

GO:0006260 "DNA replication" evidence=IEA

GO:0043139 "5'-3' DNA helicase activity" evidence=IEA

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

GO:0005524 "ATP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

GO:0000002 "mitochondrial genome maintenance" evidence=IMP

GO:0051260 "protein homooligomerization" evidence=IDA

UNIPROTKB|Q16JS5 AAEL013237 "AAEL013237-PA" [Aedes aegypti (taxid:7159)]

 Score = 131 (51.2 bits), Expect = 1.4e-07, P = 1.4e-07
 Identities = 27/53 (50%), Positives = 35/53 (66%)

Query:    60 AVEHAMYVYDTGHVIIDNVQFMLGLSDSA--LDRFYMQDTIIQVLLYFLSLPN 110
             A+EHA YV D  HVIIDN+QFM+G+S+    LDR++ QD II     F +  N
Sbjct:   518 AIEHAQYVNDIHHVIIDNLQFMMGVSEDTKHLDRYWKQDAIIAAFRTFATRKN 570

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

GO:0006264 "mitochondrial DNA replication" evidence=ISS

GO:0042645 "mitochondrial nucleoid" evidence=ISS

GO:0043139 "5'-3' DNA helicase activity" evidence=ISS

UNIPROTKB|B3N8J2 GG24002 "GG24002" [Drosophila erecta (taxid:7220)]

 Score = 130 (50.8 bits), Expect = 1.6e-07, P = 1.6e-07
 Identities = 26/51 (50%), Positives = 35/51 (68%)

Query:    60 AVEHAMYVYDTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN 110
             A+EHA YV+D  HVIIDN+QFM+G+S    D+F+ QD+II     F +  N
Sbjct:   467 AIEHASYVHDVMHVIIDNLQFMMGISTYRGDKFWEQDSIIAAFRSFATKYN 517

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

GO:0006264 "mitochondrial DNA replication" evidence=ISS

GO:0042645 "mitochondrial nucleoid" evidence=ISS

GO:0043139 "5'-3' DNA helicase activity" 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

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

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	111
cd01122	271	cd01122, GP4d_helicase, GP4d_helicase is a homohex	3e-08

>gnl|CDD|238542 cd01122, GP4d_helicase, GP4d_helicase is a homohexameric 5'-3' helicases

 Score = 49.3 bits (118), Expect = 3e-08
 Identities = 11/43 (25%), Positives = 19/43 (44%)

Query: 60  AVEHAMYVYDTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVL 102
            V +    +   H+IIDN+  M+    ++ D     D I+  L
Sbjct: 131 KVRYMAVSHGIQHIIIDNLSIMVSDERASGDERKALDEIMTKL 173

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands. Length = 271

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	111
KOG2373|consensus	514		100.0
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	98.59
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	98.5
TIGR03600	421	phage_DnaB phage replicative helicase, DnaB family	98.41
TIGR00665	434	DnaB replicative DNA helicase. This model describe	98.33
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	98.2
PF03796	259	DnaB_C: DnaB-like helicase C terminal domain; Inte	98.13
PRK07004	460	replicative DNA helicase; Provisional	97.89
PRK05748	448	replicative DNA helicase; Provisional	97.69
PRK06749	428	replicative DNA helicase; Provisional	97.67
PRK08840	464	replicative DNA helicase; Provisional	97.65
PRK08506	472	replicative DNA helicase; Provisional	97.61
PRK06321	472	replicative DNA helicase; Provisional	97.57
PRK05595	444	replicative DNA helicase; Provisional	97.52
PRK06904	472	replicative DNA helicase; Validated	97.11
PRK08760	476	replicative DNA helicase; Provisional	96.84
PRK09165	497	replicative DNA helicase; Provisional	96.74
PRK05636	505	replicative DNA helicase; Provisional	96.74
PHA02542	473	41 41 helicase; Provisional	96.29
PRK07773	886	replicative DNA helicase; Validated	96.2
PRK08006	471	replicative DNA helicase; Provisional	95.88
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	90.92
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	89.41
PRK11823	446	DNA repair protein RadA; Provisional	88.31
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	85.92
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	85.56
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	84.65
COG0305	435	DnaB Replicative DNA helicase [DNA replication, re	80.89

>KOG2373|consensus

Probab=100.00  E-value=3.5e-44  Score=303.78  Aligned_cols=107  Identities=31%  Similarity=0.467  Sum_probs=98.4

Q ss_pred             CCcceecccCCccccchhhHHHhhcCcCc-----hHHHHHHhccCCCee-eccccCCchHHHHHHHHHHHHHhccceEEe
Q psy16186          2 SGPWDELESKLKKPCPTKSMLEFENTTHI-----SSEWEMVLQSSQPLW-LGLRCLSSMIHLDLAVEHAMYVYDTGHVII   75 (111)
Q Consensus         2 sTLWgSFE~~~~rl~~~~~m~Qfa~~~~~-----~~e~e~~f~~~lPl~-m~f~g~~~i~~V~dam~~avyv~dI~HVii   75 (111)
                      .||||||||+|+||++||+ .||+|-+..     ..-|++.| +.+|+| |.|||+++++.||++|+||+|||||+||||
T Consensus       303 nTLwgSFEi~n~rla~~mL-~Qyagyrl~drl~~y~HWadrF-Erlplyfmtfhgqq~~~~vi~~i~ha~yV~di~HViI  380 (514)
T KOG2373|consen  303 NTLWGSFEIPNKRLAHWML-VQYAGYRLLDRLNSYKHWADRF-ERLPLYFMTFHGQQFMEKVINEIAHAIYVEDIQHVII  380 (514)
T ss_pred             hheeeeeecchHHHHHHHH-HHHccCchHhhhhhhhHHHHHH-hccchHhhhhcccchHHHHHHHHHHHHHHHhhhhhhh
Confidence            5999999999999999996 999998432     25566666 359999 999999999999999999999999999999


Q ss_pred             cchhhhhcCCCcchhhhHHHHHHHHHHHhhhcCCC
Q psy16186         76 DNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        76 DNLQFmmg~~~~~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      ||||||||++.-+.|||..||+||+.||+|||++|
T Consensus       381 DNLQFmmg~~~~~~Drf~~QD~iig~fR~fAT~nn  415 (514)
T KOG2373|consen  381 DNLQFMMGQGMMALDRFHLQDRIIGYFRQFATQNN  415 (514)
T ss_pred             hhHHHHhccchhccchhhhHHHHHHHHHHHhhccc
Confidence            99999999999999999999999999999999998

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=98.59  E-value=1.8e-07  Score=70.03  Aligned_cols=107  Identities=15%  Similarity=0.123  Sum_probs=82.1

Q ss_pred             CCcceecccCCccccchhhHHHhhcCcC-------ch-HHHHHH-----hccCCCeeeccccCCchHHHHHHHHHHHHHh
Q psy16186          2 SGPWDELESKLKKPCPTKSMLEFENTTH-------IS-SEWEMV-----LQSSQPLWLGLRCLSSMIHLDLAVEHAMYVY   68 (111)
Q Consensus         2 sTLWgSFE~~~~rl~~~~~m~Qfa~~~~-------~~-~e~e~~-----f~~~lPl~m~f~g~~~i~~V~dam~~avyv~   68 (111)
                      +.||-|+|++.+.+++.++ .+..+.+.       .. .+|+..     .-...|+|....++-++++|.+.+++++..+
T Consensus        44 ~vly~s~E~~~~~~~~r~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~i~~~~~~~  122 (242)
T cd00984          44 PVLFFSLEMSKEQLLQRLL-ASESGISLSKLRTGSLSDEDWERLAEAIGELKELPIYIDDSSSLTVSDIRSRARRLKKEH  122 (242)
T ss_pred             ceEEEeCCCCHHHHHHHHH-HHhcCCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEeCCCCCCHHHHHHHHHHHHHhc
Confidence            4689999999999997653 55565521       11 233321     1135788877778889999999999999999


Q ss_pred             ccceEEecchhhhhcCCCcchhhhHHHHHHHHHHHhhhcCCC
Q psy16186         69 DTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        69 dI~HViiDNLQFmmg~~~~~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      ++..||||++|-+.... ...++...++.++..||+||.+.|
T Consensus       123 ~~~~vvID~l~~l~~~~-~~~~~~~~~~~~~~~L~~la~~~~  163 (242)
T cd00984         123 GLGLIVIDYLQLMSGSK-KKGNRQQEVAEISRSLKLLAKELN  163 (242)
T ss_pred             CCCEEEEcCchhcCCCC-CCCCHHHHHHHHHHHHHHHHHHhC
Confidence            99999999999875433 346888999999999999998776

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.

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

Probab=98.50  E-value=5.6e-07  Score=68.80  Aligned_cols=107  Identities=17%  Similarity=0.071  Sum_probs=78.8

Q ss_pred             CCcceecccCCccccchhhHHHhhcCcCc--------h-HHHH---HHhccCCC-eeecc-ccCCchHHHHHHHHHHHHH
Q psy16186          2 SGPWDELESKLKKPCPTKSMLEFENTTHI--------S-SEWE---MVLQSSQP-LWLGL-RCLSSMIHLDLAVEHAMYV   67 (111)
Q Consensus         2 sTLWgSFE~~~~rl~~~~~m~Qfa~~~~~--------~-~e~e---~~f~~~lP-l~m~f-~g~~~i~~V~dam~~avyv   67 (111)
                      +.+|-|+|++.+.+++.++ .+.++.+..        . .+++   +.+.+ .| +++.. .+..+++++++.+++++.-
T Consensus        61 ~vl~iS~E~~~~~~~~r~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~l~i~d~~~~~~~~~i~~~i~~~~~~  138 (271)
T cd01122          61 RVGTISLEEPVVRTARRLL-GQYAGKRLHLPDTVFIYTLEEFDAAFDEFEG-TGRLFMYDSFGEYSMDSVLEKVRYMAVS  138 (271)
T ss_pred             eEEEEEcccCHHHHHHHHH-HHHhCCCcccCCccccccHHHHHHHHHHhcC-CCcEEEEcCCCccCHHHHHHHHHHHHhc
Confidence            4689999999999987653 666665321        1 2332   33322 34 44333 3445899999999999999


Q ss_pred             hccceEEecchhhhhcCCCcchhhhHHHHHHHHHHHhhhcCCC
Q psy16186         68 YDTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        68 ~dI~HViiDNLQFmmg~~~~~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      |++..||||++|.|........++...++.++..|+++|.+.|
T Consensus       139 ~~~~~vvID~l~~l~~~~~~~~~~~~~~~~~~~~L~~la~~~~  181 (271)
T cd01122         139 HGIQHIIIDNLSIMVSDERASGDERKALDEIMTKLRGFATEHG  181 (271)
T ss_pred             CCceEEEECCHHHHhccCCCchhHHHHHHHHHHHHHHHHHHhC
Confidence            9999999999999986654456778889999999999998765

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

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

Probab=98.41  E-value=7.3e-07  Score=73.50  Aligned_cols=106  Identities=12%  Similarity=0.030  Sum_probs=83.2

Q ss_pred             CCcceecccCCccccchhhHHHhhcCcC--------chHHHHHHh-----ccCCCeeeccccCCchHHHHHHHHHHHHHh
Q psy16186          2 SGPWDELESKLKKPCPTKSMLEFENTTH--------ISSEWEMVL-----QSSQPLWLGLRCLSSMIHLDLAVEHAMYVY   68 (111)
Q Consensus         2 sTLWgSFE~~~~rl~~~~~m~Qfa~~~~--------~~~e~e~~f-----~~~lPl~m~f~g~~~i~~V~dam~~avyv~   68 (111)
                      ..+|.|+||+.+.|+.-++ .+.+|.+.        ...+|++..     -...|+|..-.+.-+++++...++....-+
T Consensus       225 ~v~~fSlEm~~~~l~~Rl~-~~~~~v~~~~~~~~~l~~~~~~~~~~~~~~l~~~~l~i~d~~~~t~~~i~~~~r~~~~~~  303 (421)
T TIGR03600       225 PVLFFSLEMSAEQLGERLL-ASKSGINTGNIRTGRFNDSDFNRLLNAVDRLSEKDLYIDDTGGLTVAQIRSIARRIKRKK  303 (421)
T ss_pred             cEEEEECCCCHHHHHHHHH-HHHcCCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            3689999999999997553 66676631        225565321     135799987788889999999999888777


Q ss_pred             -ccceEEecchhhhhcCCCcchhhhHHHHHHHHHHHhhhcCCC
Q psy16186         69 -DTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        69 -dI~HViiDNLQFmmg~~~~~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                       ++.-||||.||.|-+.  .+.+|......+...++++|.+.|
T Consensus       304 ~~~~lvvIDyLql~~~~--~~~~~~~~~~~i~~~Lk~lAke~~  344 (421)
T TIGR03600       304 GGLDLIVVDYIQLMAPT--RGRDRNEELGGISRGLKALAKELD  344 (421)
T ss_pred             CCCCEEEEecccccCCC--CCCCHHHHHHHHHHHHHHHHHHhC
Confidence             8999999999998753  346788889999999999999876

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.

>TIGR00665 DnaB replicative DNA helicase

Probab=98.33  E-value=2e-06  Score=70.85  Aligned_cols=107  Identities=17%  Similarity=0.130  Sum_probs=81.0

Q ss_pred             CCcceecccCCccccchhhHHHhhcCc--------CchHHHHHH-----hccCCCeeeccccCCchHHHHHHHHHHHHHh
Q psy16186          2 SGPWDELESKLKKPCPTKSMLEFENTT--------HISSEWEMV-----LQSSQPLWLGLRCLSSMIHLDLAVEHAMYVY   68 (111)
Q Consensus         2 sTLWgSFE~~~~rl~~~~~m~Qfa~~~--------~~~~e~e~~-----f~~~lPl~m~f~g~~~i~~V~dam~~avyv~   68 (111)
                      +.||-|+||+.+.+..-++ ..-++.+        .-..+|++.     .-...|+|..-.+..+++++...++..+.-|
T Consensus       226 ~vl~~SlEm~~~~i~~R~~-~~~~~v~~~~~~~g~l~~~~~~~~~~a~~~l~~~~l~i~d~~~~~~~~i~~~i~~~~~~~  304 (434)
T TIGR00665       226 PVAFFSLEMSAEQLAMRML-SSESRVDSQKLRTGKLSDEDWEKLTSAAGKLSEAPLYIDDTPGLTITELRAKARRLKREH  304 (434)
T ss_pred             eEEEEeCcCCHHHHHHHHH-HHhcCCCHHHhccCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            3578999999999987543 5555553        122556432     1145899977778889999999999999999


Q ss_pred             ccceEEecchhhhhcCCCcchhhhHHHHHHHHHHHhhhcCCC
Q psy16186         69 DTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        69 dI~HViiDNLQFmmg~~~~~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      ++.-||||.||.|-+... +.+|...-..+...|++||.+.|
T Consensus       305 ~~~~vvID~l~~i~~~~~-~~~r~~~i~~i~~~Lk~lA~e~~  345 (434)
T TIGR00665       305 GLGLIVIDYLQLMSGSGR-SENRQQEVSEISRSLKALAKELN  345 (434)
T ss_pred             CCCEEEEcchHhcCCCCC-CCCHHHHHHHHHHHHHHHHHHhC
Confidence            999999999999864432 34666666788999999998765

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.

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

Probab=98.20  E-value=1.2e-06  Score=63.16  Aligned_cols=104  Identities=13%  Similarity=-0.018  Sum_probs=57.5

Q ss_pred             CCcceecccCCccccchhhHHHhhcC-cCchHHHHHHhc--cCCCeeeccccCCchHHHHHHHHHHHHH-hccceEEecc
Q psy16186          2 SGPWDELESKLKKPCPTKSMLEFENT-THISSEWEMVLQ--SSQPLWLGLRCLSSMIHLDLAVEHAMYV-YDTGHVIIDN   77 (111)
Q Consensus         2 sTLWgSFE~~~~rl~~~~~m~Qfa~~-~~~~~e~e~~f~--~~lPl~m~f~g~~~i~~V~dam~~avyv-~dI~HViiDN   77 (111)
                      .+||-++|.+...+.+.+  .+..+. +.....+.....  +.+|++...++...++.+++.++.++.. +++..||||+
T Consensus        72 ~Vl~i~~E~~~~~~~~rl--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~lvviD~  149 (193)
T PF13481_consen   72 RVLYISLEDSESQIARRL--RALLQDYDDDANLFFVDLSNWGCIRLFEPDSGGPLLDEDLEELEAALKELYGPDLVVIDP  149 (193)
T ss_dssp             -EEEEESSS-HHHHHHHH--HHHHTTS-HHHHHHHHHH--E-EE---TTS---TTSHHHHHHHHHHHTT----SEEEEE-
T ss_pred             eEEEEeccCCHHHHHHHH--HHHhcccCCccceEEeeccccccceeeecccccccchHHHHHHHHHHhhcCCCcEEEEcC
Confidence            468999999987888653  333333 222222221111  3566764334444478889999888887 9999999999


Q ss_pred             hhhhhcCCCcchhhhHHHHHHHHHHHhhhcCCC
Q psy16186         78 VQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        78 LQFmmg~~~~~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      |+.+.+...   +.-.....++..+++||.+.|
T Consensus       150 l~~~~~~~~---~~~~~~~~~~~~l~~la~~~~  179 (193)
T PF13481_consen  150 LQSLHDGDE---NSNSAVAQLMQELKRLAKEYG  179 (193)
T ss_dssp             GGGG--S-T---T-HHHHHHHHHHHHHHHHHH-
T ss_pred             HHHHhcCCC---CCHHHHHHHHHHHHHHHHHcC
Confidence            999998832   222223899999999997654

>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=98.13  E-value=4.7e-06  Score=64.10  Aligned_cols=106  Identities=15%  Similarity=0.099  Sum_probs=83.8

Q ss_pred             CcceecccCCccccchhhHHHhhcCcC-------c-hHHHHHHh-----ccCCCeeeccccCCchHHHHHHHHHHHHH-h
Q psy16186          3 GPWDELESKLKKPCPTKSMLEFENTTH-------I-SSEWEMVL-----QSSQPLWLGLRCLSSMIHLDLAVEHAMYV-Y   68 (111)
Q Consensus         3 TLWgSFE~~~~rl~~~~~m~Qfa~~~~-------~-~~e~e~~f-----~~~lPl~m~f~g~~~i~~V~dam~~avyv-~   68 (111)
                      .|+-|+||+.+++...+ +...++.+.       + .++|++..     -+..|+|..-.++.++++|.+.++..... +
T Consensus        51 vly~SlEm~~~~l~~R~-la~~s~v~~~~i~~g~l~~~e~~~~~~~~~~l~~~~l~i~~~~~~~~~~i~~~i~~~~~~~~  129 (259)
T PF03796_consen   51 VLYFSLEMSEEELAARL-LARLSGVPYNKIRSGDLSDEEFERLQAAAEKLSDLPLYIEDTPSLTIDDIESKIRRLKREGK  129 (259)
T ss_dssp             EEEEESSS-HHHHHHHH-HHHHHTSTHHHHHCCGCHHHHHHHHHHHHHHHHTSEEEEEESSS-BHHHHHHHHHHHHHHST
T ss_pred             EEEEcCCCCHHHHHHHH-HHHhhcchhhhhhccccCHHHHHHHHHHHHHHhhCcEEEECCCCCCHHHHHHHHHHHHhhcc
Confidence            57899999999999755 488888832       2 26666431     14678887777888999999999988888 9


Q ss_pred             ccceEEecchhhhhcCCCcchhhhHHHHHHHHHHHhhhcCCC
Q psy16186         69 DTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        69 dI~HViiDNLQFmmg~~~~~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      ++.-||||.||-|-... .+.++....+.+...+|++|.+.|
T Consensus       130 ~~~~v~IDyl~ll~~~~-~~~~~~~~~~~i~~~Lk~lA~~~~  170 (259)
T PF03796_consen  130 KVDVVFIDYLQLLKSED-SSDNRRQEIGEISRELKALAKELN  170 (259)
T ss_dssp             TEEEEEEEEGGGSBTSC-SSSCCHHHHHHHHHHHHHHHHHHT
T ss_pred             CCCEEEechHHHhcCCC-CCCCHHHHHHHHHHHHHHHHHHcC
Confidence            99999999999776655 567788999999999999998765

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 ....

>PRK07004 replicative DNA helicase; Provisional

Probab=97.89  E-value=3.4e-05  Score=65.66  Aligned_cols=106  Identities=15%  Similarity=0.066  Sum_probs=80.1

Q ss_pred             CcceecccCCccccchhhHHHhhcCc--------CchHHHHHH-----hccCCCeeeccccCCchHHHHHHHHHHHHHh-
Q psy16186          3 GPWDELESKLKKPCPTKSMLEFENTT--------HISSEWEMV-----LQSSQPLWLGLRCLSSMIHLDLAVEHAMYVY-   68 (111)
Q Consensus         3 TLWgSFE~~~~rl~~~~~m~Qfa~~~--------~~~~e~e~~-----f~~~lPl~m~f~g~~~i~~V~dam~~avyv~-   68 (111)
                      .++-|+||+.+.|+.-++ ...++.+        .-.++|++.     .-+..|+|..-.++-++.++...++..+.-+ 
T Consensus       245 v~~fSlEM~~~ql~~R~l-a~~~~v~~~~i~~g~l~~~e~~~~~~a~~~l~~~~l~I~d~~~~~~~~i~~~~r~l~~~~~  323 (460)
T PRK07004        245 VAVFSMEMPGTQLAMRML-GSVGRLDQHRMRTGRLTDEDWPKLTHAVQKMSEAQLFIDETGGLNPMELRSRARRLARQCG  323 (460)
T ss_pred             EEEEeCCCCHHHHHHHHH-HhhcCCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhCC
Confidence            578899999999997664 5555542        223677642     1146899987788889999888877665545 


Q ss_pred             ccceEEecchhhhhcCCCcchhhhHHHHHHHHHHHhhhcCCC
Q psy16186         69 DTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        69 dI~HViiDNLQFmmg~~~~~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      ++..||||.||.|.+.. .+.+|...-..|...++.||.+.|
T Consensus       324 ~~~lviIDYLql~~~~~-~~~~r~~ei~~Isr~LK~lAkel~  364 (460)
T PRK07004        324 KLGLIIIDYLQLMSGSS-QGENRATEISEISRSLKSLAKELD  364 (460)
T ss_pred             CCCEEEEChhhhccCCC-CCCcHHHHHHHHHHHHHHHHHHhC
Confidence            59999999999997643 245688888999999999998765

>PRK05748 replicative DNA helicase; Provisional

Probab=97.69  E-value=0.00013  Score=61.12  Aligned_cols=107  Identities=14%  Similarity=0.085  Sum_probs=81.1

Q ss_pred             CcceecccCCccccchhhHHHhhcCcC--------chHHHHHH-----hccCCCeeeccccCCchHHHHHHHHHHHHHh-
Q psy16186          3 GPWDELESKLKKPCPTKSMLEFENTTH--------ISSEWEMV-----LQSSQPLWLGLRCLSSMIHLDLAVEHAMYVY-   68 (111)
Q Consensus         3 TLWgSFE~~~~rl~~~~~m~Qfa~~~~--------~~~e~e~~-----f~~~lPl~m~f~g~~~i~~V~dam~~avyv~-   68 (111)
                      .++-|+||+.+.|+..++ ...++.+.        -..+|++.     .-...|+|..-.+.-+++++...++..+..+ 
T Consensus       235 v~~fSlEms~~~l~~R~l-~~~~~v~~~~i~~~~l~~~e~~~~~~a~~~l~~~~~~i~d~~~~ti~~i~~~~r~~~~~~~  313 (448)
T PRK05748        235 VAIFSLEMGAESLVMRML-CAEGNIDAQRLRTGQLTDDDWPKLTIAMGSLSDAPIYIDDTPGIKVTEIRARCRRLAQEHG  313 (448)
T ss_pred             EEEEeCCCCHHHHHHHHH-HHhcCCCHHHhhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcC
Confidence            467899999999997654 56665532        22566532     1145899988788889999999999998888 


Q ss_pred             ccceEEecchhhhhcCCCcchhhhHHHHHHHHHHHhhhcCCC
Q psy16186         69 DTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        69 dI~HViiDNLQFmmg~~~~~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      ++.=||||.||-|-+....+.+|...=..+...|+++|-+.|
T Consensus       314 ~~~~vvIDyL~li~~~~~~~~~r~~~i~~i~~~LK~lAke~~  355 (448)
T PRK05748        314 GLGLILIDYLQLIQGSGRSGENRQQEVSEISRSLKALAKELK  355 (448)
T ss_pred             CCCEEEEccchhcCCCCCCCcCHHHHHHHHHHHHHHHHHHhC
Confidence            899999999998854433335677667889999999998765

>PRK06749 replicative DNA helicase; Provisional

Probab=97.67  E-value=0.00017  Score=60.99  Aligned_cols=108  Identities=16%  Similarity=0.099  Sum_probs=80.5

Q ss_pred             CCcceecccCCccccchhhHHHhhcCc---------Cc-hHHHHHH---h--ccCCCeeeccccCCchHHHHHHHHHHHH
Q psy16186          2 SGPWDELESKLKKPCPTKSMLEFENTT---------HI-SSEWEMV---L--QSSQPLWLGLRCLSSMIHLDLAVEHAMY   66 (111)
Q Consensus         2 sTLWgSFE~~~~rl~~~~~m~Qfa~~~---------~~-~~e~e~~---f--~~~lPl~m~f~g~~~i~~V~dam~~avy   66 (111)
                      +.+|-|.||+.+.|..-++ ..-++.+         .+ .++|++.   +  -+.+|+|..-.+.-++.+|...++.-..
T Consensus       216 ~v~~fSlEMs~~ql~~R~l-s~~~~i~~~~l~~~~~~l~~~e~~~~~~a~~~l~~~~i~i~d~~~~t~~~I~~~~r~~~~  294 (428)
T PRK06749        216 AVGLFSLEMSSKQLLKRMA-SCVGEVSGGRLKNPKHRFAMEDWEKVSKAFAEIGELPLEIYDNAGVTVQDIWMQTRKLKR  294 (428)
T ss_pred             CEEEEEeeCCHHHHHHHHH-HhccCCCHHHHhcCcccCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHH
Confidence            3578899999999987553 5544432         12 2677632   1  1568999887888899999999988887


Q ss_pred             Hhc--cceEEecchhhhhcCCCcchhhhHHHHHHHHHHHhhhcCCC
Q psy16186         67 VYD--TGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        67 v~d--I~HViiDNLQFmmg~~~~~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      .|+  ..-||||.||.|.+....+.+|+..-..|...|+.+|.+.|
T Consensus       295 ~~~~~~~lvvIDyLqli~~~~~~~~~r~~ei~~isr~LK~lAkel~  340 (428)
T PRK06749        295 KHGDKKILIIVDYLQLITGDPKHKGNRFQEISEISRKLKLLARELN  340 (428)
T ss_pred             hcCCCCcEEEEeChhhcCCCCCCCCCHHHHHHHHHHHHHHHHHHhC
Confidence            887  45999999999876433335688888899999999998765

>PRK08840 replicative DNA helicase; Provisional

Probab=97.65  E-value=0.00015  Score=62.01  Aligned_cols=106  Identities=9%  Similarity=-0.001  Sum_probs=79.0

Q ss_pred             CcceecccCCccccchhhHHHhhcCc--------CchHHHHHHh------ccCCCeeeccccCCchHHHHHHHHHHHHHh
Q psy16186          3 GPWDELESKLKKPCPTKSMLEFENTT--------HISSEWEMVL------QSSQPLWLGLRCLSSMIHLDLAVEHAMYVY   68 (111)
Q Consensus         3 TLWgSFE~~~~rl~~~~~m~Qfa~~~--------~~~~e~e~~f------~~~lPl~m~f~g~~~i~~V~dam~~avyv~   68 (111)
                      .++-|+||+.+.|+.-++ .+.++.+        .-..+|++..      .++.|+|..-.+.-++.++...++..+.-|
T Consensus       249 v~~fSlEMs~~ql~~Rll-a~~s~v~~~~i~~~~l~~~e~~~~~~a~~~l~~~~~l~I~d~~~~ti~~i~~~~r~~~~~~  327 (464)
T PRK08840        249 VLIFSLEMPAEQLMMRML-ASLSRVDQTKIRTGQLDDEDWARISSTMGILMEKKNMYIDDSSGLTPTEVRSRARRIAREH  327 (464)
T ss_pred             EEEEeccCCHHHHHHHHH-HhhCCCCHHHHhcCCCCHHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            578899999999997654 6766652        2237887632      146899987778888999998887766666


Q ss_pred             -ccceEEecchhhhhcCCCcchhhhHHHHHHHHHHHhhhcCCC
Q psy16186         69 -DTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        69 -dI~HViiDNLQFmmg~~~~~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                       ++..||||-||.|-+.+. ...|...=..|...|+.+|.+.|
T Consensus       328 ~~~~lvvIDYLql~~~~~~-~~~r~~ei~~isr~LK~lAkel~  369 (464)
T PRK08840        328 GGLSMIMVDYLQLMRVPAL-SDNRTLEIAEISRSLKALAKELN  369 (464)
T ss_pred             CCCCEEEEccHHhcCCCCC-CCchHHHHHHHHHHHHHHHHHhC
Confidence             599999999998853332 23455555789999999998876

>PRK08506 replicative DNA helicase; Provisional

Probab=97.61  E-value=0.00019  Score=61.18  Aligned_cols=106  Identities=16%  Similarity=0.116  Sum_probs=79.8

Q ss_pred             CcceecccCCccccchhhHHHhhcCcC--------chHHHHHHh-----ccCCCeeeccccCCchHHHHHHHHHHHHHh-
Q psy16186          3 GPWDELESKLKKPCPTKSMLEFENTTH--------ISSEWEMVL-----QSSQPLWLGLRCLSSMIHLDLAVEHAMYVY-   68 (111)
Q Consensus         3 TLWgSFE~~~~rl~~~~~m~Qfa~~~~--------~~~e~e~~f-----~~~lPl~m~f~g~~~i~~V~dam~~avyv~-   68 (111)
                      .++-|+||+.+.|+..++ .+.++.+.        -.++|++..     -...|+|..-.+..++.+|...++....-+ 
T Consensus       223 V~~fSlEMs~~ql~~Rll-a~~s~v~~~~i~~~~l~~~e~~~~~~a~~~l~~~~l~I~d~~~~ti~~I~~~~r~l~~~~~  301 (472)
T PRK08506        223 VAFFSLEMPAEQLMLRML-SAKTSIPLQNLRTGDLDDDEWERLSDACDELSKKKLFVYDSGYVNIHQVRAQLRKLKSQHP  301 (472)
T ss_pred             EEEEeCcCCHHHHHHHHH-HHhcCCCHHHHhcCCCCHHHHHHHHHHHHHHHcCCeEEECCCCCCHHHHHHHHHHHHHhCC
Confidence            467799999999997654 67676632        225676321     145899987778889999999999876655 


Q ss_pred             ccceEEecchhhhhcCCCcchhhhHHHHHHHHHHHhhhcCCC
Q psy16186         69 DTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        69 dI~HViiDNLQFmmg~~~~~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      ++.-||||.||-|-+.+. .-+|...-..|...++.+|.+.|
T Consensus       302 ~~~lvvIDyLql~~~~~~-~~~r~~ev~~isr~LK~lAkel~  342 (472)
T PRK08506        302 EIGLAVIDYLQLMSGSGN-FKDRHLQISEISRGLKLLARELD  342 (472)
T ss_pred             CCCEEEEcChhhccCCCC-CCCHHHHHHHHHHHHHHHHHHhC
Confidence            799999999998764332 24677777788999999998765

>PRK06321 replicative DNA helicase; Provisional

Probab=97.57  E-value=0.00023  Score=61.13  Aligned_cols=107  Identities=14%  Similarity=0.101  Sum_probs=78.9

Q ss_pred             CcceecccCCccccchhhHHHhhcCcC--------chHHHHHHhc-----cCCCeeeccccCCchHHHHHHHHHHHHHhc
Q psy16186          3 GPWDELESKLKKPCPTKSMLEFENTTH--------ISSEWEMVLQ-----SSQPLWLGLRCLSSMIHLDLAVEHAMYVYD   69 (111)
Q Consensus         3 TLWgSFE~~~~rl~~~~~m~Qfa~~~~--------~~~e~e~~f~-----~~lPl~m~f~g~~~i~~V~dam~~avyv~d   69 (111)
                      .+|-|.||+.+.|+.-++ ...++.+.        -.++|.+...     ...|+|.+-.++-+++++...++..+.-++
T Consensus       258 v~~fSLEMs~~ql~~Rll-a~~s~v~~~~i~~~~l~~~e~~~~~~a~~~l~~~~~~idd~~~~ti~~i~~~~r~~~~~~~  336 (472)
T PRK06321        258 VGIFSLEMTVDQLIHRII-CSRSEVESKKISVGDLSGRDFQRIVSVVNEMQEHTLLIDDQPGLKITDLRARARRMKESYD  336 (472)
T ss_pred             EEEEeccCCHHHHHHHHH-HhhcCCCHHHhhcCCCCHHHHHHHHHHHHHHHcCCEEEeCCCCCCHHHHHHHHHHHHHhcC
Confidence            468899999999997653 55555531        2367774211     468999777788899999999999999999


Q ss_pred             cceEEecchhhhhcCCC--cchhhhHHHHHHHHHHHhhhcCCC
Q psy16186         70 TGHVIIDNVQFMLGLSD--SALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        70 I~HViiDNLQFmmg~~~--~~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      +.-||||-||.|-+.+.  ...+|-..=..|...|+.||.+.|
T Consensus       337 ~~lvvIDyLql~~~~~~~~~~~~r~~ei~~Isr~LK~lAkel~  379 (472)
T PRK06321        337 IQFLIIDYLQLLSGSGNLRNSESRQTEISEISRMLKNLARELN  379 (472)
T ss_pred             CCEEEEcchHHcCCCCccCCcchHHHHHHHHHHHHHHHHHHhC
Confidence            99999999999865331  223443333568888999998765

>PRK05595 replicative DNA helicase; Provisional

Probab=97.52  E-value=0.00029  Score=59.10  Aligned_cols=106  Identities=12%  Similarity=0.079  Sum_probs=80.1

Q ss_pred             CcceecccCCccccchhhHHHhhcCcC--------chHHHHHHhc-----cCCCeeeccccCCchHHHHHHHHHHHHHhc
Q psy16186          3 GPWDELESKLKKPCPTKSMLEFENTTH--------ISSEWEMVLQ-----SSQPLWLGLRCLSSMIHLDLAVEHAMYVYD   69 (111)
Q Consensus         3 TLWgSFE~~~~rl~~~~~m~Qfa~~~~--------~~~e~e~~f~-----~~lPl~m~f~g~~~i~~V~dam~~avyv~d   69 (111)
                      .|+-|+||+.+.++.-++ ..-++.+.        -..+|.+...     ...|+|..-.+..+++++...++..+..++
T Consensus       233 vl~fSlEms~~~l~~R~~-a~~~~v~~~~~~~~~l~~~e~~~~~~~~~~l~~~~l~i~d~~~~t~~~i~~~~r~~~~~~~  311 (444)
T PRK05595        233 VAIFSLEMSKEQLAYKLL-CSEANVDMLRLRTGNLEDKDWENIARASGPLAAAKIFIDDTAGVSVMEMRSKCRRLKIEHG  311 (444)
T ss_pred             EEEEecCCCHHHHHHHHH-HHhcCCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcC
Confidence            578899999999997653 55555531        1256653211     458999888888999999999999888899


Q ss_pred             cceEEecchhhhhcCCCcchhhhHHHHHHHHHHHhhhcCCC
Q psy16186         70 TGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        70 I~HViiDNLQFmmg~~~~~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      +.=||||-||-|-+.. .+.+|...=..|-..++.+|.+.|
T Consensus       312 ~~~vvIDylql~~~~~-~~~~r~~~v~~is~~LK~lAke~~  351 (444)
T PRK05595        312 IDMILIDYLQLMSGGK-GSESRQQEVSEISRSIKALAKEME  351 (444)
T ss_pred             CCEEEEeHHHhccCCC-CCccHHHHHHHHHHHHHHHHHHhC
Confidence            9999999999885433 234566555788999999998765

>PRK06904 replicative DNA helicase; Validated

Probab=97.11  E-value=0.0017  Score=55.72  Aligned_cols=107  Identities=10%  Similarity=0.023  Sum_probs=76.1

Q ss_pred             CCcceecccCCccccchhhHHHhhcCc---------CchHHHHHH------hccCCCeeeccccCCchHHHHHHHHHHHH
Q psy16186          2 SGPWDELESKLKKPCPTKSMLEFENTT---------HISSEWEMV------LQSSQPLWLGLRCLSSMIHLDLAVEHAMY   66 (111)
Q Consensus         2 sTLWgSFE~~~~rl~~~~~m~Qfa~~~---------~~~~e~e~~------f~~~lPl~m~f~g~~~i~~V~dam~~avy   66 (111)
                      +.|+-|.||+.+.|+.-++ .+.++.+         .-.++|++.      ..+..|+|..-.++-++.+|...+.....
T Consensus       252 ~Vl~fSlEMs~~ql~~Rll-a~~s~v~~~~i~~g~~l~~~e~~~~~~a~~~l~~~~~l~I~d~~~~t~~~i~~~~r~~~~  330 (472)
T PRK06904        252 PVLVFSLEMPAEQIMMRML-ASLSRVDQTKIRTGQNLDQQDWAKISSTVGMFKQKPNLYIDDSSGLTPTELRSRARRVYR  330 (472)
T ss_pred             eEEEEeccCCHHHHHHHHH-HhhCCCCHHHhccCCCCCHHHHHHHHHHHHHHhcCCCEEEECCCCCCHHHHHHHHHHHHH
Confidence            3578899999999997654 6666642         223677642      22345699777777888998877765554


Q ss_pred             Hh-ccceEEecchhhhhcCCCcchhhhHHHHHHHHHHHhhhcCCC
Q psy16186         67 VY-DTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        67 v~-dI~HViiDNLQFmmg~~~~~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      -+ ++..||||-||.|-+.+. +.+|-..=..|...|+.+|.+.|
T Consensus       331 ~~~~~~lvvIDYLqli~~~~~-~~~r~~ei~~isr~LK~lAkel~  374 (472)
T PRK06904        331 ENGGLSLIMVDYLQLMRAPGF-EDNRTLEIAEISRSLKALAKELK  374 (472)
T ss_pred             hCCCCCEEEEecHHhcCCCCC-CCcHHHHHHHHHHHHHHHHHHhC
Confidence            44 799999999998865432 23455444788999999998876

>PRK08760 replicative DNA helicase; Provisional

Probab=96.84  E-value=0.004  Score=53.47  Aligned_cols=106  Identities=14%  Similarity=0.023  Sum_probs=76.4

Q ss_pred             CcceecccCCccccchhhHHHhhcCc--------CchHHHHHH-----hccCCCeeeccccCCchHHHHHHHHHHHHHhc
Q psy16186          3 GPWDELESKLKKPCPTKSMLEFENTT--------HISSEWEMV-----LQSSQPLWLGLRCLSSMIHLDLAVEHAMYVYD   69 (111)
Q Consensus         3 TLWgSFE~~~~rl~~~~~m~Qfa~~~--------~~~~e~e~~-----f~~~lPl~m~f~g~~~i~~V~dam~~avyv~d   69 (111)
                      .+.-|+||+.+.|+.-++ ..-++.+        .-..+|++.     .-.++|+|..-..+-+++++...++..+.-++
T Consensus       261 V~~fSlEMs~~ql~~Rl~-a~~s~i~~~~i~~g~l~~~e~~~~~~a~~~l~~~~l~I~d~~~~t~~~I~~~~r~l~~~~~  339 (476)
T PRK08760        261 VAVFSMEMSASQLAMRLI-SSNGRINAQRLRTGALEDEDWARVTGAIKMLKETKIFIDDTPGVSPEVLRSKCRRLKREHD  339 (476)
T ss_pred             eEEEeccCCHHHHHHHHH-HhhCCCcHHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEeCCCCCCHHHHHHHHHHHHHhcC
Confidence            356699999998886543 4444332        122566532     11458999777777889999999999988899


Q ss_pred             cceEEecchhhhhcCCCcchhhhHHHHHHHHHHHhhhcCCC
Q psy16186         70 TGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        70 I~HViiDNLQFmmg~~~~~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      +.=||||-||-|-..+ .+..|...=..|...++.+|.+.|
T Consensus       340 ~~lVvIDyLql~~~~~-~~~~r~~ei~~Isr~LK~lAkel~  379 (476)
T PRK08760        340 LGLIVIDYLQLMSVPG-NSENRATEISEISRSLKGLAKELN  379 (476)
T ss_pred             CCEEEEecHHhcCCCC-CCcccHHHHHHHHHHHHHHHHHhC
Confidence            9999999999775332 234566666788899999998765

>PRK09165 replicative DNA helicase; Provisional

Probab=96.74  E-value=0.0058  Score=52.68  Aligned_cols=106  Identities=17%  Similarity=0.129  Sum_probs=79.4

Q ss_pred             cceecccCCccccchhhHHHhhcCcC--------chHHHHHHh-----ccCCCeeeccccCCchHHHHHHHHHHHHHhcc
Q psy16186          4 PWDELESKLKKPCPTKSMLEFENTTH--------ISSEWEMVL-----QSSQPLWLGLRCLSSMIHLDLAVEHAMYVYDT   70 (111)
Q Consensus         4 LWgSFE~~~~rl~~~~~m~Qfa~~~~--------~~~e~e~~f-----~~~lPl~m~f~g~~~i~~V~dam~~avyv~dI   70 (111)
                      |.=|+||+.+.|+.-++ ..-++.+.        -.++|++..     -...|+|....+.-++.++...++..+.-+++
T Consensus       264 l~fSlEMs~~ql~~R~l-a~~s~v~~~~i~~~~l~~~e~~~l~~a~~~l~~~~l~I~d~~~~ti~~i~~~ir~l~~~~~~  342 (497)
T PRK09165        264 GFFSLEMSAEQLATRIL-SEQSEISSSKIRRGKISEEDFEKLVDASQELQKLPLYIDDTPALSISQLRARARRLKRQHGL  342 (497)
T ss_pred             EEEeCcCCHHHHHHHHH-HHhcCCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCeEEeCCCCCCHHHHHHHHHHHHHhcCC
Confidence            44599999999987543 55555531        236776422     14689998888888999999999988888999


Q ss_pred             ceEEecchhhhhcCCC-cchhhhHHHHHHHHHHHhhhcCCC
Q psy16186         71 GHVIIDNVQFMLGLSD-SALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        71 ~HViiDNLQFmmg~~~-~~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      .=||||=||-|-+... .+..|...-..|...++.+|.+.|
T Consensus       343 ~lvvIDyLqli~~~~~~~~~~r~~ev~~is~~LK~lAkel~  383 (497)
T PRK09165        343 DLLVVDYLQLIRGSSKRSSDNRVQEISEITQGLKALAKELN  383 (497)
T ss_pred             CEEEEcchHhccCCCCCCCCchHHHHHHHHHHHHHHHHHhC
Confidence            9999999998865443 235566667888899999998765

>PRK05636 replicative DNA helicase; Provisional

Probab=96.74  E-value=0.0056  Score=53.21  Aligned_cols=105  Identities=11%  Similarity=0.065  Sum_probs=76.3

Q ss_pred             cceecccCCccccchhhHHHhhcCc--------CchHHHHHHh-----ccCCCeeeccccCCchHHHHHHHHHHHHHhcc
Q psy16186          4 PWDELESKLKKPCPTKSMLEFENTT--------HISSEWEMVL-----QSSQPLWLGLRCLSSMIHLDLAVEHAMYVYDT   70 (111)
Q Consensus         4 LWgSFE~~~~rl~~~~~m~Qfa~~~--------~~~~e~e~~f-----~~~lPl~m~f~g~~~i~~V~dam~~avyv~dI   70 (111)
                      +.=|.||+.+.|+.-++ ..-++.+        .-.++|++..     -.+.|+|..-.+.-+++++...++..+.-+++
T Consensus       298 ~~fSlEMs~~ql~~R~l-s~~s~v~~~~i~~g~l~~~e~~~~~~a~~~l~~~~l~I~d~~~~ti~~I~~~~r~~~~~~~~  376 (505)
T PRK05636        298 VIFSLEMSKSEIVMRLL-SAEAEVRLSDMRGGKMDEDAWEKLVQRLGKIAQAPIFIDDSANLTMMEIRSKARRLKQKHDL  376 (505)
T ss_pred             EEEEeeCCHHHHHHHHH-HHhcCCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcCC
Confidence            34599999998886543 5545442        2237776421     14689998878888999999999998888999


Q ss_pred             ceEEecchhhhhcCCCcchhhhHHHHHHHHHHHhhhcCCC
Q psy16186         71 GHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        71 ~HViiDNLQFmmg~~~~~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      .=||||-||-|-.. ....+|-..=..|...|+.+|.+.|
T Consensus       377 ~lvvIDYLql~~~~-~~~~~r~~ei~~isr~LK~lAkel~  415 (505)
T PRK05636        377 KLIVVDYLQLMSSG-KRVESRQQEVSEFSRQLKLLAKELD  415 (505)
T ss_pred             CEEEEcchHhcCCC-CCCCcHHHHHHHHHHHHHHHHHHhC
Confidence            99999999987432 2223455445678889999998765

>PHA02542 41 41 helicase; Provisional

Probab=96.29  E-value=0.014  Score=50.41  Aligned_cols=108  Identities=9%  Similarity=0.027  Sum_probs=74.3

Q ss_pred             CCcceecccCCccccchhhHHHhhcCcC--c----hHHHHHHhc-----cCCCee--eccccCCchHHHHHHHHHHHHHh
Q psy16186          2 SGPWDELESKLKKPCPTKSMLEFENTTH--I----SSEWEMVLQ-----SSQPLW--LGLRCLSSMIHLDLAVEHAMYVY   68 (111)
Q Consensus         2 sTLWgSFE~~~~rl~~~~~m~Qfa~~~~--~----~~e~e~~f~-----~~lPl~--m~f~g~~~i~~V~dam~~avyv~   68 (111)
                      +.|+=|+||+...|...++ ...++.+.  +    .++|++...     ...|||  -..-+.-++.++-..++....-+
T Consensus       220 ~Vl~fSLEM~~~ql~~Rl~-a~~~~i~~~~l~~l~~~~~~~~~~~~~~~~~~~l~I~~~d~~~lt~~~ir~~~rrlk~~~  298 (473)
T PHA02542        220 NVLYISMEMAEEVIAKRID-ANLLDVSLDDIDDLSKAEYKAKMEKLRSKTQGKLIIKQYPTGGAHAGHFRALLNELKLKK  298 (473)
T ss_pred             cEEEEeccCCHHHHHHHHH-HHHcCCCHHHHhhcCHHHHHHHHHHHHHHhCCCceeecCCCCCCCHHHHHHHHHHHHHhc
Confidence            3567799999999887654 55565532  1    256764221     246775  34456677777766666555445


Q ss_pred             c--cceEEecchhhhhcCC--CcchhhhHHHHHHHHHHHhhhcCCC
Q psy16186         69 D--TGHVIIDNVQFMLGLS--DSALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        69 d--I~HViiDNLQFmmg~~--~~~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      +  +.=||||-||.|-+..  ..+-+|......|-..++.+|-+.|
T Consensus       299 g~~~dlVvIDYLqL~~~~~~~~~~~nr~~ei~~Isr~LK~lAkel~  344 (473)
T PHA02542        299 NFKPDVIIVDYLGICASSRLRVSSENSYTYVKAIAEELRGLAVEHD  344 (473)
T ss_pred             CCCCCEEEEechhhccCCcccCCCCChHHHHHHHHHHHHHHHHHhC
Confidence            5  7889999999996331  1236788889999999999998766

>PRK07773 replicative DNA helicase; Validated

Probab=96.20  E-value=0.014  Score=53.41  Aligned_cols=106  Identities=11%  Similarity=0.060  Sum_probs=79.5

Q ss_pred             CcceecccCCccccchhhHHHhhcCc--------CchHHHHHH-----hccCCCeeeccccCCchHHHHHHHHHHHHHhc
Q psy16186          3 GPWDELESKLKKPCPTKSMLEFENTT--------HISSEWEMV-----LQSSQPLWLGLRCLSSMIHLDLAVEHAMYVYD   69 (111)
Q Consensus         3 TLWgSFE~~~~rl~~~~~m~Qfa~~~--------~~~~e~e~~-----f~~~lPl~m~f~g~~~i~~V~dam~~avyv~d   69 (111)
                      .++-|+||+.+.|+.-++ ..-++.+        .-..+|.+.     .-...|+|..-.++-+++++...+...+.-++
T Consensus       249 V~~fSlEms~~ql~~R~~-s~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~i~i~d~~~~~i~~i~~~~r~~~~~~~  327 (886)
T PRK07773        249 VAIFSLEMSKEQLVMRLL-SAEAKIKLSDMRSGRMSDDDWTRLARAMGEISEAPIFIDDTPNLTVMEIRAKARRLRQEAN  327 (886)
T ss_pred             EEEEecCCCHHHHHHHHH-HHhcCCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcC
Confidence            467899999999987553 4444442        122566532     11468999888888899999999998888899


Q ss_pred             cceEEecchhhhhcCCCcchhhhHHHHHHHHHHHhhhcCCC
Q psy16186         70 TGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        70 I~HViiDNLQFmmg~~~~~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      +.=||||-||-|-+. ....+|...=..|...++.+|-+.|
T Consensus       328 ~~lvvIDyLql~~~~-~~~~~r~~ei~~isr~LK~lAkel~  367 (886)
T PRK07773        328 LGLIVVDYLQLMTSG-KKYENRQQEVSEISRHLKLLAKELE  367 (886)
T ss_pred             CCEEEEcchhhcCCC-CCCCCHHHHHHHHHHHHHHHHHHHC
Confidence            999999999987643 2345677667889999999998765

>PRK08006 replicative DNA helicase; Provisional

Probab=95.88  E-value=0.034  Score=47.88  Aligned_cols=106  Identities=11%  Similarity=0.007  Sum_probs=77.9

Q ss_pred             CcceecccCCccccchhhHHHhhcCc--------CchHHHHHH------hccCCCeeeccccCCchHHHHHHHHHHHHHh
Q psy16186          3 GPWDELESKLKKPCPTKSMLEFENTT--------HISSEWEMV------LQSSQPLWLGLRCLSSMIHLDLAVEHAMYVY   68 (111)
Q Consensus         3 TLWgSFE~~~~rl~~~~~m~Qfa~~~--------~~~~e~e~~------f~~~lPl~m~f~g~~~i~~V~dam~~avyv~   68 (111)
                      .+.-|.||+.+.|+.-++ .+.++.+        .-.++|.+.      .-++.|+|..-.+.-++.++...++..+--|
T Consensus       256 V~~fSlEM~~~ql~~Rll-a~~~~v~~~~i~~~~l~~~e~~~~~~a~~~~~~~~~l~I~d~~~~t~~~i~~~~r~~~~~~  334 (471)
T PRK08006        256 VLIFSLEMPGEQIMMRML-ASLSRVDQTRIRTGQLDDEDWARISGTMGILLEKRNMYIDDSSGLTPTEVRSRARRIFREH  334 (471)
T ss_pred             EEEEeccCCHHHHHHHHH-HHhcCCCHHHhhcCCCCHHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            356799999999997654 5656553        223677652      2146899988888889999999997777667


Q ss_pred             -ccceEEecchhhhhcCCCcchhhhHHHHHHHHHHHhhhcCCC
Q psy16186         69 -DTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        69 -dI~HViiDNLQFmmg~~~~~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                       ++.=||||=||-|-+.+. +.+|...=..|...|+.+|.+.|
T Consensus       335 ~~~~lvvIDYLqli~~~~~-~~~r~~ei~~isr~LK~lAkel~  376 (471)
T PRK08006        335 GGLSLIMIDYLQLMRVPSL-SDNRTLEIAEISRSLKALAKELQ  376 (471)
T ss_pred             CCCCEEEEccHHHccCCCC-CCCcHHHHHHHHHHHHHHHHHhC
Confidence             799999999998754432 24455444778899999998765

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=90.92  E-value=0.55  Score=39.44  Aligned_cols=59  Identities=19%  Similarity=0.146  Sum_probs=41.0

Q ss_pred             cccCCchHHHHHHHHHHHHHhccceEEecchhhhhcCCCc-chhhhHHHHHHHHHHHhhhcCCC
Q psy16186         48 LRCLSSMIHLDLAVEHAMYVYDTGHVIIDNVQFMLGLSDS-ALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        48 f~g~~~i~~V~dam~~avyv~dI~HViiDNLQFmmg~~~~-~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      +...+++++++++++    .+++.-||||.+|+|...... +-++...-..++..|+++|.++|
T Consensus       141 l~~e~~le~I~~~i~----~~~~~lVVIDSIq~l~~~~~~~~~g~~~qvr~~~~~L~~lak~~~  200 (372)
T cd01121         141 LLAETNLEDILASIE----ELKPDLVIIDSIQTVYSSELTSAPGSVSQVRECTAELMRFAKERN  200 (372)
T ss_pred             EEccCcHHHHHHHHH----hcCCcEEEEcchHHhhccccccCCCCHHHHHHHHHHHHHHHHHcC
Confidence            345667777777664    478999999999999754432 23344445567788999987765

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.

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=89.41  E-value=1.2  Score=34.12  Aligned_cols=54  Identities=22%  Similarity=0.196  Sum_probs=40.0

Q ss_pred             CCchHHHHHHHHHHHHHhccceEEecchhhhhcCCCcchhhhHHHHHHHHHHHhhhcCCC
Q psy16186         51 LSSMIHLDLAVEHAMYVYDTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        51 ~~~i~~V~dam~~avyv~dI~HViiDNLQFmmg~~~~~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      ..+++++++.+..++--++...||||.|+=+.-.. ....|     +++..|.+++++.|
T Consensus       108 ~~~~~~~~~~i~~~i~~~~~~~vVIDSls~l~~~~-~~~~r-----~~l~~l~~~lk~~~  161 (237)
T TIGR03877       108 PTDVRELIDVLRQAIRDINAKRVVIDSVTTLYITK-PAMAR-----SIVMQLKRVLSGLG  161 (237)
T ss_pred             cccHHHHHHHHHHHHHHhCCCEEEEcChhHhhcCC-hHHHH-----HHHHHHHHHHHhCC
Confidence            46899999999999999999999999997543221 11122     56777888776655

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.

>PRK11823 DNA repair protein RadA; Provisional

Probab=88.31  E-value=1.2  Score=38.14  Aligned_cols=58  Identities=12%  Similarity=0.052  Sum_probs=40.7

Q ss_pred             ccCCchHHHHHHHHHHHHHhccceEEecchhhhhcCCCcc-hhhhHHHHHHHHHHHhhhcCCC
Q psy16186         49 RCLSSMIHLDLAVEHAMYVYDTGHVIIDNVQFMLGLSDSA-LDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        49 ~g~~~i~~V~dam~~avyv~dI~HViiDNLQFmmg~~~~~-~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      ...++++++++.++    -+++.-||||.+|.+......+ .++....-.++..|+++|.++|
T Consensus       140 ~~e~~l~~i~~~i~----~~~~~lVVIDSIq~l~~~~~~~~~g~~~qvr~~~~~L~~~ak~~~  198 (446)
T PRK11823        140 LAETNLEAILATIE----EEKPDLVVIDSIQTMYSPELESAPGSVSQVRECAAELMRLAKQRG  198 (446)
T ss_pred             eCCCCHHHHHHHHH----hhCCCEEEEechhhhccccccCCCCCHHHHHHHHHHHHHHHHHcC
Confidence            35567777777664    4788999999999987643222 3444555667788999987765

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=85.92  E-value=1.6  Score=32.53  Aligned_cols=59  Identities=15%  Similarity=0.126  Sum_probs=41.4

Q ss_pred             CchHHHHHHHHHHHHHh-ccceEEecchhhhhcCC--Cc--chhhhHHHHHHHHHHHhhhcCCC
Q psy16186         52 SSMIHLDLAVEHAMYVY-DTGHVIIDNVQFMLGLS--DS--ALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        52 ~~i~~V~dam~~avyv~-dI~HViiDNLQFmmg~~--~~--~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      ..+.++++.++..+--+ ++.-||||.+..+....  ..  ..+|...=-+++..++++|.+.|
T Consensus        97 ~~l~~~l~~l~~~l~~~~~~~liVIDSis~~~~~~~~~~~~~~~r~~~l~~~~~~L~~la~~~~  160 (235)
T cd01123          97 DHQLQLLEELEAILIESSRIKLVIVDSVTALFRAEFDGRGELAERQQHLAKLLRTLKRLADEFN  160 (235)
T ss_pred             HHHHHHHHHHHHHHhhcCCeeEEEEeCcHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHhC
Confidence            34555667777777777 99999999999875422  11  24555555678899999997665

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 .

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

Probab=85.56  E-value=2.3  Score=31.44  Aligned_cols=60  Identities=15%  Similarity=0.007  Sum_probs=39.7

Q ss_pred             CCchHHHHHHHHHHHH---HhccceEEecchhhhhcCCC--c--chhhhHHHHHHHHHHHhhhcCCC
Q psy16186         51 LSSMIHLDLAVEHAMY---VYDTGHVIIDNVQFMLGLSD--S--ALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        51 ~~~i~~V~dam~~avy---v~dI~HViiDNLQFmmg~~~--~--~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      ..+.+++++.++....   -+++.=||||.++.+.....  .  ..+|-..=.+++..++++|.++|
T Consensus        93 ~~~~~~~~~~l~~~~~~~~~~~~~lvVIDsis~l~~~~~~~~~~~~~~~~~l~~~~~~L~~~a~~~~  159 (226)
T cd01393          93 PYNGEQQLEIVEELERIMSSGRVDLVVVDSVAALFRKEFIGRGMLAERARLLSQALRKLLRLADKFN  159 (226)
T ss_pred             CCCHHHHHHHHHHHHHHhhcCCeeEEEEcCcchhhhhhhcCCchHHHHHHHHHHHHHHHHHHHHHhC
Confidence            3456666666665544   67899999999988765321  1  13444444567888999998765

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.

>TIGR00416 sms DNA repair protein RadA

Probab=84.65  E-value=2.3  Score=36.53  Aligned_cols=61  Identities=11%  Similarity=0.046  Sum_probs=40.1

Q ss_pred             eccccCCchHHHHHHHHHHHHHhccceEEecchhhhhcCCCcc-hhhhHHHHHHHHHHHhhhcCCC
Q psy16186         46 LGLRCLSSMIHLDLAVEHAMYVYDTGHVIIDNVQFMLGLSDSA-LDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        46 m~f~g~~~i~~V~dam~~avyv~dI~HViiDNLQFmmg~~~~~-~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      +.+...+++++++++++    -++..-||||.+|.|.-....+ -......-..+..|.++|.+.|
T Consensus       151 l~~~~e~~~~~I~~~i~----~~~~~~vVIDSIq~l~~~~~~~~~g~~~q~r~~~~~L~~~ak~~g  212 (454)
T TIGR00416       151 LYVLSETNWEQICANIE----EENPQACVIDSIQTLYSPDISSAPGSVSQVRECTAELMRLAKTRG  212 (454)
T ss_pred             eEEcCCCCHHHHHHHHH----hcCCcEEEEecchhhcccccccCCCCHHHHHHHHHHHHHHHHHhC
Confidence            33445667777776664    4688899999999986543221 2233344566778888887765

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)).

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

Probab=80.89  E-value=4.9  Score=35.13  Aligned_cols=83  Identities=17%  Similarity=0.151  Sum_probs=65.9

Q ss_pred             cceecccCCccccchhhHHHhhcCc--------CchHHHHHH-----hccCCCeeeccccCCchHHHHHHHHHHHHHhcc
Q psy16186          4 PWDELESKLKKPCPTKSMLEFENTT--------HISSEWEMV-----LQSSQPLWLGLRCLSSMIHLDLAVEHAMYVYDT   70 (111)
Q Consensus         4 LWgSFE~~~~rl~~~~~m~Qfa~~~--------~~~~e~e~~-----f~~~lPl~m~f~g~~~i~~V~dam~~avyv~dI   70 (111)
                      ++-|.||+.+-|+.-++ ..-++.+        ....+|++.     .-...|+|..=.+.-++.++-...+--.--|+|
T Consensus       229 ~iFSLEM~~eql~~R~L-s~~s~v~~~kirtg~l~~~d~~~l~~a~~~l~~~~i~IdD~~~~si~eir~~aRrlk~~~~l  307 (435)
T COG0305         229 AIFSLEMSEEQLVMRLL-SSESGIESSKLRTGRLSDDEWERLIKAASELSEAPIFIDDTPGLTITEIRSKARRLKLKHNL  307 (435)
T ss_pred             EEEEccCCHHHHHHHhh-ccccccchhccccccccHHHHHHHHHHHHHHhhCCeeecCCCcCCHHHHHHHHHHHHHhcCc
Confidence            57799999999986554 3444442        133888853     225689998888999999999999999999999


Q ss_pred             ceEEecchhhhhcCCCc
Q psy16186         71 GHVIIDNVQFMLGLSDS   87 (111)
Q Consensus        71 ~HViiDNLQFmmg~~~~   87 (111)
                      .-|+||=||.|-|....
T Consensus       308 ~~i~iDYLqLm~~~~~~  324 (435)
T COG0305         308 GLIVIDYLQLMTGGKKS  324 (435)
T ss_pred             cEEEEEEEEeecccccc
Confidence            99999999999998854

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	111
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	2e-04

>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 Length = 503

 Score = 38.2 bits (88), Expect = 2e-04
 Identities = 11/91 (12%), Positives = 28/91 (30%), Gaps = 8/91 (8%)

Query: 19  KSMLEFENTTHISSEWEMVLQSSQPLWLGLRCL-------SSMIHLDLAVEHAMYVYDTG 71
             + + ++      E     Q    L+             +    L   + +        
Sbjct: 297 VRLRQSDSLKREIIENGKFDQWFDELFGNDTFHLYDSFAEAETDRLLAKLAYMRSGLGCD 356

Query: 72  HVIIDNVQFMLGLSDSALDRFYMQDTIIQVL 102
            +I+D++  ++  S  + D   M D ++  L
Sbjct: 357 VIILDHISIVVSASGES-DERKMIDNLMTKL 386

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	111
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	98.39
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	98.19
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	98.03
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	97.9
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	97.87
2r6a_A	454	DNAB helicase, replicative helicase; replication,	97.77
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	96.85
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	96.18
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	93.42
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	89.07
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	88.49
2z43_A	324	DNA repair and recombination protein RADA; archaea	86.16
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	83.29
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	81.77

>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=98.39  E-value=3.1e-07  Score=74.97  Aligned_cols=107  Identities=10%  Similarity=0.052  Sum_probs=79.5

Q ss_pred             CCcceecccCCccccchhhHHHhhcCcCc-----------hHHHHHHhc---cCCCee-eccccCCchHHHHHHHHHHHH
Q psy16186          2 SGPWDELESKLKKPCPTKSMLEFENTTHI-----------SSEWEMVLQ---SSQPLW-LGLRCLSSMIHLDLAVEHAMY   66 (111)
Q Consensus         2 sTLWgSFE~~~~rl~~~~~m~Qfa~~~~~-----------~~e~e~~f~---~~lPl~-m~f~g~~~i~~V~dam~~avy   66 (111)
                      ..||-|+|++.+.+...++ .+..+.+..           .++|++...   +..|+| ....|+.+++++++.++..+.
T Consensus       273 ~vl~~s~E~s~~~l~~r~~-~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~~~~l~i~~~~~~~~~~~i~~~i~~~~~  351 (503)
T 1q57_A          273 KVGLAMLEESVEETAEDLI-GLHNRVRLRQSDSLKREIIENGKFDQWFDELFGNDTFHLYDSFAEAETDRLLAKLAYMRS  351 (503)
T ss_dssp             CEEEEESSSCHHHHHHHHH-HHHTTSCCTTCHHHHHHHHHTSHHHHHHHHHHTTTCEEEECCC---CHHHHHHHHHHHHH
T ss_pred             cEEEEeccCCHHHHHHHHH-HHHcCCChhhccccccCCCCHHHHHHHHHHHhccCCEEEECCCCCCCHHHHHHHHHHHHH
Confidence            3689999999998887553 566665421           144543221   357888 666677999999999999999


Q ss_pred             HhccceEEecchhhhhcCCCcchhhhHHHHHHHHHHHhhhcCCC
Q psy16186         67 VYDTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        67 v~dI~HViiDNLQFmmg~~~~~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      .+++..||||.||.|.+.. .+.+|......++..|+++|.+.|
T Consensus       352 ~~~~~lvVID~l~~l~~~~-~~~~~~~~~~~~~~~Lk~lak~~~  394 (503)
T 1q57_A          352 GLGCDVIILDHISIVVSAS-GESDERKMIDNLMTKLKGFAKSTG  394 (503)
T ss_dssp             TTCCSEEEEECTTCCCSCC-SCCCHHHHHHHHHHHHHHHHHHHT
T ss_pred             hcCCCEEEEccchhcCCCC-CCCCHHHHHHHHHHHHHHHHHHHC
Confidence            9999999999999987543 345788888999999999998765

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=98.19  E-value=3.9e-07  Score=73.48  Aligned_cols=106  Identities=15%  Similarity=0.138  Sum_probs=82.4

Q ss_pred             CcceecccCCccccchhhHHHhhcCcC--------chHHHHHHhc-----cCCCeeeccccCCchHHHHHHHHHHHHHh-
Q psy16186          3 GPWDELESKLKKPCPTKSMLEFENTTH--------ISSEWEMVLQ-----SSQPLWLGLRCLSSMIHLDLAVEHAMYVY-   68 (111)
Q Consensus         3 TLWgSFE~~~~rl~~~~~m~Qfa~~~~--------~~~e~e~~f~-----~~lPl~m~f~g~~~i~~V~dam~~avyv~-   68 (111)
                      .||-|+||+.+.|...++ ...++.+.        -..+|.+...     ...|+|..-.++.+++++...++..+..| 
T Consensus        77 Vl~fSlEms~~ql~~Rll-s~~~~v~~~~l~~g~Ls~~e~~~l~~a~~~l~~~~l~I~d~~~~si~~i~~~ir~l~~~~g  155 (338)
T 4a1f_A           77 VAVFSLEMSAEQLALRAL-SDLTSINMHDLESGRLDDDQWENLAKCFDHLSQKKLFFYDKSYVRIEQIRLQLRKLKSQHK  155 (338)
T ss_dssp             EEEEESSSCHHHHHHHHH-HHHHCCCHHHHHHTCCCHHHHHHHHHHHHHHHHSCEEEECCTTCCHHHHHHHHHHHHHHCT
T ss_pred             EEEEeCCCCHHHHHHHHH-HHhhCCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCeEEeCCCCCcHHHHHHHHHHHHHhcC
Confidence            578999999999987653 66666531        2356664211     34799955557778999999999999999 


Q ss_pred             ccceEEecchhhhhcCCCcchhhhHHHHHHHHHHHhhhcCCC
Q psy16186         69 DTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        69 dI~HViiDNLQFmmg~~~~~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      ++..||||.||.|.+... +.+|......+...|+++|.+.|
T Consensus       156 g~~lIVIDyLqlm~~~~~-~~~r~~ei~~isr~LK~lAkel~  196 (338)
T 4a1f_A          156 ELGIAFIDYLQLMSGSKA-TKERHEQIAEISRELKTLARELE  196 (338)
T ss_dssp             TEEEEEEEEEECCCTHHH-HHHCCCCHHHHHHHHHHHHHHHT
T ss_pred             CCCEEEEechHHhcCCCC-CCChHHHHHHHHHHHHHHHHHcC
Confidence            999999999999876532 46788889999999999998765

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=98.03  E-value=5.9e-06  Score=64.20  Aligned_cols=105  Identities=13%  Similarity=0.009  Sum_probs=77.4

Q ss_pred             CcceecccCCccccchhhHHHhhcCcC----------chHHHHH------HhccCCCeeeccccCCchHHHHHHHHHHHH
Q psy16186          3 GPWDELESKLKKPCPTKSMLEFENTTH----------ISSEWEM------VLQSSQPLWLGLRCLSSMIHLDLAVEHAMY   66 (111)
Q Consensus         3 TLWgSFE~~~~rl~~~~~m~Qfa~~~~----------~~~e~e~------~f~~~lPl~m~f~g~~~i~~V~dam~~avy   66 (111)
                      .||-|+|++.+.+...++ ...++.+.          -..+|.+      .. ...|+|..-....+++++...++..+.
T Consensus        99 vl~~slE~s~~~l~~R~~-~~~~~i~~~~l~~~~~~l~~~~~~~l~~a~~~l-~~~~i~i~d~~~~~~~~i~~~i~~l~~  176 (315)
T 3bh0_A           99 VNLHSLEMGKKENIKRLI-VTAGSINAQKIKAARRDFASEDWGKLSMAIGEI-SNSNINIFDKAGQSVNYIWSKTRQTKR  176 (315)
T ss_dssp             EEEEESSSCHHHHHHHHH-HHHTTCCHHHHHSCHHHHCSSCHHHHHHHHHHH-HTSCEEEECCSCCBHHHHHHHHHHHHH
T ss_pred             EEEEECCCCHHHHHHHHH-HHHcCCCHHHHhcCCCCCCHHHHHHHHHHHHHH-hCCCEEEECCCCCCHHHHHHHHHHHHH
Confidence            578999999999887653 45445431          1133331      12 246888555566789999999999999


Q ss_pred             Hhccc--eEEecchhhhhcCCCcchhhhHHHHHHHHHHHhhhcCCC
Q psy16186         67 VYDTG--HVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        67 v~dI~--HViiDNLQFmmg~~~~~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      -|++.  .||||.||.|-+.. ...+|......+...|+++|.+.|
T Consensus       177 ~~~~~~~lVVID~l~~l~~~~-~~~~r~~~i~~~~~~Lk~lAk~~~  221 (315)
T 3bh0_A          177 KNPGKRVIVMIDYLQLLEPAK-ANDSRTNQISQISRDLKKMARELD  221 (315)
T ss_dssp             TSSSCCEEEEEECGGGSBCSC-TTSCHHHHHHHHHHHHHHHHHHHT
T ss_pred             hcCCCCeEEEEeCchhcCCCC-CCCCHHHHHHHHHHHHHHHHHHhC
Confidence            99999  99999999997632 345777778899999999998765

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=97.90  E-value=2e-05  Score=63.70  Aligned_cols=107  Identities=14%  Similarity=0.090  Sum_probs=78.5

Q ss_pred             CcceecccCCccccchhhHHHhhcCc--------CchHHHHHHhc-----cCCCeeeccccCCchHHHHHHHHHHHHHhc
Q psy16186          3 GPWDELESKLKKPCPTKSMLEFENTT--------HISSEWEMVLQ-----SSQPLWLGLRCLSSMIHLDLAVEHAMYVYD   69 (111)
Q Consensus         3 TLWgSFE~~~~rl~~~~~m~Qfa~~~--------~~~~e~e~~f~-----~~lPl~m~f~g~~~i~~V~dam~~avyv~d   69 (111)
                      .+|-|+|++.+.+...++ .+..+.+        .-..+|++...     ...|+|..-.+..++.++...++..+--++
T Consensus       232 vl~~slE~~~~~l~~R~~-~~~~~i~~~~l~~g~l~~~~~~~~~~a~~~l~~~~l~i~d~~~~s~~~l~~~~~~l~~~~~  310 (444)
T 2q6t_A          232 VGIYSLEMPAAQLTLRMM-CSEARIDMNRVRLGQLTDRDFSRLVDVASRLSEAPIYIDDTPDLTLMEVRARARRLVSQNQ  310 (444)
T ss_dssp             EEEEESSSCHHHHHHHHH-HHHTTCCTTTCCGGGCCHHHHHHHHHHHHHHHTSCEEEECCTTCBHHHHHHHHHHHHHHSC
T ss_pred             EEEEECCCCHHHHHHHHH-HHHcCCCHHHHhCCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHHcC
Confidence            588999999998886543 4555542        12366664211     246888666677789999999999888899


Q ss_pred             cceEEecchhhhhcC--CCcchhhhHHHHHHHHHHHhhhcCCC
Q psy16186         70 TGHVIIDNVQFMLGL--SDSALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        70 I~HViiDNLQFmmg~--~~~~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      +..||||.||.|.+.  .....+|......+...|+++|.+.|
T Consensus       311 ~~lIvID~l~~~~~~~~~~~~~~r~~~i~~i~~~Lk~lAke~~  353 (444)
T 2q6t_A          311 VGLIIIDYLQLMSGPGSGKSGENRQQEIAAISRGLKALARELG  353 (444)
T ss_dssp             CCEEEEECGGGCBCC-------CHHHHHHHHHHHHHHHHHHHT
T ss_pred             CCEEEEcChhhcCCCcCCCCCCCHHHHHHHHHHHHHHHHHHhC
Confidence            999999999999765  22235778888899999999998755

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=97.87  E-value=1.9e-05  Score=64.86  Aligned_cols=105  Identities=13%  Similarity=0.007  Sum_probs=78.8

Q ss_pred             CcceecccCCccccchhhHHHhhcCc----------CchHHHHH------HhccCCCeeeccccCCchHHHHHHHHHHHH
Q psy16186          3 GPWDELESKLKKPCPTKSMLEFENTT----------HISSEWEM------VLQSSQPLWLGLRCLSSMIHLDLAVEHAMY   66 (111)
Q Consensus         3 TLWgSFE~~~~rl~~~~~m~Qfa~~~----------~~~~e~e~------~f~~~lPl~m~f~g~~~i~~V~dam~~avy   66 (111)
                      .|+-|+|++.+.+...++ ...++.+          .-..+|.+      .. ...|+|..-.+..+++++...++..+.
T Consensus       228 vl~fSlEms~~ql~~R~~-~~~~~i~~~~l~~g~~~l~~~~~~~l~~a~~~l-~~~~l~i~d~~~~s~~~i~~~ir~l~~  305 (444)
T 3bgw_A          228 VNLHSLEMGKKENIKRLI-VTAGSINAQKIKAARRDFASEDWGKLSMAIGEI-SNSNINIFDKAGQSVNYIWSKTRQTKR  305 (444)
T ss_dssp             EEEECSSSCTTHHHHHHH-HHHSCCCHHHHHHTGGGTCCSCHHHHHHHHHHH-HTSCEEEECCSSCBHHHHHHHHHHHHH
T ss_pred             EEEEECCCCHHHHHHHHH-HHHcCCCHHHHhcccCCCCHHHHHHHHHHHHHH-hcCCEEEECCCCCCHHHHHHHHHHHHH
Confidence            578999999999987654 4544542          11234442      22 247898655667899999999999999


Q ss_pred             Hhccc--eEEecchhhhhcCCCcchhhhHHHHHHHHHHHhhhcCCC
Q psy16186         67 VYDTG--HVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        67 v~dI~--HViiDNLQFmmg~~~~~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      -|++.  .||||.||.|-+... +.+|...-..+...++.+|.+.|
T Consensus       306 ~~~~~~~lIVID~Lq~~~~~~~-~~~r~~~i~~i~~~Lk~lAke~~  350 (444)
T 3bgw_A          306 KNPGKRVIVMIDYLQLLEPAKA-NDSRTNQISQISRDLKKMARELD  350 (444)
T ss_dssp             HSCSSCEEEEEECSTTSBCSCS-SSCHHHHHHHHHHHHHHHHHHHT
T ss_pred             HhCCCCeEEEEecHHhccCCCC-CCCHHHHHHHHHHHHHHHHHHhC
Confidence            99999  999999999976542 35677777889999999998755

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=97.77  E-value=4.1e-05  Score=62.11  Aligned_cols=108  Identities=13%  Similarity=0.070  Sum_probs=76.9

Q ss_pred             CCcceecccCCccccchhhHHHhhcCc--------CchHHHHHHhc-----cCCCeeeccccCCchHHHHHHHHHHHHHh
Q psy16186          2 SGPWDELESKLKKPCPTKSMLEFENTT--------HISSEWEMVLQ-----SSQPLWLGLRCLSSMIHLDLAVEHAMYVY   68 (111)
Q Consensus         2 sTLWgSFE~~~~rl~~~~~m~Qfa~~~--------~~~~e~e~~f~-----~~lPl~m~f~g~~~i~~V~dam~~avyv~   68 (111)
                      ..+|-|+|++.+.+...++ .+..|.+        .-..+|++...     +..|+|..-.+..++.++...++..+..+
T Consensus       234 ~Vl~~s~E~s~~~l~~r~~-~~~~~~~~~~l~~g~l~~~~~~~~~~a~~~l~~~~l~i~d~~~~s~~~i~~~~~~l~~~~  312 (454)
T 2r6a_A          234 NVAIFSLEMSAQQLVMRML-CAEGNINAQNLRTGKLTPEDWGKLTMAMGSLSNAGIYIDDTPSIRVSDIRAKCRRLKQES  312 (454)
T ss_dssp             CEEEEESSSCHHHHHHHHH-HHHHTCCHHHHHTSCCCHHHHHHHHHHHHHHHSSCEEEECCTTCCHHHHHHHHHHHHTTT
T ss_pred             cEEEEECCCCHHHHHHHHH-HHHcCCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            3578999999888876543 3333331        22355653211     35788865567779999999999888889


Q ss_pred             ccceEEecchhhhhcCCCcchhhhHHHHHHHHHHHhhhcCCC
Q psy16186         69 DTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        69 dI~HViiDNLQFmmg~~~~~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      ++..||||.+|.|.+....+..|...+..+...++++|.+.|
T Consensus       313 ~~~livID~l~~~~~~~~~~~~~~~~i~~i~~~Lk~lAke~~  354 (454)
T 2r6a_A          313 GLGMIVIDYLQLIQGSGRSKENRQQEVSEISRSLKALARELE  354 (454)
T ss_dssp             CCCEEEEECGGGSCCSCC----CHHHHHHHHHHHHHHHHHHT
T ss_pred             CCCEEEEccHHHhccCCCCCCCHHHHHHHHHHHHHHHHHHhC
Confidence            999999999999986543335688888999999999997654

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=96.85  E-value=0.002  Score=48.29  Aligned_cols=106  Identities=11%  Similarity=0.081  Sum_probs=65.1

Q ss_pred             CcceecccCCccccchhhHHHhhcCcC-----c------hHHHHHHhc---cCCCeee-ccccCCchHHHHHHHHHHHHH
Q psy16186          3 GPWDELESKLKKPCPTKSMLEFENTTH-----I------SSEWEMVLQ---SSQPLWL-GLRCLSSMIHLDLAVEHAMYV   67 (111)
Q Consensus         3 TLWgSFE~~~~rl~~~~~m~Qfa~~~~-----~------~~e~e~~f~---~~lPl~m-~f~g~~~i~~V~dam~~avyv   67 (111)
                      .+|.+.|++.+.+.+.+. .++.+.+.     +      ..+|++...   +..++++ ...+..++.++...+...+..
T Consensus        67 v~~~~~e~~~~~~~~r~~-~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~l~i~~~~~~~~~~~l~~~~~a~~~~  145 (296)
T 1cr0_A           67 VGLAMLEESVEETAEDLI-GLHNRVRLRQSDSLKREIIENGKFDQWFDELFGNDTFHLYDSFAEAETDRLLAKLAYMRSG  145 (296)
T ss_dssp             EEEEESSSCHHHHHHHHH-HHHTTCCGGGCHHHHHHHHHHTHHHHHHHHHHSSSCEEEECCCCSCCHHHHHHHHHHHHHT
T ss_pred             EEEEeCcCCHHHHHHHHH-HHHcCCChhhccccccCCCCHHHHHHHHHHHhccCCEEEECCCCCCCHHHHHHHHHHHHHh
Confidence            357788887766654332 44444321     1      133433222   2457773 333778899998888877789


Q ss_pred             hccceEEecchhhhhcCCCcchhhhHHHHHHHHHHHhhhcCCC
Q psy16186         68 YDTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        68 ~dI~HViiDNLQFmmg~~~~~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      ++..-||||+++.+.... ...|+...+..++..++++|.+.|
T Consensus       146 ~~p~llilDept~~~~~~-~~~d~~~~~~~i~~~L~~la~~~~  187 (296)
T 1cr0_A          146 LGCDVIILDHISIVVSAS-GESDERKMIDNLMTKLKGFAKSTG  187 (296)
T ss_dssp             TCCSEEEEEEEC------------CHHHHHHHHHHHHHHHHHC
T ss_pred             cCCCEEEEcCccccCCCC-CCCCHHHHHHHHHHHHHHHHHHhC
Confidence            999999999999988542 246777788899999999986543

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=96.18  E-value=0.0027  Score=45.02  Aligned_cols=101  Identities=11%  Similarity=0.003  Sum_probs=58.4

Q ss_pred             CcceecccCCccccchhhHHHhhcC-c------C--chHHHHHHhccCCCee-eccccCCchHHHHHHHHHHHHHhccce
Q psy16186          3 GPWDELESKLKKPCPTKSMLEFENT-T------H--ISSEWEMVLQSSQPLW-LGLRCLSSMIHLDLAVEHAMYVYDTGH   72 (111)
Q Consensus         3 TLWgSFE~~~~rl~~~~~m~Qfa~~-~------~--~~~e~e~~f~~~lPl~-m~f~g~~~i~~V~dam~~avyv~dI~H   72 (111)
                      .++.|+|++.+.+...+  ..+... +      .  ..+.+.... ...... ....+..+++++++.+..++..+++..
T Consensus        62 v~~~s~E~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~d~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  138 (251)
T 2zts_A           62 GVFVTLEERARDLRREM--ASFGWDFEKYEKEGKIAIVDGVSSVV-GLPSEEKFVLEDRFNVDNFLRYIYRVVKAINAKR  138 (251)
T ss_dssp             EEEEESSSCHHHHHHHH--HTTTCCHHHHHHTTSEEEEC--------------------CCHHHHHHHHHHHHHHTTCSE
T ss_pred             ceeecccCCHHHHHHHH--HHcCCChHHHHhcCcchhhhhHHHHh-hcccchhccccccccHHHHHHHHHHHHHhcCCcE
Confidence            46789999988877543  232221 0      0  001111111 111112 455677889999999999999999999


Q ss_pred             EEecchhhhhcCCCcchhhhHHHHHHHHHHHhhhcCCC
Q psy16186         73 VIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        73 ViiDNLQFmmg~~~~~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      ||||.++.+.....    +-....+++..++++|.+.|
T Consensus       139 vviD~~~~l~~~~~----~~~~~~~~~~~L~~~a~~~~  172 (251)
T 2zts_A          139 LVIDSIPSIALRLE----EERKIREVLLKLNTILLEMG  172 (251)
T ss_dssp             EEEECHHHHHHHSS----SGGGHHHHHHHHHHHHHHHC
T ss_pred             EEEEcHHHHhhhcc----ChHHHHHHHHHHHHHHHHcC
Confidence            99999998865433    22334567778888886654

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=93.42  E-value=0.18  Score=35.47  Aligned_cols=54  Identities=19%  Similarity=0.173  Sum_probs=40.1

Q ss_pred             CCchHHHHHHHHHHHHHhccceEEecchhhhhcCCCcchhhhHHHHHHHHHHHhhhcCCC
Q psy16186         51 LSSMIHLDLAVEHAMYVYDTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        51 ~~~i~~V~dam~~avyv~dI~HViiDNLQFmmg~~~~~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      ..+++++.+.+..++..+++..||||+++.+.+...      ..+.+.+..++++|.+.|
T Consensus       110 ~~~~~~~~~~i~~~~~~~~~~~vviD~~~~l~~~~~------~~~~~~l~~l~~~~~~~~  163 (247)
T 2dr3_A          110 LTDIREFIEVLRQAIRDINAKRVVVDSVTTLYINKP------AMARSIILQLKRVLAGTG  163 (247)
T ss_dssp             CSSHHHHHHHHHHHHHHHTCCEEEEETSGGGTTTCG------GGHHHHHHHHHHHHHHTT
T ss_pred             ccCHHHHHHHHHHHHHHhCCCEEEECCchHhhcCCH------HHHHHHHHHHHHHHHHCC
Confidence            457888999999999889999999999999874321      123456677777775543

>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=89.07  E-value=0.29  Score=37.11  Aligned_cols=56  Identities=14%  Similarity=0.088  Sum_probs=39.7

Q ss_pred             HHHHHHHHHHHHH-hccceEEecchhhhhcCCCc----chhhhHHHHHHHHHHHhhhcCCC
Q psy16186         55 IHLDLAVEHAMYV-YDTGHVIIDNVQFMLGLSDS----ALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        55 ~~V~dam~~avyv-~dI~HViiDNLQFmmg~~~~----~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      .++++.+...+.- +++.-||||.|+.+......    ..+|-..-.+++..++++|.+.|
T Consensus       189 ~~~l~~l~~~~~~~~~~~lvVIDsl~~l~~~~~~~~~~~~~r~~~~~~~~~~L~~la~~~~  249 (322)
T 2i1q_A          189 MLFAEKIEDLIQEGNNIKLVVIDSLTSTFRNEYTGRGKLAERQQKLGRHMATLNKLADLFN  249 (322)
T ss_dssp             HHHHHTHHHHHHTTCEEEEEEEECSSHHHHHHCCCTTSHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhhccCccEEEEECcHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHhC
Confidence            3466666666666 88999999999998753211    13455455788899999988765

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=88.49  E-value=1.1  Score=30.86  Aligned_cols=51  Identities=22%  Similarity=0.063  Sum_probs=40.4

Q ss_pred             chHHHHHHHHHHHHHhccc--eEEecchhhhhcCCCcchhhhHHHHHHHHHHHhhhcCC
Q psy16186         53 SMIHLDLAVEHAMYVYDTG--HVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLP  109 (111)
Q Consensus        53 ~i~~V~dam~~avyv~dI~--HViiDNLQFmmg~~~~~~drf~~QD~~I~~fR~fAT~~  109 (111)
                      +..++.+.+..++..++..  -||||+++.+++...      ..+..++..++++|.+.
T Consensus       105 ~~~~~~~~~~~~~~~~~~~~~llilDe~~~~~~~d~------~~~~~~~~~l~~~~~~~  157 (235)
T 2w0m_A          105 TPEELVNKVIEAKQKLGYGKARLVIDSVSALFLDKP------AMARKISYYLKRVLNKW  157 (235)
T ss_dssp             CHHHHHHHHHHHHHHHCSSCEEEEEETGGGGSSSCG------GGHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHhhCCCceEEEEECchHhhcCCH------HHHHHHHHHHHHHHHhC
Confidence            7788888888888889999  999999998875432      24577888888887543

>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=86.16  E-value=0.71  Score=35.44  Aligned_cols=56  Identities=9%  Similarity=0.021  Sum_probs=39.4

Q ss_pred             HHHHHHHHHHHHH-hccceEEecchhhhhcCCC----cchhhhHHHHHHHHHHHhhhcCCC
Q psy16186         55 IHLDLAVEHAMYV-YDTGHVIIDNVQFMLGLSD----SALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        55 ~~V~dam~~avyv-~dI~HViiDNLQFmmg~~~----~~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      .++++.+...+-- +++.-||||.++.+.....    ...+|-....+++..++++|.+.|
T Consensus       188 ~~~l~~l~~~~~~~~~~~lvVIDsl~~l~~~~~~~~g~~~~r~~~~~~~l~~L~~la~~~~  248 (324)
T 2z43_A          188 IAIVDDLQELVSKDPSIKLIVVDSVTSHFRAEYPGRENLAVRQQKLNKHLHQLTRLAEVYD  248 (324)
T ss_dssp             HHHHHHHHHHHHHCTTEEEEEETTTTHHHHHHSCTTTSHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhccCCCEEEEeCcHHHhhhhhcCcccHHHHHHHHHHHHHHHHHHHHHhC
Confidence            3556666666666 8999999999999875321    113555556788889999887654

>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=83.29  E-value=1.8  Score=30.24  Aligned_cols=53  Identities=15%  Similarity=0.075  Sum_probs=34.1

Q ss_pred             HHHHHHHHHHHhccceEEecchhhhhcCCCcc----hhhhHHHHHHHHHHHhhhcCC
Q psy16186         57 LDLAVEHAMYVYDTGHVIIDNVQFMLGLSDSA----LDRFYMQDTIIQVLLYFLSLP  109 (111)
Q Consensus        57 V~dam~~avyv~dI~HViiDNLQFmmg~~~~~----~drf~~QD~~I~~fR~fAT~~  109 (111)
                      +++.+...+..+++.-||||+++.++...-.+    .+|-.....++..++++|.+.
T Consensus       107 ~~~~~~~~~~~~~~~lliiD~~~~~~~~~~~~~~~~~~r~~~~~~~~~~l~~~~~~~  163 (243)
T 1n0w_A          107 LLYQASAMMVESRYALLIVDSATALYRTDYSGRGELSARQMHLARFLRMLLRLADEF  163 (243)
T ss_dssp             HHHHHHHHHHHSCEEEEEEETSSGGGC-------CHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCceEEEEeCchHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHc
Confidence            44445556666899999999999887643221    344444567788888887653

>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=81.77  E-value=1.7  Score=33.79  Aligned_cols=57  Identities=16%  Similarity=0.000  Sum_probs=38.8

Q ss_pred             hHHHHHHHHHHHHH--hccceEEecchhhhhcCCCc----chhhhHHHHHHHHHHHhhhcCCC
Q psy16186         54 MIHLDLAVEHAMYV--YDTGHVIIDNVQFMLGLSDS----ALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        54 i~~V~dam~~avyv--~dI~HViiDNLQFmmg~~~~----~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      +.++++.++..+.-  +++.-||||.++.+......    ..+|-..-..++..++++|.+.|
T Consensus       202 ~~~ll~~l~~~i~~~~~~~~lvVIDsl~~l~~~~~~~~g~~~~r~~~l~~~l~~L~~la~~~~  264 (343)
T 1v5w_A          202 QMELLDYVAAKFHEEAGIFKLLIIDSIMALFRVDFSGRGELAERQQKLAQMLSRLQKISEEYN  264 (343)
T ss_dssp             HHHHHHHHHHHHHHSCSSEEEEEEETSGGGHHHHCCGGGCHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhcCCCccEEEEechHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHhC
Confidence            34555555666665  89999999999998754211    13454445778888888887654

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	111
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	98.43
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	94.71
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	91.02
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	81.81

>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=98.43  E-value=1.4e-07  Score=68.18  Aligned_cols=106  Identities=12%  Similarity=0.069  Sum_probs=73.7

Q ss_pred             CcceecccCCccccchhhHHHhhcCcCch--------------HHHHHHhccCCCee-eccccCCchHHHHHHHHHHHHH
Q psy16186          3 GPWDELESKLKKPCPTKSMLEFENTTHIS--------------SEWEMVLQSSQPLW-LGLRCLSSMIHLDLAVEHAMYV   67 (111)
Q Consensus         3 TLWgSFE~~~~rl~~~~~m~Qfa~~~~~~--------------~e~e~~f~~~lPl~-m~f~g~~~i~~V~dam~~avyv   67 (111)
                      .++-|+|++.+.++... +...++.+...              .+|.....+..+++ ....+..+++++++.++..+..
T Consensus        67 v~~~s~E~~~~~~~~r~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  145 (277)
T d1cr2a_          67 VGLAMLEESVEETAEDL-IGLHNRVRLRQSDSLKREIIENGKFDQWFDELFGNDTFHLYDSFAEAETDRLLAKLAYMRSG  145 (277)
T ss_dssp             EEEEESSSCHHHHHHHH-HHHHTTCCGGGCHHHHHHHHHTSHHHHHHHHHHSSSCEEEECCC-CCCHHHHHHHHHHHHHT
T ss_pred             eeEeeeccchhhHHhHH-HHHhhcCCchhhcccccchhhhHHHHHHHHHhhccceeeeeccccchhHHHHHHHhhhhhhc
Confidence            46789999999888644 46777764311              22333323445665 7777899999999999999999


Q ss_pred             hccceEEecchhhhhcCCCcchhhhHHHHHHHHHHHhhhcCCC
Q psy16186         68 YDTGHVIIDNVQFMLGLSDSALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        68 ~dI~HViiDNLQFmmg~~~~~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      +++.-||||.+|.|...... .++...+..+...||+||.+.|
T Consensus       146 ~~~~~vvID~l~~l~~~~~~-~~~~~~~~~~~~~l~~lA~~~~  187 (277)
T d1cr2a_         146 LGCDVIILDHISIVVSASGE-SDERKMIDNLMTKLKGFAKSTG  187 (277)
T ss_dssp             TCCSEEEEEEEEC-----------CHHHHHHHHHHHHHHHHHC
T ss_pred             cCcceEEEcccccccccccc-cchhHHHHHHHHHHHHHhhhcc
Confidence            99999999999988766543 3455778999999999998765

>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=94.71  E-value=0.021  Score=39.05  Aligned_cols=95  Identities=5%  Similarity=-0.064  Sum_probs=58.4

Q ss_pred             CcceecccCCccccchhhHHHhhcCcCchHHHHHHhccCCCee-eccccCCchHHHHHHHHHHHHHhccceEEecchhhh
Q psy16186          3 GPWDELESKLKKPCPTKSMLEFENTTHISSEWEMVLQSSQPLW-LGLRCLSSMIHLDLAVEHAMYVYDTGHVIIDNVQFM   81 (111)
Q Consensus         3 TLWgSFE~~~~rl~~~~~m~Qfa~~~~~~~e~e~~f~~~lPl~-m~f~g~~~i~~V~dam~~avyv~dI~HViiDNLQFm   81 (111)
                      ++|-|+|.+...+.+.+  ..+   ..-.++...   ...+.. -.+.....+.+.++.+..++.-+++..||||.+..+
T Consensus        57 ~~~is~e~~~~~~~~~~--~~~---~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~vviDs~~~~  128 (242)
T d1tf7a2          57 AILFAYEESRAQLLRNA--YSW---GMDFEEMER---QNLLKIVCAYPESAGLEDHLQIIKSEINDFKPARIAIDSLSAL  128 (242)
T ss_dssp             EEEEESSSCHHHHHHHH--HTT---SCCHHHHHH---TTSEEECCCCGGGSCHHHHHHHHHHHHHTTCCSEEEEECHHHH
T ss_pred             cceeeccCCHHHHHHHH--HHc---CCChHHHhh---cCceEEEEeecchhhHHHHHHHHHHHHHhcCCceeeeecchhh
Confidence            46777777766554321  111   111133322   122222 333356678999999999999999999999999987


Q ss_pred             hcCCCcchhhhHHHHHHHHHHHhhhcCCC
Q psy16186         82 LGLSDSALDRFYMQDTIIQVLLYFLSLPN  110 (111)
Q Consensus        82 mg~~~~~~drf~~QD~~I~~fR~fAT~~n  110 (111)
                      ......     ...-..+..++++|.+.|
T Consensus       129 ~~~~~~-----~~~~~~~~~l~~~~~~~~  152 (242)
T d1tf7a2         129 ARGVSN-----NAFRQFVIGVTGYAKQEE  152 (242)
T ss_dssp             TSSSCH-----HHHHHHHHHHHHHHHHTT
T ss_pred             hcCCCH-----HHHHHHHHHHHHHHHHcC
Confidence            654421     222356678888887654

>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=91.02  E-value=0.31  Score=31.76  Aligned_cols=41  Identities=20%  Similarity=0.102  Sum_probs=33.9

Q ss_pred             eccccCCchHHHHHHHHHHHHHhccceEEecchhhhhcCCC
Q psy16186         46 LGLRCLSSMIHLDLAVEHAMYVYDTGHVIIDNVQFMLGLSD   86 (111)
Q Consensus        46 m~f~g~~~i~~V~dam~~avyv~dI~HViiDNLQFmmg~~~   86 (111)
                      ....+..+...+++.+..++.-|++.-||||+++.+.....
T Consensus       102 ~~~~~~~~~~~l~~~l~~~i~~~~~~~viiD~~~~l~~~~~  142 (242)
T d1tf7a1         102 QEVVGGFDLSALIERINYAIQKYRARRVSIDSVTSVFQQYD  142 (242)
T ss_dssp             CSCCSSHHHHHHHHHHHHHHHHHTCSEEEEECSTTTSTTTC
T ss_pred             hhhhccccHHHHHHHHHHHHHhhccchhhhhHHHHHHHhcc
Confidence            44556667788999999999999999999999998876543

>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=81.81  E-value=0.29  Score=32.76  Aligned_cols=29  Identities=24%  Similarity=0.200  Sum_probs=22.6

Q ss_pred             chHHHHHHHHHHHHHhccceEEecchhhh
Q psy16186         53 SMIHLDLAVEHAMYVYDTGHVIIDNVQFM   81 (111)
Q Consensus        53 ~i~~V~dam~~avyv~dI~HViiDNLQFm   81 (111)
                      +..++++.+....+.-++..|.|||.||+
T Consensus        63 ~~~~~~~~~~~~~~~~~~dvI~IDE~QFf   91 (139)
T d2b8ta1          63 SAPEILNYIMSNSFNDETKVIGIDEVQFF   91 (139)
T ss_dssp             STHHHHHHHHSTTSCTTCCEEEECSGGGS
T ss_pred             cchhhHHHHHhhccccCcCEEEechhhhc
Confidence            34667777776666667888999999997