Psyllid ID: psy1354

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------12
Protein Sequence
MSLISGIPTDHIGVIATYRNQVSLLKRLLDKDIEINTVDQYQGRDKSIILYSSTCTSKSKESKILNDRKRLTVAISRAKHKLIILGDLQVIIAIVNCPNTGRYGNLGQIPGTDGNRTN
Secondary Structure (PSIPRED)
ccEEcccccccEEEEEcHHHHHHHHHHHcccccEEEcccccccccccEEEEEEEEEcccccccccccccHHHHHHHHcccccEEEEcHHHHccccccHHHHHHHcccccccccccccc
Secondary Structure Prediction (SSPRO)
cHHHccccHHHEEEEcccHHHHHHHHHHHcccEEEEEEccccccccEEEEEEEEEccccccEEEcccccHEEEEEEcccccEEEEEcHHHHccccccccccEEEEccccccccccccc
Coil and Loop (DISEMBL)
mslisgiptdhiGVIATYRNQVSLLKRLLdkdieintvdqyqgrdksiILYSSTCTSKSKESKILNDRKRLTVAISRAKHKLIILGDLQVIIAIVncpntgrygnlgqipgtdgnrtn
Flexible Loop (DISEMBL)
mslisgiptdhigvIATYRNQVSLLKRlldkdieintvdqyqgrdksiilysstctskskeskilndrkrLTVAISRAkhkliilgdLQVIIAIVNCPntgrygnlgqipgtdgnrtn
Low Complexity Region (SEG)
MSLISGIPTDHIGVIATYRNQVSLLKRLLDKDIEINTVDQYQGRDKSIILYsstctskskeskILNDRKRLTVAISRAKHKLIILGDLQVIIAIVNCPNTGRYGNLGQIPGTDGNRTN
Disordered region (IsUnstruct)
*****GIPTDHIGVIATYRNQVSLLKRLLDKDIEINTVDQYQGRDKSIILYSSTCT*******ILNDRKRLTVAISRAKHKLIILGDLQVIIAIVNCPNTGRYGNLG***********
Disordered Region (DISOPRED)
*S*****PTDHIGVIATYRNQVSLLKRLLDKDIEINTVDQYQGRDKSIILYSSTCTSKSKESKILNDRKRLTVAISRAKHKLIILGDLQVIIAIVNCPNTGRYGNLGQI*********
Disordered Region (DISEMBL)
MSLISGIPTDHIGVIATYRNQVSLLKRLLDKDIEINTVDQYQGRDKSIILYSSTCTSKSKESKILNDRKRLTVAISRAKHKLIILGDLQVIIAIVNCPNTGRYGNLGQIPGTDGNRTN
Disordered Region (DISPRO)
MSLISGIPTDHIGVIATYRNQVSLLKRLLDKDIEINTVDQYQGRDKSIILYSSTCTSKSKESKILNDRKRLTVAISRAKHKLIILGDLQVIIAIVNCPNTGRYGNLGQIPGT******
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHoooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MSLISGIPTDHIGVIATYRNQVSLLKRLLDKDIEINTVDQYQGRDKSIILYSSTCTSKSKESKILNDRKRLTVAISRAKHKLIILGDLQVIIAIVNCPNTGRYGNLGQIPGTDGNRTN
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	118	2.2.26 [Sep-21-2011]
P51530	1060	DNA replication ATP-depen	yes	N/A	0.661	0.073	0.530	4e-15
Q6ZQJ5	1062	DNA replication ATP-depen	yes	N/A	0.677	0.075	0.488	3e-14
D3ZG52	1059	DNA replication ATP-depen	yes	N/A	0.677	0.075	0.488	5e-14
Q5ZKG3	992	DNA replication ATP-depen	yes	N/A	0.661	0.078	0.488	6e-14
E1BMP7	1061	DNA replication ATP-depen	yes	N/A	0.661	0.073	0.488	8e-14
Q8QHA5	1053	DNA replication ATP-depen	N/A	N/A	0.661	0.074	0.464	8e-13
Q9URU2	1397	DNA replication ATP-depen	yes	N/A	0.728	0.061	0.483	1e-12
F6QXW0	1048	DNA replication ATP-depen	no	N/A	0.661	0.074	0.464	2e-12
P34243	683	DNA polymerase alpha-asso	yes	N/A	0.728	0.125	0.384	3e-12
P38859	1522	DNA replication ATP-depen	no	N/A	0.855	0.066	0.394	3e-12

>sp|P51530|DNA2_HUMAN DNA replication ATP-dependent helicase/nuclease DNA2 OS=Homo sapiens GN=DNA2 PE=1 SV=3

 Score = 79.7 bits (195), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 44/83 (53%), Positives = 60/83 (72%), Gaps = 5/83 (6%)

Query: 8    PTDHIGVIATYRNQVSLLKRLLDKDI---EINTVDQYQGRDKSIILYSSTCTSKSKE-SK 63
            P+D IG+IA YR Q+ ++  LL + I   E+NTVD+YQGRDKSI+L S   ++K     +
Sbjct: 934  PSD-IGIIAPYRQQLKIINDLLARSIGMVEVNTVDKYQGRDKSIVLVSFVRSNKDGTVGE 992

Query: 64   ILNDRKRLTVAISRAKHKLIILG 86
            +L D +RL VAI+RAKHKLI+LG
Sbjct: 993  LLKDWRRLNVAITRAKHKLILLG 1015

May function in chromosomal DNA replication.
Homo sapiens (taxid: 9606)
EC: 3EC: .EC: 6EC: .EC: 4EC: .EC: 1EC: 2

>sp|Q6ZQJ5|DNA2_MOUSE DNA replication ATP-dependent helicase/nuclease DNA2 OS=Mus musculus GN=Dna2 PE=2 SV=2

 Score = 77.4 bits (189), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 42/86 (48%), Positives = 61/86 (70%), Gaps = 6/86 (6%)

Query: 8    PTDHIGVIATYRNQVSLLKRLLDKD----IEINTVDQYQGRDKSIILYSSTCTSKSKE-S 62
            P+D IGVIA YR Q+ ++  LL +     +E+NTVD+YQGRDKS+IL S   +++     
Sbjct: 935  PSD-IGVIAPYRQQLRIISDLLARSSVGMVEVNTVDKYQGRDKSLILVSFVRSNEDGTLG 993

Query: 63   KILNDRKRLTVAISRAKHKLIILGDL 88
            ++L D +RL VA++RAKHKLI+LG +
Sbjct: 994  ELLKDWRRLNVALTRAKHKLILLGSV 1019

May function in chromosomal DNA replication.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|D3ZG52|DNA2_RAT DNA replication ATP-dependent helicase/nuclease DNA2 OS=Rattus norvegicus GN=Dna2 PE=3 SV=1

 Score = 76.3 bits (186), Expect = 5e-14,   Method: Composition-based stats.
 Identities = 42/86 (48%), Positives = 60/86 (69%), Gaps = 6/86 (6%)

Query: 8    PTDHIGVIATYRNQVSLLKRLLDKD----IEINTVDQYQGRDKSIILYSSTCTSKSKE-S 62
            P+D IG+IA YR Q+  +  LL +     +E+NTVD+YQGRDKS+IL S   +++     
Sbjct: 932  PSD-IGIIAPYRQQLRTITDLLARSSVGMVEVNTVDKYQGRDKSLILVSFVRSNEDGTLG 990

Query: 63   KILNDRKRLTVAISRAKHKLIILGDL 88
            ++L D +RL VAI+RAKHKLI+LG +
Sbjct: 991  ELLKDWRRLNVAITRAKHKLILLGSV 1016

Key enzyme involved in DNA replication and DNA repair in nucleus and mitochondrion. Involved in Okazaki fragments processing by cleaving long flaps that escape FEN1: flaps that are longer than 27 nucleotides are coated by replication protein A complex (RPA), leading to recruit DNA2 which cleaves the flap until it is too short to bind RPA and becomes a substrate for FEN1. Also involved in 5'-end resection of DNA during double-strand break (DSB) repair: recruited by BLM and mediates the cleavage of 5'-ssDNA, while the 3'-ssDNA cleavage is prevented by the presence of RPA. Also involved in DNA replication checkpoint independently of Okazaki fragments processing. Possesses different enzymatic activities, such as single-stranded DNA (ssDNA)-dependent ATPase, 5'-3' helicase and endonuclease activities. While the ATPase and endonuclease activities are well-defined and play a key role in Okazaki fragments processing and DSB repair, the 5'-3' DNA helicase activity is subject to debate. According to various reports, the helicase activity is weak and its function remains largely unclear. Helicase activity may promote the motion of DNA2 on the flap, helping the nuclease function.

Rattus norvegicus (taxid: 10116)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|Q5ZKG3|DNA2_CHICK DNA replication ATP-dependent helicase/nuclease DNA2 OS=Gallus gallus GN=DNA2 PE=2 SV=2

 Score = 76.3 bits (186), Expect = 6e-14,   Method: Composition-based stats.
 Identities = 41/84 (48%), Positives = 59/84 (70%), Gaps = 6/84 (7%)

Query: 8   PTDHIGVIATYRNQVS----LLKRLLDKDIEINTVDQYQGRDKSIILYSSTCTSKSKE-S 62
           P+D IG+I+ YR+Q+     L+ RL +  +E+NT+D+YQGRDKSII+ S    S  +   
Sbjct: 869 PSD-IGIISPYRHQLKVITDLMARLKENRVEVNTIDKYQGRDKSIIIVSFVRNSNDENLG 927

Query: 63  KILNDRKRLTVAISRAKHKLIILG 86
            +L D +RL VAI+RAKHKLI++G
Sbjct: 928 ALLKDWRRLNVAITRAKHKLIMVG 951

May function in chromosomal DNA replication.

Gallus gallus (taxid: 9031)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|E1BMP7|DNA2_BOVIN DNA replication ATP-dependent helicase/nuclease DNA2 OS=Bos taurus GN=DNA2 PE=3 SV=3

 Score = 75.9 bits (185), Expect = 8e-14,   Method: Composition-based stats.
 Identities = 41/84 (48%), Positives = 60/84 (71%), Gaps = 6/84 (7%)

Query: 8    PTDHIGVIATYRNQVSLLKRLLDKD----IEINTVDQYQGRDKSIILYSSTCTSKSKE-S 62
            P+D IG+IA YR Q+ ++  LL +     +E+NTVD+YQGRDKSI++ S   +++     
Sbjct: 934  PSD-IGIIAPYRQQLKVISDLLAQSSVGMVEVNTVDRYQGRDKSIVVVSFVRSNEDGTLG 992

Query: 63   KILNDRKRLTVAISRAKHKLIILG 86
            ++L D +RL VAI+RAKHKLI+LG
Sbjct: 993  ELLKDWRRLNVAITRAKHKLILLG 1016

Key enzyme involved in DNA replication and DNA repair in nucleus and mitochondrion. Involved in Okazaki fragments processing by cleaving long flaps that escape FEN1: flaps that are longer than 27 nucleotides are coated by replication protein A complex (RPA), leading to recruit DNA2 which cleaves the flap until it is too short to bind RPA and becomes a substrate for FEN1. Also involved in 5'-end resection of DNA during double-strand break (DSB) repair: recruited by BLM and mediates the cleavage of 5'-ssDNA, while the 3'-ssDNA cleavage is prevented by the presence of RPA. Also involved in DNA replication checkpoint independently of Okazaki fragments processing. Possesses different enzymatic activities, such as single-stranded DNA (ssDNA)-dependent ATPase, 5'-3' helicase and endonuclease activities. While the ATPase and endonuclease activities are well-defined and play a key role in Okazaki fragments processing and DSB repair, the 5'-3' DNA helicase activity is subject to debate. According to various reports, the helicase activity is weak and its function remains largely unclear. Helicase activity may promote the motion of DNA2 on the flap, helping the nuclease function.

Bos taurus (taxid: 9913)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|Q8QHA5|DNA2_XENLA DNA replication ATP-dependent helicase/nuclease DNA2 OS=Xenopus laevis GN=dna2 PE=1 SV=1

 Score = 72.4 bits (176), Expect = 8e-13,   Method: Composition-based stats.
 Identities = 39/84 (46%), Positives = 57/84 (67%), Gaps = 6/84 (7%)

Query: 8    PTDHIGVIATYRNQVSLLKRLLDK----DIEINTVDQYQGRDKSIILYSSTCTS-KSKES 62
            P+D IG+IA YR Q+ ++    +      +E+NTVD+YQGRDKS+I+ S   ++   K  
Sbjct: 934  PSD-IGIIAPYRQQLKMISNYFNSLSASAVEVNTVDKYQGRDKSVIIVSFVRSNIDGKLG 992

Query: 63   KILNDRKRLTVAISRAKHKLIILG 86
             +L D +RL VA++RAKHKLI+LG
Sbjct: 993  DLLKDWRRLNVALTRAKHKLIMLG 1016

May function in chromosomal DNA replication. Has a single-strand endonuclease activity in vitro. Has a DNA-dependent ATPase activity in vitro.

Xenopus laevis (taxid: 8355)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|Q9URU2|DNA2_SCHPO DNA replication ATP-dependent helicase/nuclease dna2 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=dna2 PE=1 SV=2

 Score = 72.0 bits (175), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 43/89 (48%), Positives = 57/89 (64%), Gaps = 3/89 (3%)

Query: 6    GIPTDHIGVIATYRNQVSLLKRLLDK--DIEINTVDQYQGRDKSIILYSST-CTSKSKES 62
            G+    IG+I+ Y++QV LL + L    +IEINTVD+YQGRDK IIL S     SK+   
Sbjct: 1232 GVKQSSIGIISIYKSQVELLSKNLKSFTEIEINTVDRYQGRDKDIILISFVRSNSKNLVG 1291

Query: 63   KILNDRKRLTVAISRAKHKLIILGDLQVI 91
            ++L D  RL VA+SRAK K I+ G L  +
Sbjct: 1292 ELLRDWHRLNVALSRAKVKCIMFGSLSTL 1320

Required for DNA replication; has 3' to 5' ATP-dependent DNA helicase activity specific for forked substrates. Has a direct role coordinating the multienzyme process of Okazaki fragment elongation and maturation.

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

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|F6QXW0|DNA2_XENTR DNA replication ATP-dependent helicase/nuclease DNA2 OS=Xenopus tropicalis GN=dna2 PE=3 SV=1

 Score = 70.9 bits (172), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 39/84 (46%), Positives = 57/84 (67%), Gaps = 6/84 (7%)

Query: 8    PTDHIGVIATYRNQVSLLKRLLDK----DIEINTVDQYQGRDKSIILYSSTCTS-KSKES 62
            P+D IG+IA YR Q+ ++    +      +E+NTVD+YQGRDKS+I+ S   ++   K  
Sbjct: 929  PSD-IGIIAPYRQQLKVISNYFNSLSASAVEVNTVDKYQGRDKSVIIVSFVRSNIDGKLG 987

Query: 63   KILNDRKRLTVAISRAKHKLIILG 86
             +L D +RL VA++RAKHKLI+LG
Sbjct: 988  DLLKDWRRLNVALTRAKHKLIMLG 1011

Key enzyme involved in DNA replication and DNA repair in nucleus and mitochondrion. Involved in Okazaki fragments processing by cleaving long flaps that escape fen1: flaps that are longer than 27 nucleotides are coated by replication protein A complex (RPA), leading to recruit dna2 which cleaves the flap until it is too short to bind RPA and becomes a substrate for FEN1. Also involved in 5'-end resection of DNA during double-strand break (DSB) repair by mediating the cleavage of 5'-ssDNA, while the 3'-ssDNA cleavage is prevented by the presence of RPA. Also involved in DNA replication checkpoint independently of Okazaki fragments processing. Possesses different enzymatic activities, such as single-stranded DNA (ssDNA)-dependent ATPase, 5'-3' helicase and endonuclease activities. While the ATPase and endonuclease activities are well-defined and play a key role in Okazaki fragments processing and DSB repair, the 5'-3' DNA helicase activity is subject to debate. According to various reports, the helicase activity is weak and its function remains largely unclear. Helicase activity may promote the motion of dna2 on the flap, helping the nuclease function.

Xenopus tropicalis (taxid: 8364)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|P34243|HCS1_YEAST DNA polymerase alpha-associated DNA helicase A OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=HCS1 PE=1 SV=1

 Score = 70.5 bits (171), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 35/91 (38%), Positives = 61/91 (67%), Gaps = 5/91 (5%)

Query: 6   GIPTDHIGVIATYRNQVSLLKRLLDK-----DIEINTVDQYQGRDKSIILYSSTCTSKSK 60
            +P + IGVI+ Y  QVS LK+L+       DIEI+TVD +QGR+K +I+ S   +++  
Sbjct: 563 NVPENSIGVISPYNAQVSHLKKLIHDELKLTDIEISTVDGFQGREKDVIILSLVRSNEKF 622

Query: 61  ESKILNDRKRLTVAISRAKHKLIILGDLQVI 91
           E   L + +RL VA++R + +L+++G+++V+
Sbjct: 623 EVGFLKEERRLNVAMTRPRRQLVVVGNIEVL 653

DNA polymerase alpha-associated DNA helicase which may be involved in DNA replication.

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

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|P38859|DNA2_YEAST DNA replication ATP-dependent helicase/nuclease DNA2 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=DNA2 PE=1 SV=1

 Score = 70.5 bits (171), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 43/109 (39%), Positives = 66/109 (60%), Gaps = 8/109 (7%)

Query: 3    LISGIPTDHIGVIATYRNQVSLLKRLLDKDI----EINTVDQYQGRDKSIILYSST-CTS 57
            L+SG+P + IGV+  YR Q+ LLK++ +K++    EI T DQ+QGRDK  I+ S     S
Sbjct: 1352 LLSGVPCEDIGVMTLYRAQLRLLKKIFNKNVYDGLEILTADQFQGRDKKCIIISMVRRNS 1411

Query: 58   KSKESKILNDRKRLTVAISRAKHKLIILGDLQVIIAIVNCPNTGRYGNL 106
            +     +L + +R+ VA++RAK KLII+G    I ++   P    + NL
Sbjct: 1412 QLNGGALLKELRRVNVAMTRAKSKLIIIGSKSTIGSV---PEIKSFVNL 1457

Required for DNA replication; has 3' to 5' ATP-dependent DNA helicase activity specific for forked substrates.

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

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	118
194890272	1100	GG18336 [Drosophila erecta] gi|190648928	0.754	0.080	0.565	4e-21
307188367	1167	DNA2-like helicase [Camponotus floridanu	0.694	0.070	0.586	9e-21
156545481	1191	PREDICTED: DNA2-like helicase-like [Naso	0.728	0.072	0.577	2e-20
195446960	1107	GK25369 [Drosophila willistoni] gi|19416	0.754	0.080	0.533	4e-20
195481811	1098	GE17824 [Drosophila yakuba] gi|194189313	0.754	0.081	0.545	5e-20
332029552	1030	DNA2-like helicase [Acromyrmex echinatio	0.703	0.080	0.558	6e-20
195350587	1100	GM11399 [Drosophila sechellia] gi|194123	0.754	0.080	0.535	1e-19
24640932	1100	CG2990, isoform B [Drosophila melanogast	0.754	0.080	0.535	1e-19
195566007	1100	GD16967 [Drosophila simulans] gi|1942039	0.754	0.080	0.535	1e-19
161077698	1099	CG2990, isoform C [Drosophila melanogast	0.754	0.080	0.535	1e-19

>gi|194890272|ref|XP_001977279.1| GG18336 [Drosophila erecta] gi|190648928|gb|EDV46206.1| GG18336 [Drosophila erecta]

 Score =  105 bits (261), Expect = 4e-21,   Method: Composition-based stats.
 Identities = 56/99 (56%), Positives = 73/99 (73%), Gaps = 10/99 (10%)

Query: 3    LISGIPTDHIGVIATYRNQVSLLKRL---LDKDIEINTVDQYQGRDKSIILYSSTCT--- 56
            L SG     IGVIA YR QV LLK+L   LD D+E NTVDQ+QGRDKS+I+YS + T   
Sbjct: 959  LKSGFEASRIGVIAPYRAQVELLKKLASKLDTDLECNTVDQFQGRDKSLIIYSCSKTGGG 1018

Query: 57   ----SKSKESKILNDRKRLTVAISRAKHKLIILGDLQVI 91
                 +S+E++IL D++RLTVAI+RAK+KLI+LGD+Q +
Sbjct: 1019 FTDMERSREAEILEDQRRLTVAITRAKNKLILLGDIQCL 1057

Source: Drosophila erecta

Species: Drosophila erecta

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307188367|gb|EFN73136.1| DNA2-like helicase [Camponotus floridanus]

 Score =  104 bits (259), Expect = 9e-21,   Method: Compositional matrix adjust.
 Identities = 51/87 (58%), Positives = 71/87 (81%), Gaps = 5/87 (5%)

Query: 5    SGIPTDHIGVIATYRNQVSLLKRLLDKDIEINTVDQYQGRDKSIILYSST----CTSKSK 60
            +G+   +IGVIA Y  Q++LLK++LDK++E+NTVDQYQGRDK +ILYS T    C +K K
Sbjct: 1030 AGVCGRNIGVIAPYNAQINLLKKILDKEVEVNTVDQYQGRDKDVILYSCTKSTECNTK-K 1088

Query: 61   ESKILNDRKRLTVAISRAKHKLIILGD 87
            E +IL+D++RLTVAI+RA+HKL+I+ D
Sbjct: 1089 EFEILDDQRRLTVAITRARHKLVIISD 1115

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|156545481|ref|XP_001606961.1| PREDICTED: DNA2-like helicase-like [Nasonia vitripennis]

 Score =  103 bits (256), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 52/90 (57%), Positives = 70/90 (77%), Gaps = 4/90 (4%)

Query: 6    GIPTDHIGVIATYRNQVSLLKRLLDKDIEINTVDQYQGRDKSIILYSSTCT----SKSKE 61
            GI T  IGVIA YR QV LL++++  DIE+NTVDQYQGRDKS+I+YS + +    +K +E
Sbjct: 1063 GIETQTIGVIAPYRVQVHLLRKVVPNDIEVNTVDQYQGRDKSVIIYSCSKSISKDTKIQE 1122

Query: 62   SKILNDRKRLTVAISRAKHKLIILGDLQVI 91
              IL D++RLTVA++RAKHKLII+GD+  +
Sbjct: 1123 FDILEDQQRLTVAVTRAKHKLIIIGDVNTL 1152

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195446960|ref|XP_002071002.1| GK25369 [Drosophila willistoni] gi|194167087|gb|EDW81988.1| GK25369 [Drosophila willistoni]

 Score =  102 bits (253), Expect = 4e-20,   Method: Composition-based stats.
 Identities = 55/103 (53%), Positives = 72/103 (69%), Gaps = 14/103 (13%)

Query: 3    LISGIPTDHIGVIATYRNQVSLLKRL---LDKDIEINTVDQYQGRDKSIILYSSTCT--- 56
            L  G   + +GVIA YR QV LL++L   LD++IE NTVDQYQGRDK +I+YS   T   
Sbjct: 962  LAIGYDANRLGVIAPYRAQVELLRKLGNALDQNIEFNTVDQYQGRDKDLIIYSCAKTGAI 1021

Query: 57   --------SKSKESKILNDRKRLTVAISRAKHKLIILGDLQVI 91
                     +S+ES+IL D++RLTVAI+RAKHKLIILGD++ +
Sbjct: 1022 PLDGNEQMERSRESEILEDQRRLTVAITRAKHKLIILGDVKCL 1064

Source: Drosophila willistoni

Species: Drosophila willistoni

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195481811|ref|XP_002101789.1| GE17824 [Drosophila yakuba] gi|194189313|gb|EDX02897.1| GE17824 [Drosophila yakuba]

 Score =  101 bits (252), Expect = 5e-20,   Method: Composition-based stats.
 Identities = 54/99 (54%), Positives = 73/99 (73%), Gaps = 10/99 (10%)

Query: 3    LISGIPTDHIGVIATYRNQVSLLKRL---LDKDIEINTVDQYQGRDKSIILYSSTCT--- 56
            L SG     IGVIA YR QV LLK+L   LD D+E NTVDQ+QGRDK++I+YS + T   
Sbjct: 957  LKSGFEAARIGVIAPYRAQVELLKKLASKLDTDLECNTVDQFQGRDKNLIIYSCSKTGGD 1016

Query: 57   ----SKSKESKILNDRKRLTVAISRAKHKLIILGDLQVI 91
                 +S+E++IL D++RLTVAI+RAK+KLI+LGD++ +
Sbjct: 1017 FSNMERSREAEILEDQRRLTVAITRAKNKLILLGDIKCL 1055

Source: Drosophila yakuba

Species: Drosophila yakuba

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332029552|gb|EGI69441.1| DNA2-like helicase [Acromyrmex echinatior]

 Score =  101 bits (251), Expect = 6e-20,   Method: Compositional matrix adjust.
 Identities = 48/86 (55%), Positives = 70/86 (81%), Gaps = 3/86 (3%)

Query: 5   SGIPTDHIGVIATYRNQVSLLKRLLDKDIEINTVDQYQGRDKSIILYSSTCTSKS---KE 61
           +G+   +IG+IA Y   ++LLK+++DK++E+NTVDQYQGRDK +ILYS T + +S   KE
Sbjct: 895 AGVCARNIGIIAPYNAHINLLKKVIDKEVEVNTVDQYQGRDKDVILYSCTKSVESDTKKE 954

Query: 62  SKILNDRKRLTVAISRAKHKLIILGD 87
            +IL+D++RLTVAI+RA+HKLII+ D
Sbjct: 955 FEILDDQRRLTVAITRARHKLIIIAD 980

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195350587|ref|XP_002041821.1| GM11399 [Drosophila sechellia] gi|194123626|gb|EDW45669.1| GM11399 [Drosophila sechellia]

 Score =  100 bits (249), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 53/99 (53%), Positives = 72/99 (72%), Gaps = 10/99 (10%)

Query: 3    LISGIPTDHIGVIATYRNQVSLLKRL---LDKDIEINTVDQYQGRDKSIILYSSTCT--- 56
            L SG     IGVIA YR QV L K+L   LD D+E NTVDQ+QGRDK++I+YS + T   
Sbjct: 959  LKSGYEASRIGVIAPYRAQVELFKKLASKLDTDLECNTVDQFQGRDKNLIIYSCSKTGGD 1018

Query: 57   ----SKSKESKILNDRKRLTVAISRAKHKLIILGDLQVI 91
                 +S+E++IL D++RLTVAI+RAK+KLI+LGD++ +
Sbjct: 1019 FSDMERSREAEILEDQRRLTVAITRAKNKLILLGDIKCL 1057

Source: Drosophila sechellia

Species: Drosophila sechellia

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|24640932|ref|NP_727386.1| CG2990, isoform B [Drosophila melanogaster] gi|22833065|gb|AAN09623.1| CG2990, isoform B [Drosophila melanogaster] gi|242118022|gb|ACS78060.1| FI06813p [Drosophila melanogaster]

 Score =  100 bits (249), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 53/99 (53%), Positives = 72/99 (72%), Gaps = 10/99 (10%)

Query: 3    LISGIPTDHIGVIATYRNQVSLLKRL---LDKDIEINTVDQYQGRDKSIILYSSTCT--- 56
            L SG     IGVIA YR QV L K+L   LD D+E NTVDQ+QGRDK++I+YS + T   
Sbjct: 959  LKSGYEASRIGVIAPYRAQVELFKKLASKLDTDLECNTVDQFQGRDKNLIIYSCSKTGGD 1018

Query: 57   ----SKSKESKILNDRKRLTVAISRAKHKLIILGDLQVI 91
                 +S+E++IL D++RLTVAI+RAK+KLI+LGD++ +
Sbjct: 1019 FSDMERSREAEILEDQRRLTVAITRAKNKLILLGDIKCL 1057

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195566007|ref|XP_002106584.1| GD16967 [Drosophila simulans] gi|194203965|gb|EDX17541.1| GD16967 [Drosophila simulans]

 Score =  100 bits (249), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 53/99 (53%), Positives = 72/99 (72%), Gaps = 10/99 (10%)

Query: 3    LISGIPTDHIGVIATYRNQVSLLKRL---LDKDIEINTVDQYQGRDKSIILYSSTCT--- 56
            L SG     IGVIA YR QV L K+L   LD D+E NTVDQ+QGRDK++I+YS + T   
Sbjct: 959  LKSGYEASRIGVIAPYRAQVELFKKLASKLDTDLECNTVDQFQGRDKNLIIYSCSKTGGD 1018

Query: 57   ----SKSKESKILNDRKRLTVAISRAKHKLIILGDLQVI 91
                 +S+E++IL D++RLTVAI+RAK+KLI+LGD++ +
Sbjct: 1019 FSDMERSREAEILEDQRRLTVAITRAKNKLILLGDIKCL 1057

Source: Drosophila simulans

Species: Drosophila simulans

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|161077698|ref|NP_001096933.1| CG2990, isoform C [Drosophila melanogaster] gi|158031772|gb|AAF46543.2| CG2990, isoform C [Drosophila melanogaster]

 Score =  100 bits (249), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 53/99 (53%), Positives = 72/99 (72%), Gaps = 10/99 (10%)

Query: 3    LISGIPTDHIGVIATYRNQVSLLKRL---LDKDIEINTVDQYQGRDKSIILYSSTCT--- 56
            L SG     IGVIA YR QV L K+L   LD D+E NTVDQ+QGRDK++I+YS + T   
Sbjct: 958  LKSGYEASRIGVIAPYRAQVELFKKLASKLDTDLECNTVDQFQGRDKNLIIYSCSKTGGD 1017

Query: 57   ----SKSKESKILNDRKRLTVAISRAKHKLIILGDLQVI 91
                 +S+E++IL D++RLTVAI+RAK+KLI+LGD++ +
Sbjct: 1018 FSDMERSREAEILEDQRRLTVAITRAKNKLILLGDIKCL 1056

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	118
FB|FBgn0030170	1100	CG2990 [Drosophila melanogaste	0.754	0.080	0.494	1.3e-15
UNIPROTKB|H0Y455	375	DNA2 "DNA replication ATP-depe	0.661	0.208	0.506	8.8e-14
UNIPROTKB|F8VR31	807	DNA2 "DNA replication ATP-depe	0.661	0.096	0.506	3.9e-13
UNIPROTKB|P51530	1060	DNA2 "DNA replication ATP-depe	0.661	0.073	0.506	5.7e-13
UNIPROTKB|J3KPX5	1146	DNA2 "DNA replication ATP-depe	0.661	0.068	0.506	6.3e-13
UNIPROTKB|J9NRI6	640	DNA2 "Uncharacterized protein"	0.779	0.143	0.439	1.2e-12
MGI|MGI:2443732	1062	Dna2 "DNA replication helicase	0.677	0.075	0.476	1.9e-12
UNIPROTKB|F1PYQ4	997	DNA2 "Uncharacterized protein"	0.779	0.092	0.439	2.3e-12
UNIPROTKB|F6UZP1	1021	DNA2 "Uncharacterized protein"	0.779	0.090	0.439	2.4e-12
UNIPROTKB|E2QSH2	1040	E2QSH2 "Uncharacterized protei	0.779	0.088	0.439	2.4e-12

FB|FBgn0030170 CG2990 [Drosophila melanogaster (taxid:7227)]

 Score = 209 (78.6 bits), Expect = 1.3e-15, P = 1.3e-15
 Identities = 49/99 (49%), Positives = 63/99 (63%)

Query:     3 LISGIPTDHIGVIATYRNQVSLLKRL---LDKDIEINTVDQYQGRDKSIILYXXXXXXXX 59
             L SG     IGVIA YR QV L K+L   LD D+E NTVDQ+QGRDK++I+Y        
Sbjct:   959 LKSGYEASRIGVIAPYRAQVELFKKLASKLDTDLECNTVDQFQGRDKNLIIYSCSKTGGD 1018

Query:    60 XX-------XXILNDRKRLTVAISRAKHKLIILGDLQVI 91
                        IL D++RLTVAI+RAK+KLI+LGD++ +
Sbjct:  1019 FSDMERSREAEILEDQRRLTVAITRAKNKLILLGDIKCL 1057

GO:0004003 "ATP-dependent DNA helicase activity" evidence=ISS

GO:0000014 "single-stranded DNA specific endodeoxyribonuclease activity" evidence=ISS

GO:0033567 "DNA replication, Okazaki fragment processing" evidence=IEA

GO:0017108 "5'-flap endonuclease activity" evidence=IEA

GO:0043142 "single-stranded DNA-dependent ATPase activity" evidence=IEA

UNIPROTKB|H0Y455 DNA2 "DNA replication ATP-dependent helicase/nuclease DNA2" [Homo sapiens (taxid:9606)]

 Score = 184 (69.8 bits), Expect = 8.8e-14, P = 8.8e-14
 Identities = 42/83 (50%), Positives = 55/83 (66%)

Query:     8 PTDHIGVIATYRNQVSLLKRLLDKDI---EINTVDQYQGRDKSIILYXXXXXXXXXXXX- 63
             P+D IG+IA YR Q+ ++  LL + I   E+NTVD+YQGRDKSI+L              
Sbjct:   256 PSD-IGIIAPYRQQLKIINDLLARSIGMVEVNTVDKYQGRDKSIVLVSFVRSNKDGTVGE 314

Query:    64 ILNDRKRLTVAISRAKHKLIILG 86
             +L D +RL VAI+RAKHKLI+LG
Sbjct:   315 LLKDWRRLNVAITRAKHKLILLG 337

GO:0017108 "5'-flap endonuclease activity" evidence=IEA

GO:0033567 "DNA replication, Okazaki fragment processing" evidence=IEA

GO:0043142 "single-stranded DNA-dependent ATPase activity" evidence=IEA

UNIPROTKB|F8VR31 DNA2 "DNA replication ATP-dependent helicase/nuclease DNA2" [Homo sapiens (taxid:9606)]

 Score = 184 (69.8 bits), Expect = 3.9e-13, P = 3.9e-13
 Identities = 42/83 (50%), Positives = 55/83 (66%)

Query:     8 PTDHIGVIATYRNQVSLLKRLLDKDI---EINTVDQYQGRDKSIILYXXXXXXXXXXXX- 63
             P+D IG+IA YR Q+ ++  LL + I   E+NTVD+YQGRDKSI+L              
Sbjct:   696 PSD-IGIIAPYRQQLKIINDLLARSIGMVEVNTVDKYQGRDKSIVLVSFVRSNKDGTVGE 754

Query:    64 ILNDRKRLTVAISRAKHKLIILG 86
             +L D +RL VAI+RAKHKLI+LG
Sbjct:   755 LLKDWRRLNVAITRAKHKLILLG 777

GO:0017108 "5'-flap endonuclease activity" evidence=IEA

GO:0033567 "DNA replication, Okazaki fragment processing" evidence=IEA

GO:0043142 "single-stranded DNA-dependent ATPase activity" evidence=IEA

UNIPROTKB|P51530 DNA2 "DNA replication ATP-dependent helicase/nuclease DNA2" [Homo sapiens (taxid:9606)]

 Score = 184 (69.8 bits), Expect = 5.7e-13, P = 5.7e-13
 Identities = 42/83 (50%), Positives = 55/83 (66%)

Query:     8 PTDHIGVIATYRNQVSLLKRLLDKDI---EINTVDQYQGRDKSIILYXXXXXXXXXXXX- 63
             P+D IG+IA YR Q+ ++  LL + I   E+NTVD+YQGRDKSI+L              
Sbjct:   934 PSD-IGIIAPYRQQLKIINDLLARSIGMVEVNTVDKYQGRDKSIVLVSFVRSNKDGTVGE 992

Query:    64 ILNDRKRLTVAISRAKHKLIILG 86
             +L D +RL VAI+RAKHKLI+LG
Sbjct:   993 LLKDWRRLNVAITRAKHKLILLG 1015

GO:0005524 "ATP binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0042645 "mitochondrial nucleoid" evidence=IDA

GO:0043504 "mitochondrial DNA repair" evidence=IDA

GO:0006264 "mitochondrial DNA replication" evidence=IDA

GO:0017108 "5'-flap endonuclease activity" evidence=IDA

GO:0045740 "positive regulation of DNA replication" evidence=IDA

GO:0043137 "DNA replication, removal of RNA primer" evidence=IDA

GO:0006284 "base-excision repair" evidence=IDA

GO:0016890 "site-specific endodeoxyribonuclease activity, specific for altered base" evidence=IDA

GO:0005760 "gamma DNA polymerase complex" evidence=IDA

GO:0016887 "ATPase activity" evidence=TAS

GO:0004386 "helicase activity" evidence=TAS

GO:0000076 "DNA replication checkpoint" evidence=IMP

GO:0006260 "DNA replication" evidence=IMP

GO:0003677 "DNA binding" evidence=IDA

GO:0033567 "DNA replication, Okazaki fragment processing" evidence=IDA

GO:0043142 "single-stranded DNA-dependent ATPase activity" evidence=IDA

GO:0003678 "DNA helicase activity" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0000729 "DNA double-strand break processing" evidence=IDA

GO:0004518 "nuclease activity" evidence=IDA

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

GO:0000084 "S phase of mitotic cell cycle" evidence=TAS

GO:0000278 "mitotic cell cycle" evidence=TAS

GO:0000722 "telomere maintenance via recombination" evidence=TAS

GO:0000723 "telomere maintenance" evidence=TAS

GO:0005654 "nucleoplasm" evidence=TAS

GO:0006271 "DNA strand elongation involved in DNA replication" evidence=TAS

GO:0032201 "telomere maintenance via semi-conservative replication" evidence=TAS

GO:0006200 "ATP catabolic process" evidence=TAS

GO:0032508 "DNA duplex unwinding" evidence=IDA

UNIPROTKB|J3KPX5 DNA2 "DNA replication ATP-dependent helicase/nuclease DNA2" [Homo sapiens (taxid:9606)]

 Score = 184 (69.8 bits), Expect = 6.3e-13, P = 6.3e-13
 Identities = 42/83 (50%), Positives = 55/83 (66%)

Query:     8 PTDHIGVIATYRNQVSLLKRLLDKDI---EINTVDQYQGRDKSIILYXXXXXXXXXXXX- 63
             P+D IG+IA YR Q+ ++  LL + I   E+NTVD+YQGRDKSI+L              
Sbjct:  1020 PSD-IGIIAPYRQQLKIINDLLARSIGMVEVNTVDKYQGRDKSIVLVSFVRSNKDGTVGE 1078

Query:    64 ILNDRKRLTVAISRAKHKLIILG 86
             +L D +RL VAI+RAKHKLI+LG
Sbjct:  1079 LLKDWRRLNVAITRAKHKLILLG 1101

GO:0017108 "5'-flap endonuclease activity" evidence=IEA

GO:0033567 "DNA replication, Okazaki fragment processing" evidence=IEA

GO:0043142 "single-stranded DNA-dependent ATPase activity" evidence=IEA

UNIPROTKB|J9NRI6 DNA2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 178 (67.7 bits), Expect = 1.2e-12, P = 1.2e-12
 Identities = 47/107 (43%), Positives = 63/107 (58%)

Query:     8 PTDHIGVIATYRNQVSLLKRLLDKD----IEINTVDQYQGRDKSIILYXXXXXXXXX-XX 62
             P+D IG+IA YR Q+ ++  LL       +E+NTVD+YQGRDKSIIL             
Sbjct:   513 PSD-IGIIAPYRQQLKIINDLLFHSSIRMVEVNTVDKYQGRDKSIILVSFVRSNKDGPIG 571

Query:    63 XILNDRKRLTVAISRAKHKLIILGDLQVIIAIVNCPNTGRYGNLGQI 109
              +L D +RL VAI+RAKHKLI+LG +         P+  RY  LG++
Sbjct:   572 ELLKDWRRLNVAITRAKHKLILLGCV---------PSLNRYPPLGKL 609

GO:0043142 "single-stranded DNA-dependent ATPase activity" evidence=IEA

GO:0033567 "DNA replication, Okazaki fragment processing" evidence=IEA

GO:0017108 "5'-flap endonuclease activity" evidence=IEA

MGI|MGI:2443732 Dna2 "DNA replication helicase 2 homolog (yeast)" [Mus musculus (taxid:10090)]

 Score = 179 (68.1 bits), Expect = 1.9e-12, P = 1.9e-12
 Identities = 41/86 (47%), Positives = 56/86 (65%)

Query:     8 PTDHIGVIATYRNQVSLLKRLLDKD----IEINTVDQYQGRDKSIILYXXXXXXXXXXXX 63
             P+D IGVIA YR Q+ ++  LL +     +E+NTVD+YQGRDKS+IL             
Sbjct:   935 PSD-IGVIAPYRQQLRIISDLLARSSVGMVEVNTVDKYQGRDKSLILVSFVRSNEDGTLG 993

Query:    64 -ILNDRKRLTVAISRAKHKLIILGDL 88
              +L D +RL VA++RAKHKLI+LG +
Sbjct:   994 ELLKDWRRLNVALTRAKHKLILLGSV 1019

GO:0000076 "DNA replication checkpoint" evidence=ISO

GO:0000166 "nucleotide binding" evidence=IEA

GO:0000729 "DNA double-strand break processing" evidence=ISO

GO:0003677 "DNA binding" evidence=ISO

GO:0003678 "DNA helicase activity" evidence=ISO

GO:0003824 "catalytic activity" evidence=IEA

GO:0004386 "helicase activity" evidence=IEA

GO:0004518 "nuclease activity" evidence=ISO

GO:0004519 "endonuclease activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISO

GO:0005739 "mitochondrion" evidence=IEA

GO:0006260 "DNA replication" evidence=ISO

GO:0006264 "mitochondrial DNA replication" evidence=ISO

GO:0006281 "DNA repair" evidence=IEA

GO:0006284 "base-excision repair" evidence=ISO

GO:0006974 "response to DNA damage stimulus" evidence=IEA

GO:0008152 "metabolic process" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0016890 "site-specific endodeoxyribonuclease activity, specific for altered base" evidence=ISO

GO:0017108 "5'-flap endonuclease activity" evidence=ISO

GO:0032508 "DNA duplex unwinding" evidence=ISO

GO:0033567 "DNA replication, Okazaki fragment processing" evidence=ISO

GO:0042645 "mitochondrial nucleoid" evidence=ISO

GO:0043137 "DNA replication, removal of RNA primer" evidence=ISO

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

GO:0043142 "single-stranded DNA-dependent ATPase activity" evidence=ISO

GO:0043504 "mitochondrial DNA repair" evidence=ISO

GO:0045740 "positive regulation of DNA replication" evidence=ISO

GO:0046872 "metal ion binding" evidence=IEA

GO:0051536 "iron-sulfur cluster binding" evidence=IEA

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA

UNIPROTKB|F1PYQ4 DNA2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 178 (67.7 bits), Expect = 2.3e-12, P = 2.3e-12
 Identities = 47/107 (43%), Positives = 63/107 (58%)

Query:     8 PTDHIGVIATYRNQVSLLKRLLDKD----IEINTVDQYQGRDKSIILYXXXXXXXXX-XX 62
             P+D IG+IA YR Q+ ++  LL       +E+NTVD+YQGRDKSIIL             
Sbjct:   876 PSD-IGIIAPYRQQLKIINDLLFHSSIRMVEVNTVDKYQGRDKSIILVSFVRSNKDGPIG 934

Query:    63 XILNDRKRLTVAISRAKHKLIILGDLQVIIAIVNCPNTGRYGNLGQI 109
              +L D +RL VAI+RAKHKLI+LG +         P+  RY  LG++
Sbjct:   935 ELLKDWRRLNVAITRAKHKLILLGCV---------PSLNRYPPLGKL 972

GO:0043142 "single-stranded DNA-dependent ATPase activity" evidence=IEA

GO:0033567 "DNA replication, Okazaki fragment processing" evidence=IEA

GO:0017108 "5'-flap endonuclease activity" evidence=IEA

UNIPROTKB|F6UZP1 DNA2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 178 (67.7 bits), Expect = 2.4e-12, P = 2.4e-12
 Identities = 47/107 (43%), Positives = 63/107 (58%)

Query:     8 PTDHIGVIATYRNQVSLLKRLLDKD----IEINTVDQYQGRDKSIILYXXXXXXXXX-XX 62
             P+D IG+IA YR Q+ ++  LL       +E+NTVD+YQGRDKSIIL             
Sbjct:   902 PSD-IGIIAPYRQQLKIINDLLFHSSIRMVEVNTVDKYQGRDKSIILVSFVRSNKDGPIG 960

Query:    63 XILNDRKRLTVAISRAKHKLIILGDLQVIIAIVNCPNTGRYGNLGQI 109
              +L D +RL VAI+RAKHKLI+LG +         P+  RY  LG++
Sbjct:   961 ELLKDWRRLNVAITRAKHKLILLGCV---------PSLNRYPPLGKL 998

GO:0043142 "single-stranded DNA-dependent ATPase activity" evidence=IEA

GO:0033567 "DNA replication, Okazaki fragment processing" evidence=IEA

GO:0017108 "5'-flap endonuclease activity" evidence=IEA

UNIPROTKB|E2QSH2 E2QSH2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 178 (67.7 bits), Expect = 2.4e-12, P = 2.4e-12
 Identities = 47/107 (43%), Positives = 63/107 (58%)

Query:     8 PTDHIGVIATYRNQVSLLKRLLDKD----IEINTVDQYQGRDKSIILYXXXXXXXXX-XX 62
             P+D IG+IA YR Q+ ++  LL       +E+NTVD+YQGRDKSIIL             
Sbjct:   933 PSD-IGIIAPYRQQLKIINDLLFHSSIRMVEVNTVDKYQGRDKSIILVSFVRSNKDGPIG 991

Query:    63 XILNDRKRLTVAISRAKHKLIILGDLQVIIAIVNCPNTGRYGNLGQI 109
              +L D +RL VAI+RAKHKLI+LG +         P+  RY  LG++
Sbjct:   992 ELLKDWRRLNVAITRAKHKLILLGCV---------PSLNRYPPLGKL 1029

GO:0043142 "single-stranded DNA-dependent ATPase activity" evidence=IEA

GO:0033567 "DNA replication, Okazaki fragment processing" evidence=IEA

GO:0017108 "5'-flap endonuclease activity" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P51530	DNA2_HUMAN	3, ., 6, ., 4, ., 1, 2	0.5301	0.6610	0.0735	yes	N/A

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	118
pfam13087	195	pfam13087, AAA_12, AAA domain	1e-28
TIGR00376	637	TIGR00376, TIGR00376, DNA helicase, putative	2e-19
COG1112	767	COG1112, COG1112, Superfamily I DNA and RNA helica	4e-16

>gnl|CDD|221913 pfam13087, AAA_12, AAA domain

 Score =  102 bits (257), Expect = 1e-28
 Identities = 37/87 (42%), Positives = 57/87 (65%), Gaps = 6/87 (6%)

Query: 7   IPTDHIGVIATYRNQVSLLKRLLDK------DIEINTVDQYQGRDKSIILYSSTCTSKSK 60
                IG+I  YR QV L+K+LL +      DIE+NTVD +QGR+K +I++S+  +++  
Sbjct: 107 EKNKDIGIITPYRAQVRLIKKLLKRKFGGEPDIEVNTVDGFQGREKDVIIFSTVRSNEKG 166

Query: 61  ESKILNDRKRLTVAISRAKHKLIILGD 87
               L+D +RL VA++RAK  LII+G+
Sbjct: 167 GIGFLSDPRRLNVALTRAKRGLIIVGN 193

This family of domains contain a P-loop motif that is characteristic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins. Length = 195

>gnl|CDD|232945 TIGR00376, TIGR00376, DNA helicase, putative

 Score = 81.4 bits (201), Expect = 2e-19
 Identities = 38/89 (42%), Positives = 61/89 (68%), Gaps = 3/89 (3%)

Query: 6   GIPTDHIGVIATYRNQVSLLKRLLDK---DIEINTVDQYQGRDKSIILYSSTCTSKSKES 62
           G+P + IGVI  Y  QV LL++LL+    DIE+++VD +QGR+K +I+ S   +++  E 
Sbjct: 524 GVPANDIGVITPYDAQVDLLRQLLEHRHIDIEVSSVDGFQGREKEVIIISFVRSNRKGEV 583

Query: 63  KILNDRKRLTVAISRAKHKLIILGDLQVI 91
             L D +RL VA++RA+ KLI++GD + +
Sbjct: 584 GFLKDLRRLNVALTRARRKLIVIGDSRTL 612

The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases [DNA metabolism, DNA replication, recombination, and repair]. Length = 637

>gnl|CDD|224037 COG1112, COG1112, Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]

 Score = 72.3 bits (177), Expect = 4e-16
 Identities = 40/93 (43%), Positives = 58/93 (62%), Gaps = 4/93 (4%)

Query: 3   LISGIPTDHIGVIATYRNQVSLLKRLLD---KDIEINTVDQYQGRDKSIILYSST-CTSK 58
           L  G+  + IGVI+ YR QVSL++RLL+   K +E+ TVD +QGR+K +I+ S       
Sbjct: 639 LKDGLEENDIGVISPYRAQVSLIRRLLNEAGKGVEVGTVDGFQGREKDVIILSLVRSNDD 698

Query: 59  SKESKILNDRKRLTVAISRAKHKLIILGDLQVI 91
             E   L D +RL VA++RAK KLI++G    +
Sbjct: 699 KGEIGFLGDPRRLNVALTRAKRKLIVVGSSSTL 731

Length = 767

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	118
2wjv_A	800	Crystal Structure Of The Complex Between Human Nons		3e-09
2xzo_A	623	Upf1 Helicase - Rna Complex Length = 623		6e-09
2gjk_A	624	Structural And Functional Insights Into The Human U		6e-09
2xzl_A	802	Upf1-Rna Complex Length = 802		2e-08
4b3g_A	646	Crystal Structure Of Ighmbp2 Helicase In Complex Wi		3e-07
4b3f_X	646	Crystal Structure Of 1ghmbp2 Helicase Length = 646		3e-07

>pdb|2WJV|A Chain A, Crystal Structure Of The Complex Between Human Nonsense Mediated Decay Factors Upf1 And Upf2 Length = 800

Iteration: 1
 Score = 56.6 bits (135), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 31/95 (32%), Positives = 50/95 (52%), Gaps = 10/95 (10%)
Query: 3   LISGIPTDHIGVIATYRNQVSLLKRLLD----------KDIEINTVDQYQGRDKSIILYX 52
           L +G   D IG+I  Y  Q S L + +           +++EI +VD +QGR+K  I+  
Sbjct: 667 LKAGAKPDQIGIITPYEGQRSYLVQYMQFSGSLHTKLYQEVEIASVDAFQGREKDFIILS 726
Query: 53  XXXXXXXXXXXILNDRKRLTVAISRAKHKLIILGD 87
                       LND +RL VA++RA++ +II+G+
Sbjct: 727 CVRANEHQGIGFLNDPRRLNVALTRARYGVIIVGN 761

>pdb|2XZO|A Chain A, Upf1 Helicase - Rna Complex Length = 623

Iteration: 1
 Score = 55.8 bits (133), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 31/95 (32%), Positives = 50/95 (52%), Gaps = 10/95 (10%)
Query: 3   LISGIPTDHIGVIATYRNQVSLLKRLLD----------KDIEINTVDQYQGRDKSIILYX 52
           L +G   D IG+I  Y  Q S L + +           +++EI +VD +QGR+K  I+  
Sbjct: 490 LKAGAKPDQIGIITPYEGQRSYLVQYMQFSGSLHTKLYQEVEIASVDAFQGREKDFIILS 549
Query: 53  XXXXXXXXXXXILNDRKRLTVAISRAKHKLIILGD 87
                       LND +RL VA++RA++ +II+G+
Sbjct: 550 CVRANEHQGIGFLNDPRRLNVALTRARYGVIIVGN 584

>pdb|2GJK|A Chain A, Structural And Functional Insights Into The Human Upf1 Helicase Core Length = 624

Iteration: 1
 Score = 55.8 bits (133), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 31/95 (32%), Positives = 50/95 (52%), Gaps = 10/95 (10%)
Query: 3   LISGIPTDHIGVIATYRNQVSLLKRLLD----------KDIEINTVDQYQGRDKSIILYX 52
           L +G   D IG+I  Y  Q S L + +           +++EI +VD +QGR+K  I+  
Sbjct: 491 LKAGAKPDQIGIITPYEGQRSYLVQYMQFSGSLHTKLYQEVEIASVDAFQGREKDFIILS 550
Query: 53  XXXXXXXXXXXILNDRKRLTVAISRAKHKLIILGD 87
                       LND +RL VA++RA++ +II+G+
Sbjct: 551 CVRANEHQGIGFLNDPRRLNVALTRARYGVIIVGN 585

>pdb|2XZL|A Chain A, Upf1-Rna Complex Length = 802

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 31/92 (33%), Positives = 48/92 (52%), Gaps = 10/92 (10%)
Query: 6   GIPTDHIGVIATYRNQVSLLKRL------LDKD----IEINTVDQYQGRDKSIILYXXXX 55
           G+  + IGVI  Y  Q + + +       LDKD    +E+ +VD +QGR+K  I+     
Sbjct: 672 GVKPEQIGVITPYEGQRAYILQYMQMNGSLDKDLYIKVEVASVDAFQGREKDYIILSCVR 731
Query: 56  XXXXXXXXILNDRKRLTVAISRAKHKLIILGD 87
                    L D +RL V ++RAK+ L+ILG+
Sbjct: 732 ANEQQAIGFLRDPRRLNVGLTRAKYGLVILGN 763

>pdb|4B3G|A Chain A, Crystal Structure Of Ighmbp2 Helicase In Complex With Rna Length = 646

Iteration: 1
 Score = 50.4 bits (119), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 25/90 (27%), Positives = 49/90 (54%), Gaps = 3/90 (3%)
Query: 5   SGIPTDHIGVIATYRNQVSLLKRLL---DKDIEINTVDQYQGRDKSIILYXXXXXXXXXX 61
           +G+P   I V++ Y  QV LL++ L     ++EI +VD +QGR+K  ++           
Sbjct: 526 AGVPARDIAVVSPYNLQVDLLRQSLVHRHPELEIKSVDGFQGREKEAVILSFVRSNRKGE 585
Query: 62  XXILNDRKRLTVAISRAKHKLIILGDLQVI 91
              L + +R+ VA++RA+  + ++ D + +
Sbjct: 586 VGFLAEDRRINVAVTRARRHVAVICDSRTV 615

>pdb|4B3F|X Chain X, Crystal Structure Of 1ghmbp2 Helicase Length = 646

Iteration: 1
 Score = 50.1 bits (118), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 25/90 (27%), Positives = 49/90 (54%), Gaps = 3/90 (3%)
Query: 5   SGIPTDHIGVIATYRNQVSLLKRLL---DKDIEINTVDQYQGRDKSIILYXXXXXXXXXX 61
           +G+P   I V++ Y  QV LL++ L     ++EI +VD +QGR+K  ++           
Sbjct: 526 AGVPARDIAVVSPYNLQVDLLRQSLVHRHPELEIKSVDGFQGREKEAVILSFVRSNRKGE 585
Query: 62  XXILNDRKRLTVAISRAKHKLIILGDLQVI 91
              L + +R+ VA++RA+  + ++ D + +
Sbjct: 586 VGFLAEDRRINVAVTRARRHVAVICDSRTV 615

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	118
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	1e-23
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	3e-22
2xzl_A	802	ATP-dependent helicase NAM7; hydrolase-RNA complex	1e-21
3vkw_A	446	Replicase large subunit; alpha/beta domain, helica	1e-04

>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD, hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A* 2gk7_A 2xzo_A* 2xzp_A Length = 624

 Score = 93.0 bits (231), Expect = 1e-23
 Identities = 31/97 (31%), Positives = 55/97 (56%), Gaps = 10/97 (10%)

Query: 5   SGIPTDHIGVIATYRNQVSLLKRLLD----------KDIEINTVDQYQGRDKSIILYSST 54
           +G   D IG+I  Y  Q S L + +           +++EI +VD +QGR+K  I+ S  
Sbjct: 493 AGAKPDQIGIITPYEGQRSYLVQYMQFSGSLHTKLYQEVEIASVDAFQGREKDFIILSCV 552

Query: 55  CTSKSKESKILNDRKRLTVAISRAKHKLIILGDLQVI 91
             ++ +    LND +RL VA++RA++ +II+G+ + +
Sbjct: 553 RANEHQGIGFLNDPRRLNVALTRARYGVIIVGNPKAL 589

>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay, zinc-finger, ATP-binding, metal-BIN UPF2, UPF1, helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A 2iyk_A Length = 800

 Score = 89.2 bits (221), Expect = 3e-22
 Identities = 31/97 (31%), Positives = 55/97 (56%), Gaps = 10/97 (10%)

Query: 5   SGIPTDHIGVIATYRNQVSLLKRLLD----------KDIEINTVDQYQGRDKSIILYSST 54
           +G   D IG+I  Y  Q S L + +           +++EI +VD +QGR+K  I+ S  
Sbjct: 669 AGAKPDQIGIITPYEGQRSYLVQYMQFSGSLHTKLYQEVEIASVDAFQGREKDFIILSCV 728

Query: 55  CTSKSKESKILNDRKRLTVAISRAKHKLIILGDLQVI 91
             ++ +    LND +RL VA++RA++ +II+G+ + +
Sbjct: 729 RANEHQGIGFLNDPRRLNVALTRARYGVIIVGNPKAL 765

>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA degradation, allosteric REGU; HET: ADP 1PE; 2.40A {Saccharomyces cerevisiae} Length = 802

 Score = 87.7 bits (217), Expect = 1e-21
 Identities = 28/97 (28%), Positives = 51/97 (52%), Gaps = 10/97 (10%)

Query: 5   SGIPTDHIGVIATYRNQVSLLKRLLD----------KDIEINTVDQYQGRDKSIILYSST 54
            G+  + IGVI  Y  Q + + + +             +E+ +VD +QGR+K  I+ S  
Sbjct: 671 DGVKPEQIGVITPYEGQRAYILQYMQMNGSLDKDLYIKVEVASVDAFQGREKDYIILSCV 730

Query: 55  CTSKSKESKILNDRKRLTVAISRAKHKLIILGDLQVI 91
             ++ +    L D +RL V ++RAK+ L+ILG+ + +
Sbjct: 731 RANEQQAIGFLRDPRRLNVGLTRAKYGLVILGNPRSL 767

>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus} Length = 446

 Score = 39.0 bits (90), Expect = 1e-04
 Identities = 20/84 (23%), Positives = 32/84 (38%), Gaps = 5/84 (5%)

Query: 1   MSLISGIPTDHIGVIATYRNQVSLLKRLLDKDIEINTVDQYQGRD-KSIILYSSTCTSKS 59
            + I+ +     G I T+  Q      L     +++TV + QG     + L   T T   
Sbjct: 338 AASINPVSKPLKGKILTFT-QSDKEALLSRGYADVHTVHEVQGETYADVSLVRLTPTP-- 394

Query: 60  KESKILNDRKRLTVAISRAKHKLI 83
             S I  D   + V++SR    L 
Sbjct: 395 -VSIIARDSPHVLVSLSRHTKSLK 417

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	118
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	99.96
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	99.9
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	99.9
2xzl_A	802	ATP-dependent helicase NAM7; hydrolase-RNA complex	99.9
3dmn_A	174	Putative DNA helicase; APC89291.2, lactobacillus p	99.34
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	99.0
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	98.59
3vkw_A	446	Replicase large subunit; alpha/beta domain, helica	98.13
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	97.94
1uaa_A	673	REP helicase, protein (ATP-dependent DNA helicase	97.72
1w36_B	1180	RECB, exodeoxyribonuclease V beta chain; recombina	97.64
1pjr_A	724	PCRA; DNA repair, DNA replication, SOS response, h	97.56
3lfu_A	647	DNA helicase II; SF1 helicase, ATP-binding, DNA da	97.54
3u4q_A	1232	ATP-dependent helicase/nuclease subunit A; helicas	97.4
1w36_C	1122	RECC, exodeoxyribonuclease V gamma chain; recombin	94.96
3u4q_B	1166	ATP-dependent helicase/deoxyribonuclease subunit;	93.83

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=99.96  E-value=5.6e-30  Score=208.23  Aligned_cols=90  Identities=30%  Similarity=0.584  Sum_probs=86.0

Q ss_pred             cccCCCCCCcEEEEcCcHHHHHHHHHHhcc---CceecccCCCCCccccEEEEEcccCCCCccccccCCcCchhhhhhhh
Q psy1354           2 SLISGIPTDHIGVIATYRNQVSLLKRLLDK---DIEINTVDQYQGRDKSIILYSSTCTSKSKESKILNDRKRLTVAISRA   78 (118)
Q Consensus         2 l~~~g~~~~~I~Iitpy~~Q~~~i~~~l~~---~~~v~Tv~~~qG~E~d~vi~s~~~~~~~~~~g~~~~~~~lnvaltRA   78 (118)
                      |++.|+++++|||||||++|+.+|++.|..   .+.|+|||+|||+|+|+||+|+|+++..+..||+.|++|+|||+|||
T Consensus       523 L~~~gv~~~dIgVItpYraQ~~~l~~~l~~~~~~i~v~TVd~fQG~E~dvII~S~vrsn~~~~iGFl~~~rRlNVAlTRA  602 (646)
T 4b3f_X          523 LVDAGVPARDIAVVSPYNLQVDLLRQSLVHRHPELEIKSVDGFQGREKEAVILSFVRSNRKGEVGFLAEDRRINVAVTRA  602 (646)
T ss_dssp             HHHHTCCGGGEEEEESCHHHHHHHHHHHTTTCTTCEEEEGGGGTTCCEEEEEEECCCCCTTCCCCSTTCHHHHHHHHHTE
T ss_pred             HHhcCCCcCcEEEECCCHHHHHHHHHHHHHhCCCCEECChhhcccccCCEEEEEeccCCCCCCccccCCcCcEEeEhhhh
Confidence            456799999999999999999999999977   79999999999999999999999999888899999999999999999


Q ss_pred             hcceEEEechhHH
Q psy1354          79 KHKLIILGDLQVI   91 (118)
Q Consensus        79 k~~livvg~~~~l   91 (118)
                      |++||||||+.+|
T Consensus       603 k~~liivGn~~~l  615 (646)
T 4b3f_X          603 RRHVAVICDSRTV  615 (646)
T ss_dssp             EEEEEEEECHHHH
T ss_pred             hCeEEEEEchHHh
Confidence            9999999999999

>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD, hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A* 2gk7_A 2xzo_A* 2xzp_A

Probab=99.90  E-value=2.9e-25  Score=180.21  Aligned_cols=90  Identities=36%  Similarity=0.615  Sum_probs=78.9

Q ss_pred             cccCCCCCCcEEEEcCcHHHHHHHHHHhcc----------CceecccCCCCCccccEEEEEcccCCCCccccccCCcCch
Q psy1354           2 SLISGIPTDHIGVIATYRNQVSLLKRLLDK----------DIEINTVDQYQGRDKSIILYSSTCTSKSKESKILNDRKRL   71 (118)
Q Consensus         2 l~~~g~~~~~I~Iitpy~~Q~~~i~~~l~~----------~~~v~Tv~~~qG~E~d~vi~s~~~~~~~~~~g~~~~~~~l   71 (118)
                      |++.|+++++|||||||++|+..|++.+..          .+.|+|||+|||+|+|+||+++++++.....||+.|++++
T Consensus       490 l~~~g~~~~dIgVItpy~~Q~~~i~~~l~~~~~~~~~~~~~v~v~TVd~fQG~E~dvVIls~vrs~~~~~~gfl~~~~rl  569 (624)
T 2gk6_A          490 LLKAGAKPDQIGIITPYEGQRSYLVQYMQFSGSLHTKLYQEVEIASVDAFQGREKDFIILSCVRANEHQGIGFLNDPRRL  569 (624)
T ss_dssp             HHTTTCCGGGEEEECSCHHHHHHHHHHHHHSCSSCHHHHHHSEEECHHHHTTCCEEEEEEEECC------CCTTTCHHHH
T ss_pred             HHHcCCCCCeEEEEcCCHHHHHHHHHHHHhhccccccccCceEEechhhcCCcccCEEEEEeecCCCCCCccccCCccee
Confidence            356789999999999999999999988853          5899999999999999999999999877778999999999


Q ss_pred             hhhhhhhhcceEEEechhHH
Q psy1354          72 TVAISRAKHKLIILGDLQVI   91 (118)
Q Consensus        72 nvaltRAk~~livvg~~~~l   91 (118)
                      |||+||||++|+|||++..|
T Consensus       570 nVAlTRAk~~L~ivg~~~~l  589 (624)
T 2gk6_A          570 NVALTRARYGVIIVGNPKAL  589 (624)
T ss_dssp             HHHTTSEEEEEEEEECHHHH
T ss_pred             eeehhhhhCcEEEEECHHHH
Confidence            99999999999999999999

>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay, zinc-finger, ATP-binding, metal-BIN UPF2, UPF1, helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A 2iyk_A

Probab=99.90  E-value=1e-24  Score=181.45  Aligned_cols=101  Identities=32%  Similarity=0.544  Sum_probs=89.7

Q ss_pred             cccCCCCCCcEEEEcCcHHHHHHHHHHhcc----------CceecccCCCCCccccEEEEEcccCCCCccccccCCcCch
Q psy1354           2 SLISGIPTDHIGVIATYRNQVSLLKRLLDK----------DIEINTVDQYQGRDKSIILYSSTCTSKSKESKILNDRKRL   71 (118)
Q Consensus         2 l~~~g~~~~~I~Iitpy~~Q~~~i~~~l~~----------~~~v~Tv~~~qG~E~d~vi~s~~~~~~~~~~g~~~~~~~l   71 (118)
                      |++.|+++++|||||||++|+..|++.+..          .+.|+|||+|||+|+|+||+++++++.....||+.|++|+
T Consensus       666 L~~~g~~~~dIgVItPy~~Q~~~I~~~L~~~~~~~~~~~~~v~V~TVd~fQG~E~dvVIlS~vrs~~~~~~gfl~d~rrL  745 (800)
T 2wjy_A          666 LLKAGAKPDQIGIITPYEGQRSYLVQYMQFSGSLHTKLYQEVEIASVDAFQGREKDFIILSCVRANEHQGIGFLNDPRRL  745 (800)
T ss_dssp             HHHTTCCGGGEEEECSCHHHHHHHHHHHHHHCSSCHHHHHTSEEECGGGGTTCCEEEEEEECCCCSCCCCCGGGTCHHHH
T ss_pred             HHHcCCCcccEEEEeccHHHHHHHHHHHHhcCcccccccCceEEccccccCCCcCCEEEEEecCCCCccccccccCcchh
Confidence            346789999999999999999999988753          6899999999999999999999999887778999999999


Q ss_pred             hhhhhhhhcceEEEechhHHHHHhcCCCCCCcchHhhccc
Q psy1354          72 TVAISRAKHKLIILGDLQVIIAIVNCPNTGRYGNLGQIPG  111 (118)
Q Consensus        72 nvaltRAk~~livvg~~~~l~~~~~~~~~~~~~~~~~l~~  111 (118)
                      |||+||||++|+|||++..|         .....|.++++
T Consensus       746 NVAlTRAk~~LiIvG~~~~l---------~~~~~w~~ll~  776 (800)
T 2wjy_A          746 NVALTRARYGVIIVGNPKAL---------SKQPLWNHLLN  776 (800)
T ss_dssp             HHHHTSEEEEEEEEECHHHH---------TSSHHHHHHHH
T ss_pred             hhhHHhhhccEEEEECHHHh---------ccCHHHHHHHH
Confidence            99999999999999999999         44555655554

>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA degradation, allosteric REGU; HET: ADP 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=99.90  E-value=7.3e-25  Score=182.40  Aligned_cols=101  Identities=29%  Similarity=0.512  Sum_probs=90.6

Q ss_pred             cccCCCCCCcEEEEcCcHHHHHHHHHHhcc----------CceecccCCCCCccccEEEEEcccCCCCccccccCCcCch
Q psy1354           2 SLISGIPTDHIGVIATYRNQVSLLKRLLDK----------DIEINTVDQYQGRDKSIILYSSTCTSKSKESKILNDRKRL   71 (118)
Q Consensus         2 l~~~g~~~~~I~Iitpy~~Q~~~i~~~l~~----------~~~v~Tv~~~qG~E~d~vi~s~~~~~~~~~~g~~~~~~~l   71 (118)
                      |++.|+++++|||||||++|+..|++.|..          .+.|+|||+|||+|+|+||+++++++.....||+.+++|+
T Consensus       668 L~~~g~~~~~IgVItpy~~Q~~~I~~~L~~~~~l~~~~~~~v~V~TVd~fQG~E~dvVIlS~vrs~~~~~~gfl~d~rrL  747 (802)
T 2xzl_A          668 LFRDGVKPEQIGVITPYEGQRAYILQYMQMNGSLDKDLYIKVEVASVDAFQGREKDYIILSCVRANEQQAIGFLRDPRRL  747 (802)
T ss_dssp             HHHTTCCGGGEEEEESCHHHHHHHHHHHHHHCSSCHHHHHTSEEEEHHHHTTCCEEEEEEECCCCCTTCCCGGGGCHHHH
T ss_pred             HHHcCCCcccEEEEcccHHHHHHHHHHHHHccccccccccceEEcchhhcCCCccCEEEEEeccCCCCCCcccccCccce
Confidence            346789999999999999999999988753          6999999999999999999999999887789999999999


Q ss_pred             hhhhhhhhcceEEEechhHHHHHhcCCCCCCcchHhhccc
Q psy1354          72 TVAISRAKHKLIILGDLQVIIAIVNCPNTGRYGNLGQIPG  111 (118)
Q Consensus        72 nvaltRAk~~livvg~~~~l~~~~~~~~~~~~~~~~~l~~  111 (118)
                      |||+||||++|+|||++..|         +....|.++++
T Consensus       748 NVAlTRAk~~LiIvg~~~~l---------~~~~~w~~ll~  778 (802)
T 2xzl_A          748 NVGLTRAKYGLVILGNPRSL---------ARNTLWNHLLI  778 (802)
T ss_dssp             HHHHSSEEEEEEEEECHHHH---------TTSHHHHHHHH
T ss_pred             eeeHhhhhCeEEEEECHHHh---------ccChHHHHHHH
Confidence            99999999999999999999         55566666654

>3dmn_A Putative DNA helicase; APC89291.2, lactobacillus plantarum WCFS1, STR genomics, PSI-2, midwest center for structural genomics; HET: MSE; 1.66A {Lactobacillus plantarum}

Probab=99.34  E-value=1.3e-12  Score=90.66  Aligned_cols=77  Identities=16%  Similarity=0.162  Sum_probs=64.8

Q ss_pred             CCcEEEEcCcHHHHHHHHHHhcc-----------------CceecccCCCCCccccEEEEEcccCCCCccccccCCcCch
Q psy1354           9 TDHIGVIATYRNQVSLLKRLLDK-----------------DIEINTVDQYQGRDKSIILYSSTCTSKSKESKILNDRKRL   71 (118)
Q Consensus         9 ~~~I~Iitpy~~Q~~~i~~~l~~-----------------~~~v~Tv~~~qG~E~d~vi~s~~~~~~~~~~g~~~~~~~l   71 (118)
                      .++|+||++.+.|...+.+.|..                 .+.+.|+|.++|.|+|.||+.......   .....+.+.+
T Consensus        61 ~~~iAVL~r~~~~~~~l~~~L~~~gi~~~~l~~~~~~~~~~v~v~t~~~~KGlEf~~V~~~~~~~~~---~~~~~~~~ll  137 (174)
T 3dmn_A           61 RDTTAIIGKSLAECEALTKALKARGEQVTLIQTENQRLAPGVIVVPSFLAKGLEFDAVIVWNANQEN---YQREDERQLL  137 (174)
T ss_dssp             TCCEEEEESSHHHHHHHHHHHHTTTCCEEECSSCC-CCCSSEEEEEGGGCTTCCEEEEEEETCBTTT---SCSGGGHHHH
T ss_pred             CCcEEEEecCHHHHHHHHHHHHHcCCcceeecccccccCCCeEEEEccccCCcCCCEEEEecCCccc---CCChhhhcee
Confidence            68999999999999999888754                 478999999999999999999765542   1124468899


Q ss_pred             hhhhhhhhcceEEEech
Q psy1354          72 TVAISRAKHKLIILGDL   88 (118)
Q Consensus        72 nvaltRAk~~livvg~~   88 (118)
                      |||+||||+.|++++..
T Consensus       138 Yva~TRA~~~l~~~~~~  154 (174)
T 3dmn_A          138 YTICSRAMHELTLVAVG  154 (174)
T ss_dssp             HHHHTTEEEEEEEEEES
T ss_pred             EEEecCcccEEEEEeCC
Confidence            99999999999999753

>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*

Probab=99.00  E-value=9e-11  Score=94.70  Aligned_cols=73  Identities=16%  Similarity=0.107  Sum_probs=60.9

Q ss_pred             ecccCCCCCccccEEEEEcccCCCCccccccCCcCchhhhhhhhhcceEEEechhHHHHHhcCCCCCCcchHhhcccc
Q psy1354          35 INTVDQYQGRDKSIILYSSTCTSKSKESKILNDRKRLTVAISRAKHKLIILGDLQVIIAIVNCPNTGRYGNLGQIPGT  112 (118)
Q Consensus        35 v~Tv~~~qG~E~d~vi~s~~~~~~~~~~g~~~~~~~lnvaltRAk~~livvg~~~~l~~~~~~~~~~~~~~~~~l~~~  112 (118)
                      ..|||++||.|+|.||+......     ..+.+++++|||+||||+.++++|+++.+..........+++.+.+.|..
T Consensus       493 A~TIHksQGsEfd~Vil~l~~~~-----~~~l~r~LlYvAiTRAk~~l~lvg~~~~l~~av~~~~~~R~t~L~~~l~~  565 (574)
T 3e1s_A          493 ALTVHRAQGSEWGTVLGVLHEAH-----MPMLSRNLVYTALTRARDRFFSAGSASAWQIAAARQREARNTALLERIRA  565 (574)
T ss_dssp             EEEHHHHTTCCEEEEEEEECGGG-----GGGCCHHHHHHHHHTEEEEEEEEECHHHHHHHHHCCCCCCCCCHHHHHHH
T ss_pred             eeeHHHhCCccCCeEEEEcCCcc-----ccccccceEEEEeeeeeeEEEEEECHHHHHHHHhCCCCCCchhHHHHHHH
Confidence            46999999999999999876442     24668899999999999999999999999987776655888888777653

>1w36_D RECD, exodeoxyribonuclease V alpha chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 PDB: 3k70_D*

Probab=98.59  E-value=5.3e-08  Score=78.88  Aligned_cols=101  Identities=18%  Similarity=0.203  Sum_probs=59.7

Q ss_pred             CCCCCCcEEEEcCcHHHH-HHH-------HHHhcc------CceecccCCCCCccccEEEEEcccCCCCccccccCCcCc
Q psy1354           5 SGIPTDHIGVIATYRNQV-SLL-------KRLLDK------DIEINTVDQYQGRDKSIILYSSTCTSKSKESKILNDRKR   70 (118)
Q Consensus         5 ~g~~~~~I~Iitpy~~Q~-~~i-------~~~l~~------~~~v~Tv~~~qG~E~d~vi~s~~~~~~~~~~g~~~~~~~   70 (118)
                      .|+-..+||+|++..... -.+       ......      ...+.|||+.||.|+|.|++.......     ...+.+.
T Consensus       491 ~gl~NGdiG~V~~~~~~l~v~f~~~dg~~~~~~~~~l~~l~~~~a~TihksqG~e~~~v~~~~~~~~~-----~~~~~~~  565 (608)
T 1w36_D          491 LGLFNGDIGIALDRGQGTRVWFAMPDGNIKSVQPSRLPEHETTWAMTVHKSQGSEFDHAALILPSQRT-----PVVTREL  565 (608)
T ss_dssp             --------------------------------CCSCCCSCSSCSEEETTTTTTCCBSEEEEECCSSCC-----SSSCHHH
T ss_pred             hcccCCCeEEEEEcCCeEEEEEECCCCcEEEechHHCCccceEEEEEEEecccccCCeEEEEeCCCcc-----chhhhhh
Confidence            356677888888764221 001       000011      577889999999999999998754332     2347889


Q ss_pred             hhhhhhhhhcceEEEechhHHHHHhcCCCCCCcchHhhccc
Q psy1354          71 LTVAISRAKHKLIILGDLQVIIAIVNCPNTGRYGNLGQIPG  111 (118)
Q Consensus        71 lnvaltRAk~~livvg~~~~l~~~~~~~~~~~~~~~~~l~~  111 (118)
                      +|||+||||+.++++++...|....... ..+++.+.+.+.
T Consensus       566 ~Yva~tRa~~~l~l~~~~~~l~~av~~~-~~R~s~L~~rl~  605 (608)
T 1w36_D          566 VYTAVTRARRRLSLYADERILSAAIATR-TERRSGLAALFS  605 (608)
T ss_dssp             HHHHHTTBSSCEEEECCTTHHHHHHHCC-CCCCCSHHHHTT
T ss_pred             HHhhhhhhhceEEEEECHHHHHHHHhCC-CcCchHHHHHhh
Confidence            9999999999999999999998766655 466666666654

>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus}

Probab=98.13  E-value=1.7e-06  Score=68.12  Aligned_cols=70  Identities=17%  Similarity=0.162  Sum_probs=53.0

Q ss_pred             EEEcCcHHHHHHHHHHhccCce-ecccCCCCCccccEEEEEcccCCCCccccccCCcCchhhhhhhhhcceEEEec
Q psy1354          13 GVIATYRNQVSLLKRLLDKDIE-INTVDQYQGRDKSIILYSSTCTSKSKESKILNDRKRLTVAISRAKHKLIILGD   87 (118)
Q Consensus        13 ~Iitpy~~Q~~~i~~~l~~~~~-v~Tv~~~qG~E~d~vi~s~~~~~~~~~~g~~~~~~~lnvaltRAk~~livvg~   87 (118)
                      -|||+..+.+..+...   ... +.|++++||.|+|.|.+-...+.+  ...+..++..++||+||||+.|.++.-
T Consensus       351 ~iLtftq~~k~~L~~~---G~~~~~Tv~e~QG~tf~~Vtlvr~~~~~--~~l~~~~~~~~~VALTRh~~~L~~~tv  421 (446)
T 3vkw_A          351 KILTFTQSDKEALLSR---GYADVHTVHEVQGETYADVSLVRLTPTP--VSIIARDSPHVLVSLSRHTKSLKYYTV  421 (446)
T ss_dssp             EEEESSHHHHHHHHTT---TCCSCEETGGGTTCCEEEEEEEECCCSC--CTTCSTTCHHHHHHHSSEEEEEEEEES
T ss_pred             eEEEcCHHHHHHHHHh---CCCCccCHHHcCCcccCeEEEEECCCCC--cccccCCccceEEEeecCCCEEEEEEe
Confidence            6778888888777765   555 889999999999998885443222  111234788999999999999998864

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=97.94  E-value=1.1e-06  Score=68.61  Aligned_cols=50  Identities=14%  Similarity=0.256  Sum_probs=38.0

Q ss_pred             ceecccCCCCCccccEEEEEcccCCCCccccccCCcCchhhhhhhhhcceEEE
Q psy1354          33 IEINTVDQYQGRDKSIILYSSTCTSKSKESKILNDRKRLTVAISRAKHKLIIL   85 (118)
Q Consensus        33 ~~v~Tv~~~qG~E~d~vi~s~~~~~~~~~~g~~~~~~~lnvaltRAk~~livv   85 (118)
                      +.+.|+|+.||.|+|.|++.......   .....+.+.+|||+||||+.|+++
T Consensus       410 ~~~~t~h~~kG~e~~~v~~~~~~~~~---~~~~~~~~~~yva~tRa~~~l~~~  459 (459)
T 3upu_A          410 LPASTFHKAQGMSVDRAFIYTPCIHY---ADVELAQQLLYVGVTRGRYDVFYV  459 (459)
T ss_dssp             SSEEETGGGTTCCEEEEEEECGGGGG---SCHHHHHHHHHHHHHHEEEEEEEC
T ss_pred             EEEEEEEeccCCCCCEEEEecCCCCC---cChHHHhheeeeeecceeeEEEeC
Confidence            66789999999999999997543221   111223677999999999999875

>1uaa_A REP helicase, protein (ATP-dependent DNA helicase REP.); complex (helicase/DNA), DNA unwinding, hydrolase/DNA complex; HET: DNA; 3.00A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19

Probab=97.72  E-value=8.7e-06  Score=66.15  Aligned_cols=57  Identities=16%  Similarity=0.163  Sum_probs=43.8

Q ss_pred             CceecccCCCCCccccEEEEEcccCCCCcc------ccccCCcCchhhhhhhhhcceEEEech
Q psy1354          32 DIEINTVDQYQGRDKSIILYSSTCTSKSKE------SKILNDRKRLTVAISRAKHKLIILGDL   88 (118)
Q Consensus        32 ~~~v~Tv~~~qG~E~d~vi~s~~~~~~~~~------~g~~~~~~~lnvaltRAk~~livvg~~   88 (118)
                      .|.+.|+|+.+|.|+|+|++.....+.-..      .....+.+.++||+||||+.|++....
T Consensus       551 ~V~l~TiH~sKGLEf~~Vfl~g~~eg~~P~~~~~~~~~~~EErRL~YVA~TRAk~~L~ls~~~  613 (673)
T 1uaa_A          551 QVQLMTLHASKGLEFPYVYMVGMEEGFLPHQSSIDEDNIDEERRLAYVGITRAQKELTFTLCK  613 (673)
T ss_dssp             SEEEEESTTTSSCCEEEEEECCCBSSTTTTHHHHTTTCCHHHHHHHHHHHHTEEEEEEEEECS
T ss_pred             eeEEEeeeecccccCCEEEEecCcCCCCCCcccCcchhHHHHHHHHHHHHHhhhheEEEEEec
Confidence            699999999999999999998765542111      012234678899999999999998754

>1w36_B RECB, exodeoxyribonuclease V beta chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 c.52.1.24 PDB: 3k70_B*

Probab=97.64  E-value=2e-05  Score=67.96  Aligned_cols=55  Identities=16%  Similarity=0.211  Sum_probs=40.6

Q ss_pred             CceecccCCCCCccccEEEEEcccCCCCcccc----------------------------ccCCcCchhhhhhhhhcceE
Q psy1354          32 DIEINTVDQYQGRDKSIILYSSTCTSKSKESK----------------------------ILNDRKRLTVAISRAKHKLI   83 (118)
Q Consensus        32 ~~~v~Tv~~~qG~E~d~vi~s~~~~~~~~~~g----------------------------~~~~~~~lnvaltRAk~~li   83 (118)
                      .|.+.|||+.+|.|+++|++...........+                            ...+.+.+|||+||||+.|+
T Consensus       735 ~V~ImTIHkSKGLEfpvVfl~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~e~~~Ee~RLlYVAlTRAk~~L~  814 (1180)
T 1w36_B          735 LVQIVTIHKSKGLEYPLVWLPFITNFRVQEQAFYHDRHSFEAVLDLNAAPESVDLAEAERLAEDLRLLYVALTRSVWHCS  814 (1180)
T ss_dssp             SEEEEETTTTSSCCEEEEEETTTTCCCCCCSCEEECTTTCCEEEESSCCHHHHHHHHHHHHHHHHHHHHHHHTTEEEEEE
T ss_pred             eEEEEEEeccCCCcCCEEEEeccccCCCCCCCeeecCCCcceeecCCCcHHHHHHHHHHHHHHHhhHHhhhhcchhhheE
Confidence            59999999999999999999755432110000                            01235678999999999999


Q ss_pred             EEe
Q psy1354          84 ILG   86 (118)
Q Consensus        84 vvg   86 (118)
                      +..
T Consensus       815 l~~  817 (1180)
T 1w36_B          815 LGV  817 (1180)
T ss_dssp             EEE
T ss_pred             EEe
Confidence            974

>1pjr_A PCRA; DNA repair, DNA replication, SOS response, helicase, ATP- binding, DNA-binding; 2.50A {Geobacillus stearothermophilus} SCOP: c.37.1.19 c.37.1.19 PDB: 1qhg_A* 3pjr_A* 2pjr_A* 1qhh_B* 1qhh_D* 1qhh_A* 1qhh_C* 2pjr_B*

Probab=97.56  E-value=1.4e-05  Score=65.70  Aligned_cols=56  Identities=14%  Similarity=0.259  Sum_probs=43.1

Q ss_pred             CceecccCCCCCccccEEEEEcccCCCCccc-------cccCCcCchhhhhhhhhcceEEEec
Q psy1354          32 DIEINTVDQYQGRDKSIILYSSTCTSKSKES-------KILNDRKRLTVAISRAKHKLIILGD   87 (118)
Q Consensus        32 ~~~v~Tv~~~qG~E~d~vi~s~~~~~~~~~~-------g~~~~~~~lnvaltRAk~~livvg~   87 (118)
                      .+.+.|+|+.+|.|+++|++.....+.-...       ....+.+.++||+||||+.|++...
T Consensus       558 ~V~lmTiH~aKGLEf~~Vfl~g~~eg~~P~~~~~~~~~~~eEErRL~YVaiTRA~~~L~ls~~  620 (724)
T 1pjr_A          558 AVMLMTLHAAKGLEFPVVFLIGMEEGIFPHNRSLEDDDEMEEERRLAYVGITRAEEELVLTSA  620 (724)
T ss_dssp             CEEEEEGGGGTTCCEEEEEECCCBTBTTTBGGGGTCHHHHHHHHHHHHHHHTTEEEEEEEEEE
T ss_pred             eEEEEeeehhcCCCCCEEEEeCCCCCCCCccccCCChHHHHHHHHHHHHHHHHHhheEEEEee
Confidence            6999999999999999999987655421110       1223467789999999999999865

>3lfu_A DNA helicase II; SF1 helicase, ATP-binding, DNA damage, DNA REP replication, DNA-binding, hydrolase, nucleotide-B SOS response; HET: DNA; 1.80A {Escherichia coli} PDB: 2is6_A* 2is2_A* 2is1_A* 2is4_A*

Probab=97.54  E-value=3e-05  Score=62.23  Aligned_cols=57  Identities=14%  Similarity=0.193  Sum_probs=43.2

Q ss_pred             CceecccCCCCCccccEEEEEcccCCCCcc-------ccccCCcCchhhhhhhhhcceEEEech
Q psy1354          32 DIEINTVDQYQGRDKSIILYSSTCTSKSKE-------SKILNDRKRLTVAISRAKHKLIILGDL   88 (118)
Q Consensus        32 ~~~v~Tv~~~qG~E~d~vi~s~~~~~~~~~-------~g~~~~~~~lnvaltRAk~~livvg~~   88 (118)
                      .+.+.|+|+.+|.|+|+|++.....+.-..       ...-.+++.++||+||||+.|++....
T Consensus       553 ~V~l~TiH~aKGLEf~~Vfl~gl~eg~~P~~~~~~~~~~~eeErrL~YVa~TRAk~~L~ls~~~  616 (647)
T 3lfu_A          553 AVQLMTLHSAKGLEFPQVFIVGMEEGMFPSQMSLDEGGRLEEERRLAYVGVTRAMQKLTLTYAE  616 (647)
T ss_dssp             CEEEEETGGGTTCCEEEEEECCCBTBTTTBTTCC--CTTHHHHHHHHHHHHTTEEEEEEEEEEE
T ss_pred             cEEEEeeecccCccCCEEEEeCCcCCCCCCcccccCchhHHHHHHHHHHHHhHHhhheEEEEec
Confidence            599999999999999999998766552110       111223578899999999999998643

>3u4q_A ATP-dependent helicase/nuclease subunit A; helicase, nuclease, double strand DNA repair, protein-DNA CO hydrolase-DNA complex; HET: DNA; 2.80A {Bacillus subtilis} PDB: 3u44_A*

Probab=97.40  E-value=7.8e-05  Score=64.66  Aligned_cols=59  Identities=22%  Similarity=0.332  Sum_probs=43.1

Q ss_pred             CceecccCCCCCccccEEEEEcccCCCC-----------cccc----c--------------------------cCCcCc
Q psy1354          32 DIEINTVDQYQGRDKSIILYSSTCTSKS-----------KESK----I--------------------------LNDRKR   70 (118)
Q Consensus        32 ~~~v~Tv~~~qG~E~d~vi~s~~~~~~~-----------~~~g----~--------------------------~~~~~~   70 (118)
                      .|.+.|||+.+|.|+++|++.....+-.           ...|    +                          ..+.+.
T Consensus       787 ~V~ImTIH~SKGLEfpvVfl~gl~~~~~~~~~~~~~l~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~EE~RL  866 (1232)
T 3u4q_A          787 VVRLMTIHSSKGLEFPVVFVAGLGRNFNMMDLNKSYLLDKELGFGTKYIHPQLRISYPTLPLIAMKKKMRRELLSEELRV  866 (1232)
T ss_dssp             CEEEEEGGGTTTCCEEEEEEECTTSBCCCTTSCSSEEEETTTEEEECEEETTTTEEECCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cEEEecchhccCCCCCEEEEccccccCCCcCCCCCeeeccccCcCcceecchhccccCcHHHHHHHHHHHHHHHHHHHHH
Confidence            6999999999999999999997653210           0001    0                          002356


Q ss_pred             hhhhhhhhhcceEEEechhH
Q psy1354          71 LTVAISRAKHKLIILGDLQV   90 (118)
Q Consensus        71 lnvaltRAk~~livvg~~~~   90 (118)
                      +|||+||||+.|++.|....
T Consensus       867 LYVAlTRAk~~L~l~~~~~~  886 (1232)
T 3u4q_A          867 LYVALTRAKEKLFLIGSCKD  886 (1232)
T ss_dssp             HHHHHHTEEEEEEEEEECSC
T ss_pred             HHHHHHhhccEEEEEEEeCc
Confidence            78999999999999997543

>1w36_C RECC, exodeoxyribonuclease V gamma chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 c.52.1.25 PDB: 3k70_C*

Probab=94.96  E-value=0.025  Score=48.78  Aligned_cols=57  Identities=16%  Similarity=0.029  Sum_probs=42.9

Q ss_pred             CceecccCCCCCccccEEEEEcccCCC--C--ccccc--------cC-------CcCchhhhhhhhhcceEEEech
Q psy1354          32 DIEINTVDQYQGRDKSIILYSSTCTSK--S--KESKI--------LN-------DRKRLTVAISRAKHKLIILGDL   88 (118)
Q Consensus        32 ~~~v~Tv~~~qG~E~d~vi~s~~~~~~--~--~~~g~--------~~-------~~~~lnvaltRAk~~livvg~~   88 (118)
                      .|.+.|+|...|.|+++|++.....+.  +  ...+|        ..       +.+.++||+||||+.|++....
T Consensus       658 ~V~l~Tlh~aKgLef~vVfllGlnEG~fP~~~~~~~~dll~~~l~~~dr~~~eEERrLfYvAltrA~~~L~LSy~~  733 (1122)
T 1w36_C          658 PVNICTLMPMRSIPFKVVCLLGMNDGVYPRQLAPLGFDLMSQKPKRGDRSRRDDDRYLFLEALISAQQKLYISYIG  733 (1122)
T ss_dssp             SCEEECCCTTCCCCEEEEEEECCBTTTSSCCCCCCSSCHHHHSCCTTCCCHHHHHHHHHHHHHHHEEEEEEEEEEC
T ss_pred             eEEEeccccccCCCcCEEEEeCCCcccCCCCCCCCcHHHhhcccCCCchhhhHHHHHHHHHHHHhhcCeEEEEEeC
Confidence            699999999999999999999776661  1  11222        01       2445899999999999998653

>3u4q_B ATP-dependent helicase/deoxyribonuclease subunit; helicase, nuclease, double strand DNA repair, protein-DNA CO hydrolase-DNA complex; HET: DNA; 2.80A {Bacillus subtilis} PDB: 3u44_B*

Probab=93.83  E-value=0.04  Score=47.46  Aligned_cols=56  Identities=13%  Similarity=0.137  Sum_probs=42.4

Q ss_pred             CceecccCCCCCccccEEEEEcccCC--C--CccccccC------------------------CcCchhhhhhhhhcceE
Q psy1354          32 DIEINTVDQYQGRDKSIILYSSTCTS--K--SKESKILN------------------------DRKRLTVAISRAKHKLI   83 (118)
Q Consensus        32 ~~~v~Tv~~~qG~E~d~vi~s~~~~~--~--~~~~g~~~------------------------~~~~lnvaltRAk~~li   83 (118)
                      .+.+.|+|..+|.|+++|++.....+  +  ....+|+.                        +...++||+|||+..|+
T Consensus       587 ~V~i~t~~~argl~f~~V~l~G~~eg~~P~~~~~~~~l~~~~R~~l~~~g~~l~~~~~~~~~eer~l~y~altrA~~~L~  666 (1166)
T 3u4q_B          587 QVFVGNMDLSRMYGTSCTFVLGANDGVLPARPDENGVLSDDDREWLKTIGVELSSGGRERLLDEHFLIYMAFSSPSDRLY  666 (1166)
T ss_dssp             CEEEEESSSCCCSSCSEEEEECCBTTTTTTCCCCCSSSCHHHHHHHHHHTCCCCCCSSHHHHHHHHHHHHHHTSCSSEEE
T ss_pred             EEEEecCcccccCCCCEEEEeCCCcCCCCCCCCCCCCCCHHHHHHHHhCCCcCCCchHHHHHHhHHHHHHHHhcccCeEE
Confidence            69999999999999999999987666  1  11233322                        12348999999999999


Q ss_pred             EEec
Q psy1354          84 ILGD   87 (118)
Q Consensus        84 vvg~   87 (118)
                      +.-.
T Consensus       667 lsy~  670 (1166)
T 3u4q_B          667 VSYP  670 (1166)
T ss_dssp             EEEE
T ss_pred             EEEe
Confidence            8743

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	118
d1w36d2	246	c.37.1.19 (D:361-606) Exodeoxyribonuclease V alpha	2e-05

>d1w36d2 c.37.1.19 (D:361-606) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]} Length = 246

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

 Score = 39.4 bits (91), Expect = 2e-05
 Identities = 13/73 (17%), Positives = 30/73 (41%), Gaps = 6/73 (8%)

Query: 37  TVDQYQGRDKSIILYSSTCTSKSKESKILNDRKRLTVAISRAKHKLIILGDLQVIIAIVN 96
           TV + QG +     +         +   +  R+ +  A++RA+ +L +  D +++ A + 
Sbjct: 177 TVHKSQGSE-----FDHAALILPSQRTPVVTRELVYTAVTRARRRLSLYADERILSAAIA 231

Query: 97  CPNTGRYGNLGQI 109
                R   L  +
Sbjct: 232 TRTE-RRSGLAAL 243

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	118
d1w36d2	246	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	99.03
d1w36b2	395	Exodeoxyribonuclease V beta chain (RecB), N-termin	98.47
d1uaaa2	333	DEXX box DNA helicase {Escherichia coli, RepD [Tax	98.28
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	98.27
d1pjra2	333	DEXX box DNA helicase {Bacillus stearothermophilus	97.9
d1w36c2	470	Exodeoxyribonuclease V gamma chain (RecC), N-termi	96.5

>d1w36d2 c.37.1.19 (D:361-606) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=99.03  E-value=1.2e-10  Score=83.09  Aligned_cols=74  Identities=19%  Similarity=0.204  Sum_probs=60.6

Q ss_pred             CceecccCCCCCccccEEEEEcccCCCCccccccCCcCchhhhhhhhhcceEEEechhHHHHHhcCCCCCCcchHhhccc
Q psy1354          32 DIEINTVDQYQGRDKSIILYSSTCTSKSKESKILNDRKRLTVAISRAKHKLIILGDLQVIIAIVNCPNTGRYGNLGQIPG  111 (118)
Q Consensus        32 ~~~v~Tv~~~qG~E~d~vi~s~~~~~~~~~~g~~~~~~~lnvaltRAk~~livvg~~~~l~~~~~~~~~~~~~~~~~l~~  111 (118)
                      .....|||+.||.|++.|++.......     .+.+.+.+|||+||||+.++|+|+.+.|....... ..+.+.+.++|+
T Consensus       172 ~ayA~TiHkaQGse~~~v~~~l~~~~~-----~~~~r~l~YtaiTRAk~~~~l~~~~~~l~~av~~~-~~R~t~L~~~l~  245 (246)
T d1w36d2         172 TTWAMTVHKSQGSEFDHAALILPSQRT-----PVVTRELVYTAVTRARRRLSLYADERILSAAIATR-TERRSGLAALFS  245 (246)
T ss_dssp             SCSEEETTTTTTCCBSEEEEECCSSCC-----SSSCHHHHHHHHTTBSSCEEEECCTTHHHHHHHCC-CCCCCSHHHHTT
T ss_pred             hheeccHHHhccCCCCcceeccCcccc-----cccchhhHHHHHhhhhCeEEEEECHHHHHHHhcCC-CccccHHHHHhc
Confidence            567779999999999999998744332     36678899999999999999999999998766554 467788888775

>d1w36b2 c.37.1.19 (B:486-880) Exodeoxyribonuclease V beta chain (RecB), N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V beta chain (RecB), N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=98.47  E-value=2.6e-08  Score=74.46  Aligned_cols=56  Identities=16%  Similarity=0.202  Sum_probs=41.1

Q ss_pred             CceecccCCCCCccccEEEEEcccCCCCcccccc----------------------------CCcCchhhhhhhhhcceE
Q psy1354          32 DIEINTVDQYQGRDKSIILYSSTCTSKSKESKIL----------------------------NDRKRLTVAISRAKHKLI   83 (118)
Q Consensus        32 ~~~v~Tv~~~qG~E~d~vi~s~~~~~~~~~~g~~----------------------------~~~~~lnvaltRAk~~li   83 (118)
                      .|.+.|||+.+|.|+++|++............+.                            .+.+.+|||+||||+.|+
T Consensus       250 aV~ImTIHkSKGLEfpvVflp~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~Ee~RLlYVAlTRAk~~L~  329 (395)
T d1w36b2         250 LVQIVTIHKSKGLEYPLVWLPFITNFRVQEQAFYHDRHSFEAVLDLNAAPESVDLAEAERLAEDLRLLYVALTRSVWHCS  329 (395)
T ss_dssp             SEEEEETTTTSSCCEEEEEETTTTCCCCCCSCEEECTTTCCEEEESSCCHHHHHHHHHHHHHHHHHHHHHHHTTEEEEEE
T ss_pred             eEEEEchhhhccCCCCEEEEccCccCCCccccccccccccccccCcccchhHHHHHHHHHHHHHHhhhhhhHhhHhhhhE
Confidence            5999999999999999999976544321111111                            124678999999999999


Q ss_pred             EEec
Q psy1354          84 ILGD   87 (118)
Q Consensus        84 vvg~   87 (118)
                      +...
T Consensus       330 l~~~  333 (395)
T d1w36b2         330 LGVA  333 (395)
T ss_dssp             EEEC
T ss_pred             EEEc
Confidence            9643

>d1uaaa2 c.37.1.19 (A:308-640) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=98.28  E-value=8.8e-08  Score=67.99  Aligned_cols=58  Identities=16%  Similarity=0.170  Sum_probs=44.1

Q ss_pred             CceecccCCCCCccccEEEEEcccCCCCcc------ccccCCcCchhhhhhhhhcceEEEechh
Q psy1354          32 DIEINTVDQYQGRDKSIILYSSTCTSKSKE------SKILNDRKRLTVAISRAKHKLIILGDLQ   89 (118)
Q Consensus        32 ~~~v~Tv~~~qG~E~d~vi~s~~~~~~~~~------~g~~~~~~~lnvaltRAk~~livvg~~~   89 (118)
                      .+.+.|+|+.+|.|.++|++.....+.-..      ...-.+.+.++||+||||+.|++.....
T Consensus       244 ~V~l~TiH~sKGlE~~~V~i~g~~~~~~p~~~~~~~~~leEerRL~YVA~TRA~~~L~is~~~~  307 (333)
T d1uaaa2         244 QVQLMTLHASKGLEFPYVYMVGMEEGFLPHQSSIDEDNIDEERRLAYVGITRAQKELTFTLCKE  307 (333)
T ss_dssp             SEEEEESTTTSSCCEEEEEECCCBSSTTTTHHHHTTTCCHHHHHHHHHHHHTEEEEEEEEECSS
T ss_pred             cEEEeehhhhhccCCCeeEecCcccCCCcccccCCcccHHHHHHHhHhhHHHHhheeEEEEecc
Confidence            689999999999999999999766552110      1112246688999999999999986544

>d1pjra2 c.37.1.19 (A:319-651) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=97.90  E-value=2.1e-06  Score=61.19  Aligned_cols=57  Identities=16%  Similarity=0.269  Sum_probs=42.2

Q ss_pred             CceecccCCCCCccccEEEEEcccCCCCcccccc-------CCcCchhhhhhhhhcceEEEech
Q psy1354          32 DIEINTVDQYQGRDKSIILYSSTCTSKSKESKIL-------NDRKRLTVAISRAKHKLIILGDL   88 (118)
Q Consensus        32 ~~~v~Tv~~~qG~E~d~vi~s~~~~~~~~~~g~~-------~~~~~lnvaltRAk~~livvg~~   88 (118)
                      .+.+.|+|+.+|.|.++|++.....+.-...-.+       .+.+.++||+||||+.|++.+..
T Consensus       240 ~V~i~T~h~sKgle~~~v~~~g~~~~~~p~~~~~~~~~~l~EErRLlYVA~TRAk~~L~is~~~  303 (333)
T d1pjra2         240 AVMLMTLHAAKGLEFPVVFLIGMEEGIFPHNRSLEDDDEMEEERRLAYVGITRAEEELVLTSAQ  303 (333)
T ss_dssp             CEEEEEGGGGTTCCEEEEEECCCBTBTTTBGGGGTCHHHHHHHHHHHHHHHTTEEEEEEEEEEE
T ss_pred             eEEeecccccchhcccceeecCCccCCCchhhccCCchhHHHHHHHHHHHHHHHHHeEEEEEec
Confidence            5899999999999999999986654421110001       12456899999999999998754

>d1w36c2 c.37.1.19 (C:348-817) Exodeoxyribonuclease V gamma chain (RecC), N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V gamma chain (RecC), N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.50  E-value=0.0011  Score=48.68  Aligned_cols=56  Identities=16%  Similarity=0.046  Sum_probs=42.6

Q ss_pred             CceecccCCCCCccccEEEEEcccCCCC----ccccc---------------cCCcCchhhhhhhhhcceEEEec
Q psy1354          32 DIEINTVDQYQGRDKSIILYSSTCTSKS----KESKI---------------LNDRKRLTVAISRAKHKLIILGD   87 (118)
Q Consensus        32 ~~~v~Tv~~~qG~E~d~vi~s~~~~~~~----~~~g~---------------~~~~~~lnvaltRAk~~livvg~   87 (118)
                      .|.+.|+|..+|.|+++|++.....+.-    ...+|               ..+...++||+|||++.||+-..
T Consensus       311 ~V~v~tih~akglef~vVfl~Gl~eg~fP~~~~~~~~~~~~~~~~~~~~~~~~eer~lfy~altrA~~~L~lSy~  385 (470)
T d1w36c2         311 PVNICTLMPMRSIPFKVVCLLGMNDGVYPRQLAPLGFDLMSQKPKRGDRSRRDDDRYLFLEALISAQQKLYISYI  385 (470)
T ss_dssp             SCEEECCCTTCCCCEEEEEEECCBTTTSSCCCCCCSSCHHHHSCCTTCCCHHHHHHHHHHHHHHHEEEEEEEEEE
T ss_pred             CcEEecchhhcCCCCCEEEEEEecCceeecccccchhhhHHHHHhcccchhhHHHHHHHHHHHHhhhceEEEEEe
Confidence            6999999999999999999998776621    11111               11245789999999999999753