Conserved Domains in CDD Database Detected by RPS-BLAST and HHsearch
Conserved Domains in CDD Database Detected by HHsearch
Original result of HHsearch against CDD database
Identity Alignment graph Length
Definition
Probability
Target
42
hypothetical protein CLIBASIA_02010 [Candidatus Liberib
pfam09019 164
EcoRII-C EcoRII C terminal. The C-terminal catalytic do
96.0
>pfam09019 EcoRII-C EcoRII C terminal
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Probab=96.00 E-value=0.0033 Score=35.98 Aligned_cols=36 Identities=31% Similarity=0.483 Sum_probs=32.8
Q ss_pred CEEEEEEECCHHHHHHHHHHCCCCEEEEEEHHHHHH
Q ss_conf 717999850032210553203353899985201133
Q gi|254780515|r 2 PTIHLLTVDSEIAENKAERIDKHNIILVVLDKVKKE 37 (42)
Q Consensus 2 ptihlltvdseiaenkaeridkhniilvvldkvkke 37 (42)
T Consensus 113 ~~khL~TL~~gIS~~q~~eM~~~~i~LVvp~~l~~s 148 (164)
T pfam09019 113 RRKHLFTLQPGISENQTNEMSEANVQLVVPSPLHKS 148 (164)
T ss_pred HHHHEEECCCCCCHHHHHHHHHCCEEEEECHHHHHH
T ss_conf 123145427777888999999769499953476521
The C-terminal catalytic domain of the Restriction Endonuclease EcoRII has a restriction endonuclease-like fold with a central five-stranded mixed beta-sheet surrounded on both sides by alpha-helices. It cleaves DNA specifically at single 5' CCWGG sites.
Homologous Domains in SCOP and MMDB Database Detected by RPS-BLAST and HHsearch
Homologous Domains in SCOP70 (Version1.75) Database Detected by RPS-BLAST
Original result of RPS-BLAST against SCOP70(version1.75) database
Identity Alignment graph Length
Definition
E-value
Target
42
hypothetical protein CLIBASIA_02010 [Candidatus Liberib
d1na6a2 220
c.52.1.22 (A:179-398) Restriction endonuclease EcoRII,
0.001
>d1na6a2 c.52.1.22 (A:179-398) Restriction endonuclease EcoRII, C-terminal domain {Escherichia coli [TaxId: 562]} Length = 220
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class: Alpha and beta proteins (a/b)
fold: Restriction endonuclease-like
superfamily: Restriction endonuclease-like
family: Type II restriction endonuclease catalytic domain
domain: Restriction endonuclease EcoRII, C-terminal domain
species: Escherichia coli [TaxId: 562]
Score = 36.0 bits (83), Expect = 0.001
Identities = 7/36 (19%), Positives = 17/36 (47%)
Query: 2 PTIHLLTVDSEIAENKAERIDKHNIILVVLDKVKKE 37
+HL T+ ++ + + + + LVV + K+
Sbjct: 164 HQVHLFTLQEGVSLAQYREMRESGVRLVVPSSLHKK 199
Homologous Domains in SCOP70 (Version 1.75) Database Detected by HHsearch
Original result of HHsearch against SCOP70(version1.75) database
Identity Alignment graph Length
Definition
Probability
Target 42
hypothetical protein CLIBASIA_02010 [Candidatus Liberib
d1na6a2 220
Restriction endonuclease EcoRII, C-terminal domain {Esc
94.94
>d1na6a2 c.52.1.22 (A:179-398) Restriction endonuclease EcoRII, C-terminal domain {Escherichia coli [TaxId: 562]}
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class: Alpha and beta proteins (a/b)
fold: Restriction endonuclease-like
superfamily: Restriction endonuclease-like
family: Type II restriction endonuclease catalytic domain
domain: Restriction endonuclease EcoRII, C-terminal domain
species: Escherichia coli [TaxId: 562]
Probab=94.94 E-value=0.0025 Score=34.40 Aligned_cols=37 Identities=19% Similarity=0.343 Sum_probs=33.3
Q ss_pred CEEEEEEECCHHHHHHHHHHCCCCEEEEEEHHHHHHH
Q ss_conf 7179998500322105532033538999852011334
Q gi|254780515|r 2 PTIHLLTVDSEIAENKAERIDKHNIILVVLDKVKKEK 38 (42)
Q Consensus 2 ptihlltvdseiaenkaeridkhniilvvldkvkkek 38 (42)
+.+||+|.+..|.+||..-+..||+.|||-+.+++.-
T Consensus 164 ~~~~L~TL~~~IS~~q~~eM~~~~v~LVVP~~i~~sy 200 (220)
T d1na6a2 164 HQVHLFTLQEGVSLAQYREMRESGVRLVVPSSLHKKY 200 (220)
T ss_dssp ---CEEECCSCCCHHHHHHHHTTTCCEECCHHHHTTS
T ss_pred HHHEEEECCCCCCHHHHHHHHHCCEEEEEEHHHHHCC
T ss_conf 5440230368888899999997796999737876307
Homologous Domains in MMDB70 Database Detected by HHsearch
Original result of HHsearch against MMDB70 database
Identity Alignment graph Length
Definition
Probability
Target 42
hypothetical protein CLIBASIA_02010 [Candidatus Liberib
2gb7_A_175-264 90
R.ECL18KI; ECL18KI-DNA complex, type II restrictio
95.87
1na6_A_284-404 121
Ecorii, restriction endonuclease ecorii; site-spec
94.7
>2gb7_A (A:175-264) R.ECL18KI; ECL18KI-DNA complex, type II restriction endonuclease, nucleotide flipping, base extrusion, hydrolase/DNA complex; HET: DNA; 1.70A {Enterobacter cloacae} PDB: 2fqz_A*
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Probab=95.87 E-value=0.0055 Score=34.66 Aligned_cols=38 Identities=21% Similarity=0.286 Sum_probs=33.2
Q ss_pred CCEEEEEEECCHHHHHHHHHHCCCCEEEEEEHHHHHHH
Q ss_conf 97179998500322105532033538999852011334
Q gi|254780515|r 1 MPTIHLLTVDSEIAENKAERIDKHNIILVVLDKVKKEK 38 (42)
Q Consensus 1 mptihlltvdseiaenkaeridkhniilvvldkvkkek 38 (42)
.|.+||+|+|..|.+|+..-...|||+|||-..+++-.
T Consensus 27 i~~~hL~TL~~gIS~~q~~eM~~~~i~LVvP~~l~~~y 64 (90)
T 2gb7_A 27 IREMYLATLDDSFSEETINILYEANVVVVTTVENKNFK 64 (90)
T ss_dssp CSCEEEEECCSCCCHHHHHHHHHTTEEEEECHHHHHHH
T ss_pred CCCEEEEECCCCCCHHHHHHHHHCCCEEEECHHHCCHH
T ss_conf 76258986068888899999997693899545641414
>1na6_A (A:284-404) Ecorii, restriction endonuclease ecorii; site-specific restriction, mutation, replication, hydrolase; 2.10A {Escherichia coli}
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Probab=94.70 E-value=0.0077 Score=33.96 Aligned_cols=36 Identities=19% Similarity=0.372 Sum_probs=32.4
Q ss_pred CEEEEEEECCHHHHHHHHHHCCCCEEEEEEHHHHHH
Q ss_conf 717999850032210553203353899985201133
Q gi|254780515|r 2 PTIHLLTVDSEIAENKAERIDKHNIILVVLDKVKKE 37 (42)
Q Consensus 2 ptihlltvdseiaenkaeridkhniilvvldkvkke 37 (42)
+.+||+|+|..|.+|+..-+..|||+|||-+.+.+.
T Consensus 59 ~~~~L~TL~~~IS~~q~~eM~~~~i~LVVp~~i~~s 94 (121)
T 1na6_A 59 HQVHLFTLQEGVSLAQYREMRESGVRLVVPSSLHKK 94 (121)
T ss_dssp ---CEEECCSCCCHHHHHHHHTTTCCEECCHHHHTT
T ss_pred HHHEEEECCCCCCHHHHHHHHHCCEEEEECHHHHHC
T ss_conf 300467416888889999998779299970477313