BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 003913
(787 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3OOR|A Chain A, I-Scei Mutant (K86rG100T)COMPLEXED WITH CG+4 DNA SUBSTRATE
Length = 237
Score = 52.8 bits (125), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 57/209 (27%), Positives = 93/209 (44%), Gaps = 21/209 (10%)
Query: 565 LNLSSEQRENXXXXXXXXXCIESDEKRKRHMIRFQFNENSRMHSVLRRYLYDQYHEWLHP 624
+ L+ EQ E I S ++ K + ++F++ + M V LYDQ+ L P
Sbjct: 29 IELNIEQFEAGIGLILGDAYIRSRDEGKTYCMQFEWKNKAYMDHVC--LLYDQWV--LSP 84
Query: 625 SFKVSD----GNDDIPYKYSTISHPYFCFYADKFWPKGRLVIPK-LIHRWLTPRALAYWF 679
K GN I + T H F A+ F + IP L+ +LTP +LAYWF
Sbjct: 85 PHKRERVNHLGNLVITWTAQTFKHQAFNKLANLFIVNNKKTIPNNLVENYLTPMSLAYWF 144
Query: 680 M-------YGGHRTSVGDILLKLKVSSEGIALVFKTLKAR-SLDCRVK--KKGRVFWIGF 729
M Y + T+ +L + E + + K L+ + L+C VK K + +I
Sbjct: 145 MDDGGKWDYNKNSTNKSIVLNTQSFTFEEVEYLVKGLRNKFQLNCYVKINKNKPIIYIDS 204
Query: 730 LGSNSTLFWKLIEPYVLDELKEDLLNEGS 758
+ +F+ LI+PY++ ++ L N S
Sbjct: 205 MS--YLIFYNLIKPYLIPQMMYKLPNTIS 231
>pdb|1R7M|A Chain A, The Homing Endonuclease I-Scei Bound To Its Dna
Recognition Region
pdb|1R7M|B Chain B, The Homing Endonuclease I-Scei Bound To Its Dna
Recognition Region
pdb|3C0W|A Chain A, I-Scei In Complex With A Bottom Nicked Dna Substrate
pdb|3C0X|A Chain A, I-Scei In Complex With A Top Nicked Dna Substrate
Length = 235
Score = 52.8 bits (125), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 57/209 (27%), Positives = 93/209 (44%), Gaps = 21/209 (10%)
Query: 565 LNLSSEQRENXXXXXXXXXCIESDEKRKRHMIRFQFNENSRMHSVLRRYLYDQYHEWLHP 624
+ L+ EQ E I S ++ K + ++F++ + M V LYDQ+ L P
Sbjct: 27 IELNIEQFEAGIGLILGDAYIRSRDEGKTYCMQFEWKNKAYMDHVC--LLYDQWV--LSP 82
Query: 625 SFKVSD----GNDDIPYKYSTISHPYFCFYADKFWPKGRLVIPK-LIHRWLTPRALAYWF 679
K GN I + T H F A+ F + IP L+ +LTP +LAYWF
Sbjct: 83 PHKKERVNHLGNLVITWGAQTFKHQAFNKLANLFIVNNKKTIPNNLVENYLTPMSLAYWF 142
Query: 680 M-------YGGHRTSVGDILLKLKVSSEGIALVFKTLKAR-SLDCRVK--KKGRVFWIGF 729
M Y + T+ +L + E + + K L+ + L+C VK K + +I
Sbjct: 143 MDDGGKWDYNKNSTNKSIVLNTQSFTFEEVEYLVKGLRNKFQLNCYVKINKNKPIIYIDS 202
Query: 730 LGSNSTLFWKLIEPYVLDELKEDLLNEGS 758
+ +F+ LI+PY++ ++ L N S
Sbjct: 203 MS--YLIFYNLIKPYLIPQMMYKLPNTIS 229
>pdb|3OOL|A Chain A, I-Scei Complexed With CG+4 DNA SUBSTRATE
Length = 237
Score = 52.8 bits (125), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 57/209 (27%), Positives = 93/209 (44%), Gaps = 21/209 (10%)
Query: 565 LNLSSEQRENXXXXXXXXXCIESDEKRKRHMIRFQFNENSRMHSVLRRYLYDQYHEWLHP 624
+ L+ EQ E I S ++ K + ++F++ + M V LYDQ+ L P
Sbjct: 29 IELNIEQFEAGIGLILGDAYIRSRDEGKTYCMQFEWKNKAYMDHVC--LLYDQWV--LSP 84
Query: 625 SFKVSD----GNDDIPYKYSTISHPYFCFYADKFWPKGRLVIPK-LIHRWLTPRALAYWF 679
K GN I + T H F A+ F + IP L+ +LTP +LAYWF
Sbjct: 85 PHKKERVNHLGNLVITWGAQTFKHQAFNKLANLFIVNNKKTIPNNLVENYLTPMSLAYWF 144
Query: 680 M-------YGGHRTSVGDILLKLKVSSEGIALVFKTLKAR-SLDCRVK--KKGRVFWIGF 729
M Y + T+ +L + E + + K L+ + L+C VK K + +I
Sbjct: 145 MDDGGKWDYNKNSTNKSIVLNTQSFTFEEVEYLVKGLRNKFQLNCYVKINKNKPIIYIDS 204
Query: 730 LGSNSTLFWKLIEPYVLDELKEDLLNEGS 758
+ +F+ LI+PY++ ++ L N S
Sbjct: 205 MS--YLIFYNLIKPYLIPQMMYKLPNTIS 231
>pdb|1TDP|A Chain A, Nmr Solution Structure Of The Carnobacteriocin B2 Immunity
Protein
Length = 111
Score = 32.7 bits (73), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 33/73 (45%), Gaps = 9/73 (12%)
Query: 244 MIQLGGYQPRPSLHNSLFRALVSKPGGLSKYYLQQAEFIFHNLLTSGLEIQKDIYSGLIW 303
++Q G + NS + G+S YYL I ++LT +IQKDI +G
Sbjct: 31 VVQCAGKLTASNSENSYIEVISLLSRGISSYYLSHKRIIPSSMLTIYTQIQKDIKNG--- 87
Query: 304 LHSYQDNIDKERI 316
NID E++
Sbjct: 88 ------NIDTEKL 94
>pdb|3V0I|A Chain A, Crystal Structure Of Ciona Intestinalis Voltage
Sensor-Containing Phosphatase (Ci-Vsp), Residues
256-576, E411f
Length = 324
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 17/82 (20%), Positives = 37/82 (45%), Gaps = 5/82 (6%)
Query: 131 LVRILNAQKKWLRQEDGTYLAVHCMRIRENETGFRVYEWMMQQHWYRFDFALATKLADYM 190
L++ ++ K W+ + +A+HC + + TG V W+++ F A + +Y
Sbjct: 88 LLKFIDDAKVWMTSDPDHVIAIHC-KGGKGRTGTLVSSWLLEDG----KFDTAKEALEYF 142
Query: 191 GKERKFAKCRDIFDDIINQGRV 212
G R + D+F + ++
Sbjct: 143 GSRRTDFEVGDVFQGVFTASQI 164
>pdb|3AWG|A Chain A, Crystal Structure Of Pten-Like Domain Of Ci-Vsp G356a
Mutant (248-576)
pdb|3AWG|B Chain B, Crystal Structure Of Pten-Like Domain Of Ci-Vsp G356a
Mutant (248-576)
pdb|3AWG|C Chain C, Crystal Structure Of Pten-Like Domain Of Ci-Vsp G356a
Mutant (248-576)
Length = 334
Score = 32.0 bits (71), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 17/76 (22%), Positives = 35/76 (46%), Gaps = 5/76 (6%)
Query: 131 LVRILNAQKKWLRQEDGTYLAVHCMRIRENETGFRVYEWMMQQHWYRFDFALATKLADYM 190
L++ ++ K W+ + +A+HC + + TG V W+++ F A + +Y
Sbjct: 98 LLKFIDDAKVWMTSDPDHVIAIHC-KAGKGRTGTLVSSWLLEDG----KFDTAKEALEYF 152
Query: 191 GKERKFAKCRDIFDDI 206
G R + D+F +
Sbjct: 153 GSRRTDFEVGDVFQGV 168
>pdb|3AWE|A Chain A, Crystal Structure Of Pten-Like Domain Of Ci-Vsp (248-576)
pdb|3AWE|B Chain B, Crystal Structure Of Pten-Like Domain Of Ci-Vsp (248-576)
pdb|3AWE|C Chain C, Crystal Structure Of Pten-Like Domain Of Ci-Vsp (248-576)
Length = 334
Score = 31.2 bits (69), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 17/76 (22%), Positives = 35/76 (46%), Gaps = 5/76 (6%)
Query: 131 LVRILNAQKKWLRQEDGTYLAVHCMRIRENETGFRVYEWMMQQHWYRFDFALATKLADYM 190
L++ ++ K W+ + +A+HC + + TG V W+++ F A + +Y
Sbjct: 98 LLKFIDDAKVWMTSDPDHVIAIHC-KGGKGRTGTLVSSWLLEDG----KFDTAKEALEYF 152
Query: 191 GKERKFAKCRDIFDDI 206
G R + D+F +
Sbjct: 153 GSRRTDFEVGDVFQGV 168
>pdb|3AWF|A Chain A, Crystal Structure Of Pten-Like Domain Of Ci-Vsp (236-576)
pdb|3AWF|B Chain B, Crystal Structure Of Pten-Like Domain Of Ci-Vsp (236-576)
pdb|3AWF|C Chain C, Crystal Structure Of Pten-Like Domain Of Ci-Vsp (236-576)
Length = 346
Score = 30.8 bits (68), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 17/76 (22%), Positives = 35/76 (46%), Gaps = 5/76 (6%)
Query: 131 LVRILNAQKKWLRQEDGTYLAVHCMRIRENETGFRVYEWMMQQHWYRFDFALATKLADYM 190
L++ ++ K W+ + +A+HC + + TG V W+++ F A + +Y
Sbjct: 110 LLKFIDDAKVWMTSDPDHVIAIHC-KGGKGRTGTLVSSWLLEDG----KFDTAKEALEYF 164
Query: 191 GKERKFAKCRDIFDDI 206
G R + D+F +
Sbjct: 165 GSRRTDFEVGDVFQGV 180
>pdb|2HSG|A Chain A, Structure Of Transcription Regulator Ccpa In Its Dna-Free
State
Length = 332
Score = 30.4 bits (67), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 36/146 (24%), Positives = 59/146 (40%), Gaps = 23/146 (15%)
Query: 249 GYQPRPSLHNSLFRALVSKPGGLSKYYLQQAEFIFHNLLTSGLEIQKDIYSGLIWLHSYQ 308
GY+P N++ R L SK + IF+ L G+E +Y I L +
Sbjct: 45 GYRP-----NAVARGLASKKTTTVGVIIPDISNIFYAELARGIEDIATMYKYNIILSNSD 99
Query: 309 DNIDKE---RISLLKKEMQQAGFEEGKEVLLSVLRVCAKEGDVEDAEKTWLRL-----LE 360
N DKE ++L K++ F G E VE+ +K+ + + +E
Sbjct: 100 QNQDKELHLLNNMLGKQVDGIIFMSGN----------VTEEHVEELKKSPVPVVLAASIE 149
Query: 361 SDNGIPTPAFVYKMEAYAKIGEFMKS 386
S N IP+ Y+ A+ + + S
Sbjct: 150 STNQIPSVTIDYEQAAFDAVQSLIDS 175
>pdb|3LMW|A Chain A, Crystal Structure Of Iota-Carrageenase Family Gh82 From A.
Fortis In Absence Of Chloride Ions
pdb|3LMW|B Chain B, Crystal Structure Of Iota-Carrageenase Family Gh82 From A.
Fortis In Absence Of Chloride Ions
Length = 473
Score = 30.4 bits (67), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 17/69 (24%), Positives = 34/69 (49%), Gaps = 5/69 (7%)
Query: 453 HDRLHLAFSECLEKCRPNRTIYGIYLESLKNAGNIEKAEEIFNHMHSDQTIGVNTRSCNI 512
+ RLH + + +E+ + N ++G L A NI +F ++HS+ I + + N+
Sbjct: 169 NGRLHWSRNGIIERIKQNNALFGYGLIQTYGADNI-----LFRNLHSEGGIALRMETDNL 223
Query: 513 ILSAYLSSG 521
++ Y G
Sbjct: 224 LMKNYKQGG 232
>pdb|1H80|A Chain A, 1,3-Alpha-1,4-Beta-D-Galactose-4-Sulfate-3,6-Anhydro-D-
Galactose-2-Sulfate 4 Galactohydrolase
pdb|1H80|B Chain B, 1,3-Alpha-1,4-Beta-D-Galactose-4-Sulfate-3,6-Anhydro-D-
Galactose-2-Sulfate 4 Galactohydrolase
pdb|1KTW|A Chain A, Iota-carrageenase Complexed To Iota-carrageenan Fragments
pdb|1KTW|B Chain B, Iota-carrageenase Complexed To Iota-carrageenan Fragments
Length = 464
Score = 30.4 bits (67), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 17/69 (24%), Positives = 34/69 (49%), Gaps = 5/69 (7%)
Query: 453 HDRLHLAFSECLEKCRPNRTIYGIYLESLKNAGNIEKAEEIFNHMHSDQTIGVNTRSCNI 512
+ RLH + + +E+ + N ++G L A NI +F ++HS+ I + + N+
Sbjct: 168 NGRLHWSRNGIIERIKQNNALFGYGLIQTYGADNI-----LFRNLHSEGGIALRMETDNL 222
Query: 513 ILSAYLSSG 521
++ Y G
Sbjct: 223 LMKNYKQGG 231
>pdb|3SP1|A Chain A, Crystal Structure Of Cysteinyl-Trna Synthetase (Cyss) From
Borrelia Burgdorferi
pdb|3SP1|B Chain B, Crystal Structure Of Cysteinyl-Trna Synthetase (Cyss) From
Borrelia Burgdorferi
Length = 501
Score = 29.3 bits (64), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 38/163 (23%), Positives = 73/163 (44%), Gaps = 10/163 (6%)
Query: 241 YNRMIQ-LGGYQPRPSLHNSLFRALVSKPGGLSKYYLQQAEFIFHNLLTSGLEIQKDIYS 299
YN+M + G + L + F L + L+ +Y Q +F NL S + ++++ +
Sbjct: 297 YNKMSKSRGNFITVKDLEDQNFSPLDFRYLCLTSHYRNQLKFSLDNLQASKIA-RENLIN 355
Query: 300 GLIWLHSYQDNIDKERISLLKKEMQQAGFEEGKEVLLSVLRVCAKEGDVEDAEKTWLRLL 359
L + + D +D ++ L K+++ GF KE S + + + +V ++
Sbjct: 356 KLSYFYESLDPVD---LNTLNKDLKNFGFSVEKEYYDSFVEKISFDLNVAQGLALLWEII 412
Query: 360 ESDNGIPTPAFVYKMEAYAKIGEFMKSLEIFREMQERLGSASV 402
+SDN +FV K+ E M SL + E+ + L + V
Sbjct: 413 KSDN----LSFVSKLRLAFIFDEIM-SLNLREEILKNLQNHDV 450
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.320 0.135 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 23,112,243
Number of Sequences: 62578
Number of extensions: 968495
Number of successful extensions: 2438
Number of sequences better than 100.0: 27
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 23
Number of HSP's that attempted gapping in prelim test: 2427
Number of HSP's gapped (non-prelim): 33
length of query: 787
length of database: 14,973,337
effective HSP length: 107
effective length of query: 680
effective length of database: 8,277,491
effective search space: 5628693880
effective search space used: 5628693880
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (25.8 bits)