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= 003013
(857 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 42.7 bits (99), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 42/155 (27%), Positives = 75/155 (48%), Gaps = 15/155 (9%)
Query: 355 IISLNRLQ---IKGCPRLLSL-----VTEEEHDHQQPELPCRLRFLELSYCQGLTKLPQA 406
I SLNRL+ I+ CP L L T+ +HQ L+ L L + G+ LP +
Sbjct: 146 IASLNRLRELSIRACPELTELPEPLASTDASGEHQGL---VNLQSLRLEWT-GIRSLPAS 201
Query: 407 LLTLCSLTDMKILGCASLVSFPEVALPSQLRTVRIQECNALKSLPEAWMYNSNSSLESLK 466
+ L +L +KI P + +L + ++ C AL++ P ++ + L+ L
Sbjct: 202 IANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPP--IFGGRAPLKRLI 259
Query: 467 IRSCNSLVSFP-EIALPSQLRTVRIQECNALKSLP 500
++ C++L++ P +I +QL + ++ C L LP
Sbjct: 260 LKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLP 294
Score = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 30/94 (31%), Positives = 47/94 (50%), Gaps = 12/94 (12%)
Query: 628 IYELENLKSL-----------PAGLHNLHHLQKISIADCPNLESFPEEGLPSTKLTELSI 676
I L+NLKSL PA +H+L L+++ + C L ++P L L +
Sbjct: 202 IANLQNLKSLKIRNSPLSALGPA-IHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLIL 260
Query: 677 RECENLKALPNCMHNLTSLLNLEIRRCPSVVSFP 710
++C NL LP +H LT L L++R C ++ P
Sbjct: 261 KDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLP 294
Score = 37.4 bits (85), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 36/131 (27%), Positives = 54/131 (41%), Gaps = 4/131 (3%)
Query: 611 LESLAERLDNTSLEGIFIYELEN--LKSLPAGLHNLHHLQKISIADCPNLESFPEEGLPS 668
L++ A+ L++ + G EL + L P L HLQ +I D L P+
Sbjct: 68 LKATADLLEDATQPGRVALELRSVPLPQFPDQAFRLSHLQHXTI-DAAGLXELPDTXQQF 126
Query: 669 TKLTELSIRECENLKALPNCMHNLTSLLNLEIRRCPSVVSFPEDGFPTNLKSLKVHDLKI 728
L L++ L+ALP + +L L L IR CP + PE T+ + +
Sbjct: 127 AGLETLTLAR-NPLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNL 185
Query: 729 SKALLEWGSNR 739
LEW R
Sbjct: 186 QSLRLEWTGIR 196
Score = 33.1 bits (74), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 57/206 (27%), Positives = 84/206 (40%), Gaps = 45/206 (21%)
Query: 494 NALKSLPEAWMHNSNSSLESLEIRSCDSLTYIARIQLPPSLKRLIVSDCCNLRTLMAEQD 553
N L++LP + S + L L IR+C LT +LP L A D
Sbjct: 137 NPLRALPASIA--SLNRLRELSIRACPELT-----ELPEPL---------------ASTD 174
Query: 554 ICSSSRGCTSLTSFSSE----NDLPATLEHLEVSSCSNLAFLS-RNGNLPRALKYLVSLC 608
+G +L S E LPA++ +L+ NL L RN L AL +
Sbjct: 175 ASGEHQGLVNLQSLRLEWTGIRSLPASIANLQ-----NLKSLKIRNSPL-SALGPAIHHL 228
Query: 609 SKLESLAERLDNTSLEGIFIYELENLKSLPAGLHNLHHLQKISIADCPNLESFPEEGLPS 668
KLE L L G L++ P L+++ + DC NL + P +
Sbjct: 229 PKLEEL-------DLRGCTA-----LRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRL 276
Query: 669 TKLTELSIRECENLKALPNCMHNLTS 694
T+L +L +R C NL LP+ + L +
Sbjct: 277 TQLEKLDLRGCVNLSRLPSLIAQLPA 302
>pdb|1G9U|A Chain A, Crystal Structure Of Yopm-leucine Rich Effector Protein
From Yersinia Pestis
pdb|1JL5|A Chain A, Novel Molecular Architecture Of Yopm-A Leucine-Rich
Effector Protein From Yersinia Pestis
Length = 454
Score = 37.7 bits (86), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 61/196 (31%), Positives = 84/196 (42%), Gaps = 36/196 (18%)
Query: 446 ALKSLPEAWMYNSNSSLESLKIRSCNSLVSFPEIALPSQLRTVRIQECN--ALKSLPE-- 501
L SLPE + LESL + SCNSL PE LP L+++ + N AL LP
Sbjct: 82 GLSSLPELPPH-----LESL-VASCNSLTELPE--LPQSLKSLLVDNNNLKALSDLPPLL 133
Query: 502 AWMHNSNSSLES---------LEIRSCDSLTYIARIQLPPSLKRLIVSDCCNLRTLMAEQ 552
++ SN+ LE L+I D+ + LPPSL+ I + L L Q
Sbjct: 134 EYLGVSNNQLEKLPELQNSSFLKIIDVDNNSLKKLPDLPPSLE-FIAAGNNQLEELPELQ 192
Query: 553 DICSSSRGCTSLTSFSSENDLPATLEHL--------EVSSCSNLAFLSR---NGNLPRAL 601
++ + S DLP +LE + E+ NL FL+ + NL L
Sbjct: 193 NLPFLTAIYADNNSLKKLPDLPLSLESIVAGNNILEELPELQNLPFLTTIYADNNL---L 249
Query: 602 KYLVSLCSKLESLAER 617
K L L LE+L R
Sbjct: 250 KTLPDLPPSLEALNVR 265
Score = 29.3 bits (64), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 49/160 (30%), Positives = 71/160 (44%), Gaps = 32/160 (20%)
Query: 383 PELPCRLRFLELS--YCQGLTKLPQALLTLCSLTDMKILGCASLVSFPEVALPSQLRTVR 440
PELP L FL++S GL++LP L L + ++ C LP L +
Sbjct: 273 PELPQSLTFLDVSENIFSGLSELPPNLYYLNASSNEIRSLC---------DLPPSLEELN 323
Query: 441 IQECNALKSLPEAWMYNSNSSLESLKIRSCNSLVSFPEIALPSQLRTVRIQECNALKSLP 500
+ N L LP LE L I S N L PE LP L+ + + E N L+ P
Sbjct: 324 VSN-NKLIELPALP-----PRLERL-IASFNHLAEVPE--LPQNLKQLHV-EYNPLREFP 373
Query: 501 EAWMHNSNSSLESLEIRSCDSLTYIARI-QLPPSLKRLIV 539
+ S+E L + S ++A + +LP +LK+L V
Sbjct: 374 DIP-----ESVEDLRMNS-----HLAEVPELPQNLKQLHV 403
>pdb|4H09|A Chain A, Crystal Structure Of A Hypothetical Leucine Rich Repeat
Protein (Eubven_01088) From Eubacterium Ventriosum Atcc
27560 At 2.50 A Resolution
pdb|4H09|B Chain B, Crystal Structure Of A Hypothetical Leucine Rich Repeat
Protein (Eubven_01088) From Eubacterium Ventriosum Atcc
27560 At 2.50 A Resolution
pdb|4H09|C Chain C, Crystal Structure Of A Hypothetical Leucine Rich Repeat
Protein (Eubven_01088) From Eubacterium Ventriosum Atcc
27560 At 2.50 A Resolution
pdb|4H09|D Chain D, Crystal Structure Of A Hypothetical Leucine Rich Repeat
Protein (Eubven_01088) From Eubacterium Ventriosum Atcc
27560 At 2.50 A Resolution
pdb|4H09|E Chain E, Crystal Structure Of A Hypothetical Leucine Rich Repeat
Protein (Eubven_01088) From Eubacterium Ventriosum Atcc
27560 At 2.50 A Resolution
Length = 379
Score = 35.0 bits (79), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 40/172 (23%), Positives = 73/172 (42%), Gaps = 22/172 (12%)
Query: 455 MYNSNSSLESLKIRSCNSLVSFPEIALPSQLRTVRIQECNALKSLPEAWMHNSNSSLESL 514
+YN N ++ + S + + E +PS ++TV + K+L + + + ++L
Sbjct: 179 LYNKNKTI----LESYPAAKTGTEFTIPSTVKTVTAYGFSYGKNLKKITITSGVTTLGDG 234
Query: 515 EIRSCDSLTYIARIQLPPSLKRLIVSDCCNLRTLMAEQDI-------CSSSRGCTSLTSF 567
+L IA + S+ ++ +C L+TL + CS GC++LT
Sbjct: 235 AFYGXKALDEIAIPKNVTSIGSFLLQNCTALKTLNFYAKVKTVPYLLCS---GCSNLTKV 291
Query: 568 SSENDLPATLEHLEVSSCSNLAFLSRNGNLPRALK----YLVSLCSKLESLA 615
+N TLE C L+ ++ LP ALK Y C L +++
Sbjct: 292 VXDNSAIETLEPRVFXDCVKLSSVT----LPTALKTIQVYAFKNCKALSTIS 339
Score = 32.7 bits (73), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 31/130 (23%), Positives = 57/130 (43%), Gaps = 28/130 (21%)
Query: 394 LSYCQGLTKLPQALLTLCSLTDMKILGCASLVSFPEVALPSQLRTVR---IQECNALKSL 450
SY + L K+ + +L D G +L E+A+P + ++ +Q C ALK+L
Sbjct: 213 FSYGKNLKKI-TITSGVTTLGDGAFYGXKAL---DEIAIPKNVTSIGSFLLQNCTALKTL 268
Query: 451 ---------PE---------AWMYNSNSSLESLKIRSCNSLVSFPEIALPSQLRTVRI-- 490
P + NS++E+L+ R V + LP+ L+T+++
Sbjct: 269 NFYAKVKTVPYLLCSGCSNLTKVVXDNSAIETLEPRVFXDCVKLSSVTLPTALKTIQVYA 328
Query: 491 -QECNALKSL 499
+ C AL ++
Sbjct: 329 FKNCKALSTI 338
>pdb|1Q32|A Chain A, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase
pdb|1Q32|B Chain B, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase
pdb|1Q32|C Chain C, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase
pdb|1Q32|D Chain D, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase
Length = 544
Score = 33.1 bits (74), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 35/68 (51%), Gaps = 4/68 (5%)
Query: 756 VSPPPFPASLTELWISFMPDLECLSSI-GENLTSLKT---LRLSYCRKLTYFSKEGLPKS 811
++ PPF + T+L I+F + EC + N TS++T ++ +C L KEGLP
Sbjct: 173 ITMPPFASHHTKLIINFYDNGECKIFLPSNNFTSMETNLPQQVCWCSPLLKIGKEGLPVP 232
Query: 812 LLRLYINH 819
R I +
Sbjct: 233 FKRSLIEY 240
>pdb|3SQ8|A Chain A, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase 1 H432r Mutant (Scan1 Mutant)
pdb|3SQ8|B Chain B, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase 1 H432r Mutant (Scan1 Mutant)
pdb|3SQ8|C Chain C, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase 1 H432r Mutant (Scan1 Mutant)
pdb|3SQ8|D Chain D, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase 1 H432r Mutant (Scan1 Mutant)
Length = 470
Score = 32.7 bits (73), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 35/68 (51%), Gaps = 4/68 (5%)
Query: 756 VSPPPFPASLTELWISFMPDLECLSSI-GENLTSLKT---LRLSYCRKLTYFSKEGLPKS 811
++ PPF + T+L I+F + EC + N TS++T ++ +C L KEGLP
Sbjct: 96 ITMPPFASHXTKLIINFYDNGECKIFLPSNNFTSMETNLPQQVCWCSPLLKIGKEGLPVP 155
Query: 812 LLRLYINH 819
R I +
Sbjct: 156 FKRSLIEY 163
>pdb|3SQ3|A Chain A, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase H182a Mutant
pdb|3SQ3|B Chain B, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase H182a Mutant
pdb|3SQ3|C Chain C, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase H182a Mutant
pdb|3SQ3|D Chain D, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase H182a Mutant
Length = 470
Score = 32.7 bits (73), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 35/68 (51%), Gaps = 4/68 (5%)
Query: 756 VSPPPFPASLTELWISFMPDLECLSSI-GENLTSLKT---LRLSYCRKLTYFSKEGLPKS 811
++ PPF + T+L I+F + EC + N TS++T ++ +C L KEGLP
Sbjct: 96 ITMPPFASHATKLIINFYDNGECKIFLPSNNFTSMETNLPQQVCWCSPLLKIGKEGLPVP 155
Query: 812 LLRLYINH 819
R I +
Sbjct: 156 FKRSLIEY 163
>pdb|3SQ5|A Chain A, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase H432n Mutant
pdb|3SQ5|B Chain B, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase H432n Mutant
pdb|3SQ5|C Chain C, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase H432n Mutant
pdb|3SQ5|D Chain D, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase H432n Mutant
Length = 470
Score = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 35/68 (51%), Gaps = 4/68 (5%)
Query: 756 VSPPPFPASLTELWISFMPDLECLSSI-GENLTSLKT---LRLSYCRKLTYFSKEGLPKS 811
++ PPF + T+L I+F + EC + N TS++T ++ +C L KEGLP
Sbjct: 96 ITMPPFASHHTKLIINFYDNGECKIFLPSNNFTSMETNLPQQVCWCSPLLKIGKEGLPVP 155
Query: 812 LLRLYINH 819
R I +
Sbjct: 156 FKRSLIEY 163
>pdb|3SQ7|A Chain A, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase H432n_glu Mutant
pdb|3SQ7|B Chain B, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase H432n_glu Mutant
pdb|3SQ7|C Chain C, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase H432n_glu Mutant
pdb|3SQ7|D Chain D, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase H432n_glu Mutant
Length = 470
Score = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 35/68 (51%), Gaps = 4/68 (5%)
Query: 756 VSPPPFPASLTELWISFMPDLECLSSI-GENLTSLKT---LRLSYCRKLTYFSKEGLPKS 811
++ PPF + T+L I+F + EC + N TS++T ++ +C L KEGLP
Sbjct: 96 ITMPPFASHHTKLIINFYDNGECKIFLPSNNFTSMETNLPQQVCWCSPLLKIGKEGLPVP 155
Query: 812 LLRLYINH 819
R I +
Sbjct: 156 FKRSLIEY 163
>pdb|1W23|A Chain A, Crystal Structure Of Phosphoserine Aminotransferase From
Bacillus Alcalophilus
pdb|1W23|B Chain B, Crystal Structure Of Phosphoserine Aminotransferase From
Bacillus Alcalophilus
pdb|2BHX|A Chain A, Radiation Damage Of The Schiff Base In Phosphoserine
Aminotransferase (Structure A)
pdb|2BHX|B Chain B, Radiation Damage Of The Schiff Base In Phosphoserine
Aminotransferase (Structure A)
pdb|2BI1|A Chain A, Radiation Damage Of The Schiff Base In Phosphoserine
Aminotransferase (Structure B)
pdb|2BI1|B Chain B, Radiation Damage Of The Schiff Base In Phosphoserine
Aminotransferase (Structure B)
pdb|2BI2|A Chain A, Radiation Damage Of The Schiff Base In Phosphoserine
Aminotransferase (Structure C)
pdb|2BI2|B Chain B, Radiation Damage Of The Schiff Base In Phosphoserine
Aminotransferase (Structure C)
pdb|2BI3|A Chain A, Radiation Damage Of The Schiff Base In Phosphoserine
Aminotransferase (Structure D)
pdb|2BI3|B Chain B, Radiation Damage Of The Schiff Base In Phosphoserine
Aminotransferase (Structure D)
pdb|2BI5|A Chain A, Radiation Damage Of The Schiff Base In Phosphoserine
Aminotransferase (Structure E)
pdb|2BI5|B Chain B, Radiation Damage Of The Schiff Base In Phosphoserine
Aminotransferase (Structure E)
pdb|2BI9|A Chain A, Radiation Damage Of The Schiff Base In Phosphoserine
Aminotransferase (Structure F)
pdb|2BI9|B Chain B, Radiation Damage Of The Schiff Base In Phosphoserine
Aminotransferase (Structure F)
pdb|2BIA|A Chain A, Radiation Damage Of The Schiff Base In Phosphoserine
Aminotransferase (Structure G)
pdb|2BIA|B Chain B, Radiation Damage Of The Schiff Base In Phosphoserine
Aminotransferase (Structure G)
Length = 360
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 29/118 (24%), Positives = 51/118 (43%), Gaps = 13/118 (11%)
Query: 375 EEEHDHQQP------ELP--CRLRFLELSYCQGLTKLPQALLTLCSLTDMKILGCASLVS 426
EE H+ Q ++P ++ FL+ T LP LLT ++ + + G S +
Sbjct: 47 EEVHEQAQNLLRELLQIPNDYQILFLQGGASLQFTMLPMNLLTKGTIGNYVLTGSWSEKA 106
Query: 427 FPEVALPSQLRTVRIQECNALKSLPEAWMYNSNSSLESLKIRSCNSLV-----SFPEI 479
E L + + N+ +S+P+ + N + L I S N++ +FPEI
Sbjct: 107 LKEAKLLGETHIAASTKANSYQSIPDFSEFQLNENDAYLHITSNNTIYGTQYQNFPEI 164
>pdb|2BIE|A Chain A, Radiation Damage Of The Schiff Base In Phosphoserine
Aminotransferase (Structure H)
pdb|2BIE|B Chain B, Radiation Damage Of The Schiff Base In Phosphoserine
Aminotransferase (Structure H)
pdb|2BIG|A Chain A, Radiation Damage Of The Schiff Base In Phosphoserine
Aminotransferase (Structure I)
pdb|2BIG|B Chain B, Radiation Damage Of The Schiff Base In Phosphoserine
Aminotransferase (Structure I)
Length = 361
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 29/118 (24%), Positives = 51/118 (43%), Gaps = 13/118 (11%)
Query: 375 EEEHDHQQP------ELP--CRLRFLELSYCQGLTKLPQALLTLCSLTDMKILGCASLVS 426
EE H+ Q ++P ++ FL+ T LP LLT ++ + + G S +
Sbjct: 48 EEVHEQAQNLLRELLQIPNDYQILFLQGGASLQFTMLPMNLLTKGTIGNYVLTGSWSEKA 107
Query: 427 FPEVALPSQLRTVRIQECNALKSLPEAWMYNSNSSLESLKIRSCNSLV-----SFPEI 479
E L + + N+ +S+P+ + N + L I S N++ +FPEI
Sbjct: 108 LKEAKLLGETHIAASTKANSYQSIPDFSEFQLNENDAYLHITSNNTIYGTQYQNFPEI 165
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
0.319 0.135 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,459,575
Number of Sequences: 62578
Number of extensions: 832071
Number of successful extensions: 2042
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 2016
Number of HSP's gapped (non-prelim): 35
length of query: 857
length of database: 14,973,337
effective HSP length: 107
effective length of query: 750
effective length of database: 8,277,491
effective search space: 6208118250
effective search space used: 6208118250
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: 56 (26.2 bits)