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= 023045
(288 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SNG|A Chain A, X-ray Structure Of Fully Glycosylated Bifunctional
Nuclease Tbn1 From Solanum Lycopersicum (tomato)
Length = 277
Score = 293 bits (751), Expect = 6e-80, Method: Compositional matrix adjust.
Identities = 144/268 (53%), Positives = 177/268 (66%), Gaps = 5/268 (1%)
Query: 24 WGNDGHVAVCRIAQSRLREAAADAVKQLLPESADNDLGSVCTWADHVK--FHYHWSSALH 81
W +GHV CRIAQ L + AA AVK LLPE + DL ++C W D V+ + Y W+S LH
Sbjct: 1 WSKEGHVMTCRIAQGLLNDEAAHAVKMLLPEYVNGDLSALCVWPDQVRHWYKYKWTSPLH 60
Query: 82 FIDTPDNLCTYQYNRDCKDEDGVKGRCVAGAINNYTTQLLXXXXXXXXXXEYNLTEALLF 141
FIDTPD C + Y RDC D+ GVK CVAGAI N+TTQL YN+TEALLF
Sbjct: 61 FIDTPDKACNFDYERDCHDQHGVKDMCVAGAIQNFTTQL-SHYREGTSDRRYNMTEALLF 119
Query: 142 LSHFIGDIHQPLHVGFTSDRGGNTIDVHWYTRKQVLHHVWDNNIIETAEERFYNSNIDGL 201
LSHF+GDIHQP+HVGFTSD GGN+ID+ W+ K LHHVWD II TA + +Y +I+ L
Sbjct: 120 LSHFMGDIHQPMHVGFTSDAGGNSIDLRWFRHKSNLHHVWDREIILTAAKDYYAKDINLL 179
Query: 202 VDAIQQNITTD-WADLVKKWETCSANNTACPDVYASEGIKAACDWAYKGVSEGSVLEDEY 260
+ I+ N T W+D + W C N +C + +A+E I AC W YKGV G L D+Y
Sbjct: 180 EEDIEGNFTDGIWSDDLASWREC-GNVFSCVNKFATESINIACKWGYKGVEAGETLSDDY 238
Query: 261 FNSRLPIVKLRLAQGGVRLAATLNRIFG 288
FNSRLPIV R+AQGG+RLA LN +FG
Sbjct: 239 FNSRLPIVMKRVAQGGIRLAMLLNNVFG 266
>pdb|4DJ4|A Chain A, X-ray Structure Of Mutant N211d Of Bifunctional Nuclease
Tbn1 From Solanum Lycopersicum (tomato)
pdb|4DJ4|B Chain B, X-ray Structure Of Mutant N211d Of Bifunctional Nuclease
Tbn1 From Solanum Lycopersicum (tomato)
Length = 277
Score = 291 bits (746), Expect = 2e-79, Method: Compositional matrix adjust.
Identities = 143/268 (53%), Positives = 177/268 (66%), Gaps = 5/268 (1%)
Query: 24 WGNDGHVAVCRIAQSRLREAAADAVKQLLPESADNDLGSVCTWADHVK--FHYHWSSALH 81
W +GHV CRIAQ L + AA AVK LLPE + DL ++C W D V+ + Y W+S LH
Sbjct: 1 WSKEGHVMTCRIAQGLLNDEAAHAVKMLLPEYVNGDLSALCVWPDQVRHWYKYKWTSPLH 60
Query: 82 FIDTPDNLCTYQYNRDCKDEDGVKGRCVAGAINNYTTQLLXXXXXXXXXXEYNLTEALLF 141
FIDTPD C + Y RDC D+ GVK CVAGAI N+TTQL YN+TEALLF
Sbjct: 61 FIDTPDKACNFDYERDCHDQHGVKDMCVAGAIQNFTTQL-SHYREGTSDRRYNMTEALLF 119
Query: 142 LSHFIGDIHQPLHVGFTSDRGGNTIDVHWYTRKQVLHHVWDNNIIETAEERFYNSNIDGL 201
LSHF+GDIHQP+HVGFTSD GGN+ID+ W+ K LHHVWD II TA + +Y +I+ L
Sbjct: 120 LSHFMGDIHQPMHVGFTSDAGGNSIDLRWFRHKSNLHHVWDREIILTAAKDYYAKDINLL 179
Query: 202 VDAIQQNITTD-WADLVKKWETCSANNTACPDVYASEGIKAACDWAYKGVSEGSVLEDEY 260
+ I+ + T W+D + W C N +C + +A+E I AC W YKGV G L D+Y
Sbjct: 180 EEDIEGDFTDGIWSDDLASWREC-GNVFSCVNKFATESINIACKWGYKGVEAGETLSDDY 238
Query: 261 FNSRLPIVKLRLAQGGVRLAATLNRIFG 288
FNSRLPIV R+AQGG+RLA LN +FG
Sbjct: 239 FNSRLPIVMKRVAQGGIRLAMLLNNVFG 266
>pdb|1AK0|A Chain A, P1 Nuclease In Complex With A Substrate Analog
Length = 270
Score = 85.9 bits (211), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 88/285 (30%), Positives = 125/285 (43%), Gaps = 40/285 (14%)
Query: 24 WGNDGHVAVCRIAQSRLREAAADAVKQLLPESADNDLGSVCTWADHVKFHY--HWSSALH 81
WG GH V +AQ + AA + +L S+ + L S+ +WAD + WS++LH
Sbjct: 1 WGALGHATVAYVAQHYVSPEAASWAQGILGSSSSSYLASIASWADEYRLTSAGKWSASLH 60
Query: 82 FIDTPDNL---CTYQYNRDCKDEDGVKGRCVAGAINNYTTQLLXXXXXXXXXXEYNLTEA 138
FID DN C Y RDC G G C AI NYT ++ N EA
Sbjct: 61 FIDAEDNPPTNCNVDYERDC----GSSG-CSISAIANYTQRV-----SDSSLSSENHAEA 110
Query: 139 LLFLSHFIGDIHQPLHVGFTSDRGGNTIDVHWYTRKQVLHHVWDNNIIETAEERFYNSNI 198
L FL HFIGD+ QPLH + GGN I+V + LH WD + + S+
Sbjct: 111 LRFLVHFIGDMTQPLHDEAYA-VGGNKINVTFDGYHDNLHSDWDTYMPQKLIGGHALSDA 169
Query: 199 DGLVDAIQQNITT-DWADLVKKWETCSANNTACPDVYASEGIKAACDWAYKG-------- 249
+ + QNI + ++ W +N SE I A WA
Sbjct: 170 ESWAKTLVQNIESGNYTAQAIGW--IKGDNI-------SEPITTATRWASDANALVCTVV 220
Query: 250 VSEGSV------LEDEYFNSRLPIVKLRLAQGGVRLAATLNRIFG 288
+ G+ L Y++S + ++L++A+GG RLA +N I G
Sbjct: 221 MPHGAAALQTGDLYPTYYDSVIDTIELQIAKGGYRLANWINEIHG 265
>pdb|3V71|A Chain A, Crystal Structure Of Puf-6 In Complex With 5be13 Rna
Length = 382
Score = 31.6 bits (70), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 38/84 (45%), Gaps = 18/84 (21%)
Query: 33 CRIAQSRLREAAADAVKQLLPESADNDLGSVCTWADHVKFHY-----------HWSSALH 81
CR+ Q L++ V QL+ E + DL ++CT D + H W+ +H
Sbjct: 109 CRVVQLALQKFDHSNVFQLIQELSTFDLAAMCT--DQISIHVIQRVVKQLPVDMWTFFVH 166
Query: 82 FIDTPDNLCTYQYNRDCKDEDGVK 105
F+ + D+L C+D+ G +
Sbjct: 167 FLSSGDSLMAV-----CQDKYGCR 185
>pdb|1AH7|A Chain A, Phospholipase C From Bacillus Cereus
Length = 245
Score = 29.6 bits (65), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 35/81 (43%), Gaps = 20/81 (24%)
Query: 79 ALHFIDTPDNLCTYQYNRDCKDEDGVKGRCVAGAINNYTTQLLXXXXXXXXXXEYNLTEA 138
A HF D PDN TY E G K +AG +Y + ++ +A
Sbjct: 67 ASHFYD-PDNGKTYIPFAKQAKETGAKYFKLAG--ESYKNK--------------DMKQA 109
Query: 139 LLFLS---HFIGDIHQPLHVG 156
+L H++GD++QP+H
Sbjct: 110 FFYLGLSLHYLGDVNQPMHAA 130
>pdb|2HUC|A Chain A, Structural Studies Examining The Substrate Specificity
Profiles Of Pc-Plcbc Protein Variants
Length = 245
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 35/80 (43%), Gaps = 20/80 (25%)
Query: 79 ALHFIDTPDNLCTYQYNRDCKDEDGVKGRCVAGAINNYTTQLLXXXXXXXXXXEYNLTEA 138
A HF D PDN TY E G K +AG +Y + ++ +A
Sbjct: 67 ASHFYD-PDNGKTYIPFAKQAKETGAKYFKLAG--ESYKNK--------------DMKQA 109
Query: 139 LLFLS---HFIGDIHQPLHV 155
+L H++GD++QP+H
Sbjct: 110 FFYLGLSLHYLGDVNQPMHA 129
>pdb|2FFZ|A Chain A, Structural Studies Examining The Substrate Specificity
Profiles Of Pc-Plcbc Protein Variants
Length = 245
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 35/81 (43%), Gaps = 20/81 (24%)
Query: 79 ALHFIDTPDNLCTYQYNRDCKDEDGVKGRCVAGAINNYTTQLLXXXXXXXXXXEYNLTEA 138
A HF D PDN TY E G K +AG +Y + ++ +A
Sbjct: 67 ASHFYD-PDNGKTYIPFAKQAKETGAKYFKLAG--ESYKNK--------------DMKQA 109
Query: 139 LLFLS---HFIGDIHQPLHVG 156
+L H++GD++QP+H
Sbjct: 110 FFYLGLSLHYLGDVNQPMHAA 130
>pdb|1ESC|A Chain A, The Molecular Mechanism Of Enantiorecognition By Esterases
pdb|1ESD|A Chain A, The Molecular Mechanism Of Enantiorecognition By Esterases
pdb|1ESE|A Chain A, The Molecular Mechanism Of Enantiorecognition By Esterases
Length = 306
Score = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 22/38 (57%), Gaps = 5/38 (13%)
Query: 232 DVYASEGIKAACDWAYKGVSEGSVLED---EYFNSRLP 266
D+YA G ACD A +G+ G +LED E +++P
Sbjct: 244 DLYAGTGANTACDGADRGI--GGLLEDSQLELLGTKIP 279
>pdb|1GXP|A Chain A, Phob Effector Domain In Complex With Pho Box Dna.
pdb|1GXP|B Chain B, Phob Effector Domain In Complex With Pho Box Dna.
pdb|1GXP|E Chain E, Phob Effector Domain In Complex With Pho Box Dna.
pdb|1GXP|F Chain F, Phob Effector Domain In Complex With Pho Box Dna.
pdb|1GXQ|A Chain A, Crystal Structure Of The Phob Effector Domain
Length = 106
Score = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 35/67 (52%), Gaps = 5/67 (7%)
Query: 143 SHFIGDIHQPLHVGFTSDRGGNTIDVHW---YTRKQVLHHVWDNNIIETAEERFYNSNID 199
SH + +PL +G T + + H Y+R+Q+L+HVW N+ E+R + +I
Sbjct: 20 SHRVMAGEEPLEMGPTEFKLLHFFMTHPERVYSREQLLNHVWGTNVY--VEDRTVDVHIR 77
Query: 200 GLVDAIQ 206
L A++
Sbjct: 78 RLRKALE 84
>pdb|1QQI|A Chain A, Solution Structure Of The Dna-Binding And Transactivation
Domain Of Phob From Escherichia Coli
pdb|2Z33|A Chain A, Solution Structure Of The Dna Complex Of Phob Dna-
BindingTRANSACTIVATION DOMAIN
Length = 104
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 35/67 (52%), Gaps = 5/67 (7%)
Query: 143 SHFIGDIHQPLHVGFTSDRGGNTIDVHW---YTRKQVLHHVWDNNIIETAEERFYNSNID 199
SH + +PL +G T + + H Y+R+Q+L+HVW N+ E+R + +I
Sbjct: 18 SHRVMAGEEPLEMGPTEFKLLHFFMTHPERVYSREQLLNHVWGTNVY--VEDRTVDVHIR 75
Query: 200 GLVDAIQ 206
L A++
Sbjct: 76 RLRKALE 82
>pdb|3T72|A Chain A, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|B Chain B, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|E Chain E, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|F Chain F, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|I Chain I, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|J Chain J, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|M Chain M, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|N Chain N, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|R Chain R, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|S Chain S, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|V Chain V, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|W Chain W, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|Z Chain Z, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|1 Chain 1, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|4 Chain 4, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|5 Chain 5, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|8 Chain 8, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|9 Chain 9, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|CC Chain c, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|DD Chain d, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|GG Chain g, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|HH Chain h, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|KK Chain k, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
pdb|3T72|LL Chain l, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna
Transcription Activation Sub-Complex
Length = 102
Score = 28.5 bits (62), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 35/67 (52%), Gaps = 5/67 (7%)
Query: 143 SHFIGDIHQPLHVGFTSDRGGNTIDVHW---YTRKQVLHHVWDNNIIETAEERFYNSNID 199
SH + +PL +G T + + H Y+R+Q+L+HVW N+ E+R + +I
Sbjct: 16 SHRVMAGEEPLEMGPTEFKLLHFFMTHPERVYSREQLLNHVWGTNVY--VEDRTVDVHIR 73
Query: 200 GLVDAIQ 206
L A++
Sbjct: 74 RLRKALE 80
>pdb|3I7F|A Chain A, Aspartyl Trna Synthetase From Entamoeba Histolytica
pdb|3I7F|B Chain B, Aspartyl Trna Synthetase From Entamoeba Histolytica
Length = 548
Score = 28.1 bits (61), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 18/30 (60%)
Query: 148 DIHQPLHVGFTSDRGGNTIDVHWYTRKQVL 177
+IH P +G +S+ G N +V ++ RK L
Sbjct: 265 EIHTPKLIGCSSEGGSNIFEVKYFDRKAYL 294
>pdb|3SHS|A Chain A, Three N-Terminal Domains Of The Bacteriophage Rb49 Highly
Immunogenic Outer Capsid Protein (Hoc)
Length = 304
Score = 27.7 bits (60), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 11/33 (33%), Positives = 17/33 (51%)
Query: 65 TWADHVKFHYHWSSALHFIDTPDNLCTYQYNRD 97
T AD+ + HY WS IDT ++ ++ D
Sbjct: 123 TPADNYELHYSWSKGEDVIDTTQDITIQEFTAD 155
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
0.322 0.137 0.443
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,872,658
Number of Sequences: 62578
Number of extensions: 354780
Number of successful extensions: 937
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 921
Number of HSP's gapped (non-prelim): 15
length of query: 288
length of database: 14,973,337
effective HSP length: 98
effective length of query: 190
effective length of database: 8,840,693
effective search space: 1679731670
effective search space used: 1679731670
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (24.3 bits)