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= 035749
(405 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SPA|A Chain A, Crystal Structure Of Human Mitochondrial Rna Polymerase
Length = 1134
Score = 33.1 bits (74), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 25/139 (17%), Positives = 64/139 (46%), Gaps = 7/139 (5%)
Query: 62 IYTTIIDGLCKEGFVDKAKELLLQMKDKNINPDVVTYNSVIRGFCYANDSNEA---KRLF 118
+Y ++ G ++G + +L +KD + PD+++Y + ++ C +A +R
Sbjct: 167 MYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQ--CMGRQDQDAGTIERCL 224
Query: 119 IEMMDQGVQPNVVTFSVIMDELCKNGKMEEASQLLE-LMIQIGVRPNAFVYNTLMDGFCL 177
+M +G++ + +V++ E + ++ ++ + + P L D +
Sbjct: 225 EQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAK 284
Query: 178 TGRVNRAKELFVSMESMGC 196
GRV+ K L + ++++ C
Sbjct: 285 DGRVSYPK-LHLPLKTLQC 302
>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Ca
Length = 501
Score = 33.1 bits (74), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 33/75 (44%)
Query: 117 LFIEMMDQGVQPNVVTFSVIMDELCKNGKMEEASQLLELMIQIGVRPNAFVYNTLMDGFC 176
+F +M+ V PN TF+ E A +++ M G++P Y + GFC
Sbjct: 92 IFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFC 151
Query: 177 LTGRVNRAKELFVSM 191
G ++A E+ M
Sbjct: 152 RKGDADKAYEVDAHM 166
Score = 30.0 bits (66), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 10/28 (35%), Positives = 17/28 (60%)
Query: 6 LFTKLKAFGCEPNVITYSTLINGLCRTG 33
+ ++KAFG +P + +Y + G CR G
Sbjct: 127 MVKQMKAFGIQPRLRSYGPALFGFCRKG 154
Score = 28.9 bits (63), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 27/134 (20%), Positives = 53/134 (39%), Gaps = 9/134 (6%)
Query: 277 IDGLCKNGYIVEALELFRTLRILKCELDIRSYSCLI------DGLCKSGR---LKIAWEL 327
+D K G ++EAL L+ R +L Y+ L+ + +S L +++
Sbjct: 33 LDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDI 92
Query: 328 FHSLPRGVLIADVVTYNIMIHALCADGKMDKAHDLFLDMEAKGVAPDCVAFNTLMLGCIR 387
F + ++ + T+ A + A D+ M+A G+ P ++ + G R
Sbjct: 93 FKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCR 152
Query: 388 NNETSKVVELLHRM 401
+ K E+ M
Sbjct: 153 KGDADKAYEVDAHM 166
>pdb|3QUB|A Chain A, Crystal Structure Of Pyrophosphatase From Bacteroides
Thetaiotaomicron, Glu47ala Mutant Complexed With Sulfate
Length = 243
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 21/34 (61%)
Query: 204 SILINGYCKNKEIEGALSLYSEMLSKGIKPTVVT 237
SIL N Y + + + GA L ++ S+G+ P VVT
Sbjct: 99 SILFNSYPEAERMPGAWELLQKVKSEGLTPMVVT 132
>pdb|3R9K|A Chain A, Crystal Structure Of Pyrophosphatase From Bacteroides
Thetaiotaomicron, Glu47asp Mutant Complexed With
Sulfate, A Closed Cap Conformation
Length = 243
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 21/34 (61%)
Query: 204 SILINGYCKNKEIEGALSLYSEMLSKGIKPTVVT 237
SIL N Y + + + GA L ++ S+G+ P VVT
Sbjct: 99 SILFNSYPEAERMPGAWELLQKVKSEGLTPMVVT 132
>pdb|3QU4|A Chain A, Crystal Structure Of Pyrophosphatase From Bacteroides
Thetaiotaomicron, Asp13ala Mutant
pdb|3QU4|B Chain B, Crystal Structure Of Pyrophosphatase From Bacteroides
Thetaiotaomicron, Asp13ala Mutant
pdb|3QU4|C Chain C, Crystal Structure Of Pyrophosphatase From Bacteroides
Thetaiotaomicron, Asp13ala Mutant
pdb|3QU4|D Chain D, Crystal Structure Of Pyrophosphatase From Bacteroides
Thetaiotaomicron, Asp13ala Mutant
pdb|3QU4|E Chain E, Crystal Structure Of Pyrophosphatase From Bacteroides
Thetaiotaomicron, Asp13ala Mutant
pdb|3QU4|F Chain F, Crystal Structure Of Pyrophosphatase From Bacteroides
Thetaiotaomicron, Asp13ala Mutant
pdb|3QU4|G Chain G, Crystal Structure Of Pyrophosphatase From Bacteroides
Thetaiotaomicron, Asp13ala Mutant
pdb|3QU4|H Chain H, Crystal Structure Of Pyrophosphatase From Bacteroides
Thetaiotaomicron, Asp13ala Mutant
Length = 243
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 21/34 (61%)
Query: 204 SILINGYCKNKEIEGALSLYSEMLSKGIKPTVVT 237
SIL N Y + + + GA L ++ S+G+ P VVT
Sbjct: 99 SILFNSYPEAERMPGAWELLQKVKSEGLTPMVVT 132
>pdb|3QYP|A Chain A, Crystal Structure Of Pyrophosphatase From Bacteroides
Thetaiotaomicron, Glu47asn Mutant Complexed With Calcium
And Phosphate
pdb|3QYP|B Chain B, Crystal Structure Of Pyrophosphatase From Bacteroides
Thetaiotaomicron, Glu47asn Mutant Complexed With Calcium
And Phosphate
pdb|3QUC|A Chain A, Crystal Structure Of Pyrophosphatase From Bacteroides
Thetaiotaomicron, Glu47asn Mutant Complexed With Sulfate
Length = 243
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 21/34 (61%)
Query: 204 SILINGYCKNKEIEGALSLYSEMLSKGIKPTVVT 237
SIL N Y + + + GA L ++ S+G+ P VVT
Sbjct: 99 SILFNSYPEAERMPGAWELLQKVKSEGLTPMVVT 132
>pdb|3QUQ|A Chain A, Crystal Structure Of Pyrophosphatase From Bacteroides
Thetaiotaomicron, An Open Cap Conformation
pdb|3QU2|A Chain A, Crystal Structure Of Pyrophosphatase From Bacteroides
Thetaiotaomicron, A Closed Cap Conformation
pdb|3QU2|B Chain B, Crystal Structure Of Pyrophosphatase From Bacteroides
Thetaiotaomicron, A Closed Cap Conformation
pdb|3QU2|C Chain C, Crystal Structure Of Pyrophosphatase From Bacteroides
Thetaiotaomicron, A Closed Cap Conformation
pdb|3QU2|D Chain D, Crystal Structure Of Pyrophosphatase From Bacteroides
Thetaiotaomicron, A Closed Cap Conformation
pdb|3QX7|A Chain A, Crystal Structure Of Pyrophosphatase From Bacteroides
Thetaiotaomicron Complexed With Phosphate, A Closed Cap
Conformation
pdb|3QXG|A Chain A, Crystal Structure Of Pyrophosphatase From Bacteroides
Thetaiotaomicron Complexed With Calcium, A Closed Cap
Conformation
pdb|3QXG|B Chain B, Crystal Structure Of Pyrophosphatase From Bacteroides
Thetaiotaomicron Complexed With Calcium, A Closed Cap
Conformation
Length = 243
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 21/34 (61%)
Query: 204 SILINGYCKNKEIEGALSLYSEMLSKGIKPTVVT 237
SIL N Y + + + GA L ++ S+G+ P VVT
Sbjct: 99 SILFNSYPEAERMPGAWELLQKVKSEGLTPMVVT 132
>pdb|3QU5|A Chain A, Crystal Structure Of Pyrophosphatase From Bacteroides
Thetaiotaomicron, Asp11asn Mutant
pdb|3QU5|B Chain B, Crystal Structure Of Pyrophosphatase From Bacteroides
Thetaiotaomicron, Asp11asn Mutant
Length = 243
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 21/34 (61%)
Query: 204 SILINGYCKNKEIEGALSLYSEMLSKGIKPTVVT 237
SIL N Y + + + GA L ++ S+G+ P VVT
Sbjct: 99 SILFNSYPEAERMPGAWELLQKVKSEGLTPMVVT 132
>pdb|3QUT|A Chain A, Crystal Structure Of Pyrophosphatase From Bacteroides
Thetaiotaomicron, Asp13asn Mutant, An Open Cap
Conformation
pdb|3QU7|A Chain A, Crystal Structure Of Pyrophosphatase From Bacteroides
Thetaiotaomicron, Asp13asn Mutant Complexed With Calcium
And Phosphate
pdb|3QU7|B Chain B, Crystal Structure Of Pyrophosphatase From Bacteroides
Thetaiotaomicron, Asp13asn Mutant Complexed With Calcium
And Phosphate
pdb|3QU9|A Chain A, Crystal Structure Of Pyrophosphatase From Bacteroides
Thetaiotaomicron, Asp13asn Mutant Complexed With
Magnesium And Tartrate
Length = 243
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 21/34 (61%)
Query: 204 SILINGYCKNKEIEGALSLYSEMLSKGIKPTVVT 237
SIL N Y + + + GA L ++ S+G+ P VVT
Sbjct: 99 SILFNSYPEAERMPGAWELLQKVKSEGLTPMVVT 132
>pdb|2DJ6|A Chain A, Crystal Structure Of 6-Pyruvoyl Tetrahydrobiopterin
Synthase From Pyrococcus Horikoshii Ot3
pdb|2DJ6|B Chain B, Crystal Structure Of 6-Pyruvoyl Tetrahydrobiopterin
Synthase From Pyrococcus Horikoshii Ot3
pdb|2DJ6|C Chain C, Crystal Structure Of 6-Pyruvoyl Tetrahydrobiopterin
Synthase From Pyrococcus Horikoshii Ot3
pdb|2DTT|A Chain A, Crystal Structure Of 6-Pyruvoyl Tetrahydrobiopterin
Synthase From Pyrococcus Horikoshii Ot3 Complexed With
(1'r,2's)-Biopterin
pdb|2DTT|B Chain B, Crystal Structure Of 6-Pyruvoyl Tetrahydrobiopterin
Synthase From Pyrococcus Horikoshii Ot3 Complexed With
(1'r,2's)-Biopterin
pdb|2DTT|C Chain C, Crystal Structure Of 6-Pyruvoyl Tetrahydrobiopterin
Synthase From Pyrococcus Horikoshii Ot3 Complexed With
(1'r,2's)-Biopterin
pdb|2DTT|D Chain D, Crystal Structure Of 6-Pyruvoyl Tetrahydrobiopterin
Synthase From Pyrococcus Horikoshii Ot3 Complexed With
(1'r,2's)-Biopterin
pdb|2DTT|E Chain E, Crystal Structure Of 6-Pyruvoyl Tetrahydrobiopterin
Synthase From Pyrococcus Horikoshii Ot3 Complexed With
(1'r,2's)-Biopterin
pdb|2DTT|F Chain F, Crystal Structure Of 6-Pyruvoyl Tetrahydrobiopterin
Synthase From Pyrococcus Horikoshii Ot3 Complexed With
(1'r,2's)-Biopterin
Length = 115
Score = 28.5 bits (62), Expect = 7.2, Method: Composition-based stats.
Identities = 15/42 (35%), Positives = 24/42 (57%)
Query: 266 VAADTWAYRTFIDGLCKNGYIVEALELFRTLRILKCELDIRS 307
V T+ I+G KNGY+++ LEL + + + ELD R+
Sbjct: 26 VHGHTFFLEVAIEGEIKNGYVMDFLELRKIVEEITKELDHRN 67
>pdb|3HSB|A Chain A, Crystal Structure Of Ymah (Hfq) From Bacillus Subtilis In
Complex With An Rna Aptamer
pdb|3HSB|B Chain B, Crystal Structure Of Ymah (Hfq) From Bacillus Subtilis In
Complex With An Rna Aptamer
pdb|3HSB|C Chain C, Crystal Structure Of Ymah (Hfq) From Bacillus Subtilis In
Complex With An Rna Aptamer
pdb|3HSB|D Chain D, Crystal Structure Of Ymah (Hfq) From Bacillus Subtilis In
Complex With An Rna Aptamer
pdb|3HSB|E Chain E, Crystal Structure Of Ymah (Hfq) From Bacillus Subtilis In
Complex With An Rna Aptamer
pdb|3HSB|F Chain F, Crystal Structure Of Ymah (Hfq) From Bacillus Subtilis In
Complex With An Rna Aptamer
pdb|3AHU|A Chain A, Crystal Structure Of Ymah (Hfq) From Bacillus Subtilis In
Complex With An Rna Aptamer.
pdb|3AHU|B Chain B, Crystal Structure Of Ymah (Hfq) From Bacillus Subtilis In
Complex With An Rna Aptamer.
pdb|3AHU|C Chain C, Crystal Structure Of Ymah (Hfq) From Bacillus Subtilis In
Complex With An Rna Aptamer
Length = 78
Score = 28.1 bits (61), Expect = 9.7, Method: Composition-based stats.
Identities = 16/56 (28%), Positives = 29/56 (51%)
Query: 162 RPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCKHNVFSYSILINGYCKNKEIE 217
+ N +V L++GF L G+V V +ES G + ++ ++I KN ++E
Sbjct: 21 KENTYVTVFLLNGFQLRGQVKGFDNFTVLLESEGKQQLIYKHAISTFAPQKNVQLE 76
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
0.325 0.140 0.419
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,499,937
Number of Sequences: 62578
Number of extensions: 470824
Number of successful extensions: 1407
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1377
Number of HSP's gapped (non-prelim): 30
length of query: 405
length of database: 14,973,337
effective HSP length: 101
effective length of query: 304
effective length of database: 8,652,959
effective search space: 2630499536
effective search space used: 2630499536
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (25.0 bits)