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= 013831
(435 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3A4L|A Chain A, Crystal Structure Of Archaeal O-Phosphoseryl-Trna(Sec)
Kinase
pdb|3A4L|B Chain B, Crystal Structure Of Archaeal O-Phosphoseryl-Trna(Sec)
Kinase
pdb|3A4M|A Chain A, Crystal Structure Of Archaeal O-Phosphoseryl-Trna(Sec)
Kinase
pdb|3A4M|B Chain B, Crystal Structure Of Archaeal O-Phosphoseryl-Trna(Sec)
Kinase
pdb|3A4N|A Chain A, Crystal Structure Of Archaeal O-Phosphoseryl-Trna(Sec)
Kinase
pdb|3A4N|B Chain B, Crystal Structure Of Archaeal O-Phosphoseryl-Trna(Sec)
Kinase
pdb|3AM1|A Chain A, Crystal Structure Of O-Phosphoseryl-Trna Kinase Complexed
With Anticodon-StemLOOP TRUNCATED TRNA(SEC)
Length = 260
Score = 38.1 bits (87), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 40/171 (23%), Positives = 80/171 (46%), Gaps = 30/171 (17%)
Query: 263 MKDCEVMMMVGLPASGKTTWAEKWVKDHPEKRY--ILLGTNLILEQMKVPGLLRKHNYSE 320
M D ++++ GLP GK+T+++ K + I+LG++LI E V + E
Sbjct: 1 MGDIMLIILTGLPGVGKSTFSKNLAKILSKNNIDVIVLGSDLIRESFPV--------WKE 52
Query: 321 RFQCLMGRANA-IFDVLLSRASRTPRNF--IIDQTNVFKSARKRKLRLFVNFRKIAVVVF 377
+++ + ++ + D L +N+ I+D TN + S R+ + + + K +++
Sbjct: 53 KYEEFIKKSTYRLIDSAL-------KNYWVIVDDTNYYNSMRRDLINIAKKYNKNYAIIY 105
Query: 378 PKPE-DLKIRSVKRFKEMGKEVPADAVNNMLANYVLPVNKDTPGSDELFDQ 427
K D+ IR R E G+++P + + M + D PG +D+
Sbjct: 106 LKASLDVLIR---RNIERGEKIPNEVIKKMYEKF------DEPGKKYKWDE 147
>pdb|3ADB|A Chain A, Crystal Structure Of O-Phosphoseryl-Trna Kinase Complexed
With Selenocysteine Trna And Amppnp (Crystal Type 1)
pdb|3ADB|B Chain B, Crystal Structure Of O-Phosphoseryl-Trna Kinase Complexed
With Selenocysteine Trna And Amppnp (Crystal Type 1)
pdb|3ADC|A Chain A, Crystal Structure Of O-Phosphoseryl-Trna Kinase Complexed
With Selenocysteine Trna And Amppnp (Crystal Type 2)
pdb|3ADC|B Chain B, Crystal Structure Of O-Phosphoseryl-Trna Kinase Complexed
With Selenocysteine Trna And Amppnp (Crystal Type 2)
pdb|3ADD|A Chain A, Crystal Structure Of O-Phosphoseryl-Trna Kinase Complexed
With Selenocysteine Trna And Amppnp (Crystal Type 3)
pdb|3ADD|B Chain B, Crystal Structure Of O-Phosphoseryl-Trna Kinase Complexed
With Selenocysteine Trna And Amppnp (Crystal Type 3)
Length = 259
Score = 33.9 bits (76), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 37/166 (22%), Positives = 77/166 (46%), Gaps = 30/166 (18%)
Query: 268 VMMMVGLPASGKTTWAEKWVKDHPEKRY--ILLGTNLILEQMKVPGLLRKHNYSERFQCL 325
++++ GLP GK+T+++ K + I+LG++LI E V + E+++
Sbjct: 13 LIILTGLPGVGKSTFSKNLAKILSKNNIDVIVLGSDLIRESFPV--------WKEKYEEF 64
Query: 326 MGRANA-IFDVLLSRASRTPRNF--IIDQTNVFKSARKRKLRLFVNFRKIAVVVFPKPE- 381
+ ++ + D L +N+ I+D TN + S R+ + + + K +++ K
Sbjct: 65 IKKSTYRLIDSAL-------KNYWVIVDDTNYYNSXRRDLINIAKKYNKNYAIIYLKASL 117
Query: 382 DLKIRSVKRFKEMGKEVPADAVNNMLANYVLPVNKDTPGSDELFDQ 427
D+ IR R E G+++P + + + D PG +D+
Sbjct: 118 DVLIR---RNIERGEKIPNEVIKKXYEKF------DEPGKKYKWDE 154
>pdb|1LTQ|A Chain A, Crystal Structure Of T4 Polynucleotide Kinase
pdb|1RC8|A Chain A, T4 Polynucleotide Kinase Bound To 5'-Gtcac-3' Ssdna
pdb|1RPZ|A Chain A, T4 Polynucleotide Kinase Bound To 5'-Tgcac-3' Ssdna
pdb|1RRC|A Chain A, T4 Polynucleotide Kinase Bound To 5'-Gtc-3' Ssdna
Length = 301
Score = 30.0 bits (66), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 9/25 (36%), Positives = 19/25 (76%)
Query: 267 EVMMMVGLPASGKTTWAEKWVKDHP 291
++++ +G P SGK+TWA +++ +P
Sbjct: 3 KIILTIGCPGSGKSTWAREFIAKNP 27
>pdb|4GP6|A Chain A, Polynucleotide Kinase
pdb|4GP6|B Chain B, Polynucleotide Kinase
Length = 171
Score = 30.0 bits (66), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 31/120 (25%), Positives = 57/120 (47%), Gaps = 15/120 (12%)
Query: 265 DCEVMMMVGLPASGKTTWAEKWVKDHPEKRYILLGTNLILEQMKVPGLLRKHNYSERFQC 324
+ +++++G SGK+T+A+K K T +I GL+ E Q
Sbjct: 8 ELSLVVLIGSSGSGKSTFAKKHFKP----------TEVISSDF-CRGLVSD---DENDQT 53
Query: 325 LMGRANAIFDVLLSRASRTPRNFIIDQTNVFKSARKRKLRLFVNFRKIAV-VVFPKPEDL 383
+ G A + ++S+ + + ++D TNV +SARK + + ++ V VVF PE +
Sbjct: 54 VTGAAFDVLHYIVSKRLQLGKLTVVDATNVQESARKPLIEIAKDYHCFPVAVVFNLPEKV 113
>pdb|1LY1|A Chain A, Structure And Mechanism Of T4 Polynucleotide Kinase
Length = 181
Score = 30.0 bits (66), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 9/25 (36%), Positives = 19/25 (76%)
Query: 267 EVMMMVGLPASGKTTWAEKWVKDHP 291
++++ +G P SGK+TWA +++ +P
Sbjct: 3 KIILTIGCPGSGKSTWAREFIAKNP 27
>pdb|2BWJ|A Chain A, Structure Of Adenylate Kinase 5
pdb|2BWJ|B Chain B, Structure Of Adenylate Kinase 5
pdb|2BWJ|C Chain C, Structure Of Adenylate Kinase 5
pdb|2BWJ|D Chain D, Structure Of Adenylate Kinase 5
pdb|2BWJ|E Chain E, Structure Of Adenylate Kinase 5
pdb|2BWJ|F Chain F, Structure Of Adenylate Kinase 5
Length = 199
Score = 29.6 bits (65), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 10/29 (34%), Positives = 20/29 (68%)
Query: 262 NMKDCEVMMMVGLPASGKTTWAEKWVKDH 290
+++ C+++ ++G P SGK T EK V+ +
Sbjct: 8 DLRKCKIIFIIGGPGSGKGTQCEKLVEKY 36
>pdb|2IA5|A Chain A, T4 Polynucleotide KinasePHOSPHATASE WITH BOUND SULFATE AND
Magnesium.
pdb|2IA5|B Chain B, T4 Polynucleotide KinasePHOSPHATASE WITH BOUND SULFATE AND
Magnesium.
pdb|2IA5|C Chain C, T4 Polynucleotide KinasePHOSPHATASE WITH BOUND SULFATE AND
Magnesium.
pdb|2IA5|D Chain D, T4 Polynucleotide KinasePHOSPHATASE WITH BOUND SULFATE AND
Magnesium.
pdb|2IA5|E Chain E, T4 Polynucleotide KinasePHOSPHATASE WITH BOUND SULFATE AND
Magnesium.
pdb|2IA5|F Chain F, T4 Polynucleotide KinasePHOSPHATASE WITH BOUND SULFATE AND
Magnesium.
pdb|2IA5|G Chain G, T4 Polynucleotide KinasePHOSPHATASE WITH BOUND SULFATE AND
Magnesium.
pdb|2IA5|H Chain H, T4 Polynucleotide KinasePHOSPHATASE WITH BOUND SULFATE AND
Magnesium.
pdb|2IA5|I Chain I, T4 Polynucleotide KinasePHOSPHATASE WITH BOUND SULFATE AND
Magnesium.
pdb|2IA5|J Chain J, T4 Polynucleotide KinasePHOSPHATASE WITH BOUND SULFATE AND
Magnesium.
pdb|2IA5|K Chain K, T4 Polynucleotide KinasePHOSPHATASE WITH BOUND SULFATE AND
Magnesium.
pdb|2IA5|L Chain L, T4 Polynucleotide KinasePHOSPHATASE WITH BOUND SULFATE AND
Magnesium
Length = 301
Score = 29.6 bits (65), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 9/25 (36%), Positives = 19/25 (76%)
Query: 267 EVMMMVGLPASGKTTWAEKWVKDHP 291
++++ +G P SGK+TWA +++ +P
Sbjct: 3 KIILTIGCPGSGKSTWAREFIAKNP 27
>pdb|3GB9|A Chain A, Human Purine Nucleoside Phosphorylase Double Mutant
E201q,n243d Complexed With 2-fluoroadenine
pdb|3GB9|B Chain B, Human Purine Nucleoside Phosphorylase Double Mutant
E201q,n243d Complexed With 2-fluoroadenine
pdb|3GB9|C Chain C, Human Purine Nucleoside Phosphorylase Double Mutant
E201q,n243d Complexed With 2-fluoroadenine
pdb|3GGS|A Chain A, Human Purine Nucleoside Phosphorylase Double Mutant
E201q,N243d Complexed With 2-Fluoro-2'-Deoxyadenosine
pdb|3GGS|B Chain B, Human Purine Nucleoside Phosphorylase Double Mutant
E201q,N243d Complexed With 2-Fluoro-2'-Deoxyadenosine
pdb|3GGS|C Chain C, Human Purine Nucleoside Phosphorylase Double Mutant
E201q,N243d Complexed With 2-Fluoro-2'-Deoxyadenosine
Length = 311
Score = 28.9 bits (63), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 32/61 (52%), Gaps = 4/61 (6%)
Query: 249 LDDGNSVL--GPTFCNMKDCEVMMMVGLPASGKTTWAEKWVKDHPEKRYILLGTNLILEQ 306
L +G V+ GP+F + +C V+ +G A G +T E V H R + G +LI ++
Sbjct: 209 LQEGTYVMVAGPSFQTVAECRVLQKLGADAVGMSTVPEVIVARHCGLR--VFGFSLITDK 266
Query: 307 M 307
+
Sbjct: 267 V 267
>pdb|1RH9|A Chain A, Family Gh5 Endo-Beta-Mannanase From Lycopersicon
Esculentum (Tomato)
Length = 373
Score = 28.5 bits (62), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 32/74 (43%), Gaps = 5/74 (6%)
Query: 253 NSVLGPTFCNMKDCEVMMMVGLPASGKTTWAEKWVKDHPEKRYILLGTNLILE---QMKV 309
N V G F + + GL + WA +W++ H + +L LI E K
Sbjct: 240 NQVQGIDFTTIHMYPNQWLPGLTQEAQDKWASQWIQVHIDDSKMLKKPLLIAEFGKSTKT 299
Query: 310 PG--LLRKHNYSER 321
PG + ++ NY E+
Sbjct: 300 PGYTVAKRDNYFEK 313
>pdb|3KHS|A Chain A, Crystal Structure Of Grouper Iridovirus Purine Nucleoside
Phosphorylase
pdb|3KHS|B Chain B, Crystal Structure Of Grouper Iridovirus Purine Nucleoside
Phosphorylase
pdb|3KHS|C Chain C, Crystal Structure Of Grouper Iridovirus Purine Nucleoside
Phosphorylase
pdb|3KHS|D Chain D, Crystal Structure Of Grouper Iridovirus Purine Nucleoside
Phosphorylase
Length = 285
Score = 28.1 bits (61), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 255 VLGPTFCNMKDCEVMMMVGLPASGKTTWAEKWVKDHPEKR--YILLGTNLILEQMKVP 310
V GP+F +C+++ ++G A G +T E V H R + L +N+I + P
Sbjct: 192 VNGPSFETPAECKILRLMGSDAVGMSTAPETIVAKHGGMRCLAVSLISNVIASNCETP 249
>pdb|4GP7|A Chain A, Polynucleotide Kinase
pdb|4GP7|B Chain B, Polynucleotide Kinase
Length = 171
Score = 28.1 bits (61), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 31/123 (25%), Positives = 56/123 (45%), Gaps = 15/123 (12%)
Query: 262 NMKDCEVMMMVGLPASGKTTWAEKWVKDHPEKRYILLGTNLILEQMKVPGLLRKHNYSER 321
+ + +++++G SGK+T+A+K K T +I GL E
Sbjct: 5 TIPELSLVVLIGSSGSGKSTFAKKHFKP----------TEVISSDF-CRGLXSD---DEN 50
Query: 322 FQCLMGRANAIFDVLLSRASRTPRNFIIDQTNVFKSARKRKLRLFVNFRKIAV-VVFPKP 380
Q + G A + ++S+ + + ++D TNV +SARK + ++ V VVF P
Sbjct: 51 DQTVTGAAFDVLHYIVSKRLQLGKLTVVDATNVQESARKPLIEXAKDYHCFPVAVVFNLP 110
Query: 381 EDL 383
E +
Sbjct: 111 EKV 113
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
0.318 0.136 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,219,074
Number of Sequences: 62578
Number of extensions: 547600
Number of successful extensions: 1362
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1353
Number of HSP's gapped (non-prelim): 14
length of query: 435
length of database: 14,973,337
effective HSP length: 102
effective length of query: 333
effective length of database: 8,590,381
effective search space: 2860596873
effective search space used: 2860596873
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)