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= psy15810
(343 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1H7W|A Chain A, Dihydropyrimidine Dehydrogenase (Dpd) From Pig
pdb|1H7W|B Chain B, Dihydropyrimidine Dehydrogenase (Dpd) From Pig
pdb|1H7W|C Chain C, Dihydropyrimidine Dehydrogenase (Dpd) From Pig
pdb|1H7W|D Chain D, Dihydropyrimidine Dehydrogenase (Dpd) From Pig
pdb|1GT8|A Chain A, Dihydropyrimidine Dehydrogenase (Dpd) From Pig, Ternary
Complex With Nadph And Uracil-4-Acetic Acid
pdb|1GT8|B Chain B, Dihydropyrimidine Dehydrogenase (Dpd) From Pig, Ternary
Complex With Nadph And Uracil-4-Acetic Acid
pdb|1GT8|C Chain C, Dihydropyrimidine Dehydrogenase (Dpd) From Pig, Ternary
Complex With Nadph And Uracil-4-Acetic Acid
pdb|1GT8|D Chain D, Dihydropyrimidine Dehydrogenase (Dpd) From Pig, Ternary
Complex With Nadph And Uracil-4-Acetic Acid
pdb|1GTE|A Chain A, Dihydropyrimidine Dehydrogenase (Dpd) From Pig, Binary
Complex With 5-Iodouracil
pdb|1GTE|B Chain B, Dihydropyrimidine Dehydrogenase (Dpd) From Pig, Binary
Complex With 5-Iodouracil
pdb|1GTE|C Chain C, Dihydropyrimidine Dehydrogenase (Dpd) From Pig, Binary
Complex With 5-Iodouracil
pdb|1GTE|D Chain D, Dihydropyrimidine Dehydrogenase (Dpd) From Pig, Binary
Complex With 5-Iodouracil
pdb|1GTH|A Chain A, Dihydropyrimidine Dehydrogenase (Dpd) From Pig, Ternary
Complex With Nadph And 5-Iodouracil
pdb|1GTH|B Chain B, Dihydropyrimidine Dehydrogenase (Dpd) From Pig, Ternary
Complex With Nadph And 5-Iodouracil
pdb|1GTH|C Chain C, Dihydropyrimidine Dehydrogenase (Dpd) From Pig, Ternary
Complex With Nadph And 5-Iodouracil
pdb|1GTH|D Chain D, Dihydropyrimidine Dehydrogenase (Dpd) From Pig, Ternary
Complex With Nadph And 5-Iodouracil
Length = 1025
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 22/91 (24%), Positives = 39/91 (42%), Gaps = 10/91 (10%)
Query: 93 SSAGLIYCHFGLDILKKLSPIQEEYF------LNKLFDKVYDNLIQEVDGIDNGIPMFE- 145
+ +GL + H G +L+ S +Q + F L +Y I+E+ G D P E
Sbjct: 799 AESGLQFLHSGASVLQVCSAVQNQDFTVIQDYCTGLKALLYLKSIEELQGWDGQSPGTES 858
Query: 146 ---GEPIYHISTHLGARVSRLNPKWNDTKTV 173
G+P+ I+ +G ++ P K +
Sbjct: 859 HQKGKPVPRIAELMGKKLPNFGPYLEQRKKI 889
>pdb|1H7X|A Chain A, Dihydropyrimidine Dehydrogenase (Dpd) From Pig, Ternary
Complex Of A Mutant Enzyme (C671a), Nadph And 5-
Fluorouracil
pdb|1H7X|B Chain B, Dihydropyrimidine Dehydrogenase (Dpd) From Pig, Ternary
Complex Of A Mutant Enzyme (C671a), Nadph And 5-
Fluorouracil
pdb|1H7X|C Chain C, Dihydropyrimidine Dehydrogenase (Dpd) From Pig, Ternary
Complex Of A Mutant Enzyme (C671a), Nadph And 5-
Fluorouracil
pdb|1H7X|D Chain D, Dihydropyrimidine Dehydrogenase (Dpd) From Pig, Ternary
Complex Of A Mutant Enzyme (C671a), Nadph And 5-
Fluorouracil
Length = 1025
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 22/91 (24%), Positives = 39/91 (42%), Gaps = 10/91 (10%)
Query: 93 SSAGLIYCHFGLDILKKLSPIQEEYF------LNKLFDKVYDNLIQEVDGIDNGIPMFE- 145
+ +GL + H G +L+ S +Q + F L +Y I+E+ G D P E
Sbjct: 799 AESGLQFLHSGASVLQVCSAVQNQDFTVIQDYCTGLKALLYLKSIEELQGWDGQSPGTES 858
Query: 146 ---GEPIYHISTHLGARVSRLNPKWNDTKTV 173
G+P+ I+ +G ++ P K +
Sbjct: 859 HQKGKPVPRIAELMGKKLPNFGPYLEQRKKI 889
>pdb|3FHD|A Chain A, Crystal Structure Of The Shutoff And Exonuclease Protein
From Kaposis Sarcoma Associated Herpesvirus
Length = 508
Score = 28.9 bits (63), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 24/42 (57%), Gaps = 4/42 (9%)
Query: 113 IQEEYFLNKLFDKVYDNLIQEVDGIDNGIPMFEGEPIYHIST 154
++ YF L ++++E G+D+GIP G P Y+I+T
Sbjct: 391 VRHSYFYQVLLQS---SIVEEYIGLDSGIPRL-GSPKYYIAT 428
>pdb|3POV|A Chain A, Crystal Structure Of A Sox-Dna Complex
Length = 488
Score = 28.9 bits (63), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 24/42 (57%), Gaps = 4/42 (9%)
Query: 113 IQEEYFLNKLFDKVYDNLIQEVDGIDNGIPMFEGEPIYHIST 154
++ YF L ++++E G+D+GIP G P Y+I+T
Sbjct: 371 VRHSYFYQVLLQS---SIVEEYIGLDSGIPRL-GSPKYYIAT 408
>pdb|4HWG|A Chain A, Structure Of Udp-N-Acetylglucosamine 2-Epimerase From
Rickettsia Bellii
Length = 385
Score = 28.1 bits (61), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 35/154 (22%), Positives = 65/154 (42%), Gaps = 21/154 (13%)
Query: 137 IDNGIPMFEGEPIYHISTHLGARVSRLNPKWNDTKTVDEMELFKKAMAITLEEFQDRIDY 196
I G+P E + +H+ + R PK + +D++ L K + ++ +D
Sbjct: 162 IAEGLP---AELTFKSGSHMPEVLDRFMPKILKSDILDKLSLTPKQYFLISSHREENVDV 218
Query: 197 YCTQWWPARKLVLDAIKERFSLHESGKIIELKTPCPWKSHFFELEQEMELGDQIRFAIFP 256
K +L++++ + E +I T K +LE ELGD+IRF P
Sbjct: 219 KNNL-----KELLNSLQ--MLIKEYNFLIIFSTHPRTKKRLEDLEGFKELGDKIRF--LP 269
Query: 257 ADDFNSTFRVQ---------AVSLTEKSFVLRTP 281
A F ++Q + ++TE++ +L P
Sbjct: 270 AFSFTDYVKLQMNAFCILSDSGTITEEASILNLP 303
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
0.321 0.137 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,762,670
Number of Sequences: 62578
Number of extensions: 392585
Number of successful extensions: 1382
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1378
Number of HSP's gapped (non-prelim): 10
length of query: 343
length of database: 14,973,337
effective HSP length: 100
effective length of query: 243
effective length of database: 8,715,537
effective search space: 2117875491
effective search space used: 2117875491
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: 52 (24.6 bits)