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= psy496
(319 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3LLM|A Chain A, Crystal Structure Analysis Of A Rna Helicase
pdb|3LLM|B Chain B, Crystal Structure Analysis Of A Rna Helicase
Length = 235
Score = 170 bits (431), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 80/161 (49%), Positives = 114/161 (70%), Gaps = 5/161 (3%)
Query: 73 IIYTSTGCGKTTQVPQFILDDEIARNRGSECCIMVTQPRRISAIAIAERVAQERDEQCGR 132
II +TGCGKTTQVPQFILDD I +R +EC I+VTQPRRISA+++AERVA ER E+
Sbjct: 80 IIRGATGCGKTTQVPQFILDDFIQNDRAAECNIVVTQPRRISAVSVAERVAFERGEE--- 136
Query: 133 PGSSVGYQIRLEKELPRKRGSILYCTAGILPEVMQSDPILSGVSHIVMDEIHERSMISDF 192
PG S GY +R E LPR SI +CT G+L +++ + G+SH+++DEIHER + +DF
Sbjct: 137 PGKSCGYSVRFESILPRPHASIXFCTVGVLLRKLEAG--IRGISHVIVDEIHERDINTDF 194
Query: 193 LLAILKDVTDKRKDLKLILMSATLNAEKFSQFFGGAPILHI 233
LL +L+DV +++++L SAT++ F ++F PI+ +
Sbjct: 195 LLVVLRDVVQAYPEVRIVLXSATIDTSXFCEYFFNCPIIEV 235
>pdb|3KX2|B Chain B, Crystal Structure Of Prp43p In Complex With Adp
pdb|3KX2|A Chain A, Crystal Structure Of Prp43p In Complex With Adp
Length = 767
Score = 150 bits (379), Expect = 9e-37, Method: Compositional matrix adjust.
Identities = 80/173 (46%), Positives = 114/173 (65%), Gaps = 8/173 (4%)
Query: 73 IIYTSTGCGKTTQVPQFILDDEIARNRGSECCIMVTQPRRISAIAIAERVAQERDEQCGR 132
+ TG GKTTQ+PQF+L DE+ ++ + TQPRR++A+++A+RVA+E D + G
Sbjct: 113 VFVGETGSGKTTQIPQFVLFDEMPHLENTQ--VACTQPRRVAAMSVAQRVAEEMDVKLG- 169
Query: 133 PGSSVGYQIRLEKELPRKRGSIL-YCTAGILPEVMQSDPILSGVSHIVMDEIHERSMISD 191
VGY IR E + K +IL Y T G+L D LS S I++DE HER++ +D
Sbjct: 170 --EEVGYSIRFENKTSNK--TILKYMTDGMLLREAMEDHDLSRYSCIILDEAHERTLATD 225
Query: 192 FLLAILKDVTDKRKDLKLILMSATLNAEKFSQFFGGAPILHIPGFTYPVQEYY 244
L+ +LK V +R DLK+I+MSATL+AEKF ++F AP+L +PG TYPV+ YY
Sbjct: 226 ILMGLLKQVVKRRPDLKIIIMSATLDAEKFQRYFNDAPLLAVPGRTYPVELYY 278
Score = 42.0 bits (97), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 30/44 (68%), Gaps = 2/44 (4%)
Query: 19 GCGKTTQVPQFILDDEIARNRGSECCIMVTQPRRISAIALINKC 62
G GKTTQ+PQF+L DE+ ++ + TQPRR++A+++ +
Sbjct: 119 GSGKTTQIPQFVLFDEMPHLENTQ--VACTQPRRVAAMSVAQRV 160
>pdb|2XAU|A Chain A, Crystal Structure Of The Prp43p Deah-Box Rna Helicase In
Complex With Adp
pdb|2XAU|B Chain B, Crystal Structure Of The Prp43p Deah-Box Rna Helicase In
Complex With Adp
Length = 773
Score = 150 bits (379), Expect = 9e-37, Method: Compositional matrix adjust.
Identities = 80/173 (46%), Positives = 114/173 (65%), Gaps = 8/173 (4%)
Query: 73 IIYTSTGCGKTTQVPQFILDDEIARNRGSECCIMVTQPRRISAIAIAERVAQERDEQCGR 132
+ TG GKTTQ+PQF+L DE+ ++ + TQPRR++A+++A+RVA+E D + G
Sbjct: 113 VFVGETGSGKTTQIPQFVLFDEMPHLENTQ--VACTQPRRVAAMSVAQRVAEEMDVKLG- 169
Query: 133 PGSSVGYQIRLEKELPRKRGSIL-YCTAGILPEVMQSDPILSGVSHIVMDEIHERSMISD 191
VGY IR E + K +IL Y T G+L D LS S I++DE HER++ +D
Sbjct: 170 --EEVGYSIRFENKTSNK--TILKYMTDGMLLREAMEDHDLSRYSCIILDEAHERTLATD 225
Query: 192 FLLAILKDVTDKRKDLKLILMSATLNAEKFSQFFGGAPILHIPGFTYPVQEYY 244
L+ +LK V +R DLK+I+MSATL+AEKF ++F AP+L +PG TYPV+ YY
Sbjct: 226 ILMGLLKQVVKRRPDLKIIIMSATLDAEKFQRYFNDAPLLAVPGRTYPVELYY 278
Score = 42.0 bits (97), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 30/44 (68%), Gaps = 2/44 (4%)
Query: 19 GCGKTTQVPQFILDDEIARNRGSECCIMVTQPRRISAIALINKC 62
G GKTTQ+PQF+L DE+ ++ + TQPRR++A+++ +
Sbjct: 119 GSGKTTQIPQFVLFDEMPHLENTQ--VACTQPRRVAAMSVAQRV 160
>pdb|4GM6|A Chain A, Crystal Structure Of Pfkb Family Carbohydrate
Kinase(Target Efi-502146 From Listeria Grayi Dsm 20601
pdb|4GM6|B Chain B, Crystal Structure Of Pfkb Family Carbohydrate
Kinase(Target Efi-502146 From Listeria Grayi Dsm 20601
pdb|4GM6|C Chain C, Crystal Structure Of Pfkb Family Carbohydrate
Kinase(Target Efi-502146 From Listeria Grayi Dsm 20601
pdb|4GM6|D Chain D, Crystal Structure Of Pfkb Family Carbohydrate
Kinase(Target Efi-502146 From Listeria Grayi Dsm 20601
pdb|4GM6|E Chain E, Crystal Structure Of Pfkb Family Carbohydrate
Kinase(Target Efi-502146 From Listeria Grayi Dsm 20601
pdb|4GM6|F Chain F, Crystal Structure Of Pfkb Family Carbohydrate
Kinase(Target Efi-502146 From Listeria Grayi Dsm 20601
Length = 351
Score = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 21/38 (55%)
Query: 270 FSQFFGGAPILHIPGFTYPVQEYYLEDVLNMTRTLKRS 307
S+ G +LH+ G T + ++LE V+ + R KR+
Sbjct: 144 LSELLKGIRVLHVSGITIALSTFWLEMVVKIIREAKRN 181
>pdb|3UCQ|A Chain A, Crystal Structure Of Amylosucrase From Deinococcus
Geothermalis
pdb|3UER|A Chain A, Crystal Structure Of Amylosucrase From Deinococcus
Geothermalis In Complex With Turanose
Length = 655
Score = 27.7 bits (60), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 22/38 (57%)
Query: 117 AIAERVAQERDEQCGRPGSSVGYQIRLEKELPRKRGSI 154
A+AERV QE GR + + + +R+ ++ P+ SI
Sbjct: 535 ALAERVRQEPSSPAGRVNTGLRHLLRVRRDTPQLHASI 572
>pdb|3MA8|A Chain A, Crystal Structure Of Cgd1_2040, A Pyruvate Kinase From
Cryptosporidium Parvum
pdb|3MA8|B Chain B, Crystal Structure Of Cgd1_2040, A Pyruvate Kinase From
Cryptosporidium Parvum
Length = 534
Score = 27.7 bits (60), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 2/51 (3%)
Query: 149 RKRGSILYCTAGILPEVMQSDPILSGVSHIVMDEIHERSMISDFLLAILKD 199
R +I+ CTA PEV + I GV V++ IH ++ LA+ K+
Sbjct: 453 RPSQTIIACTAK--PEVARGLKIARGVKTYVLNSIHHSEVVISNALALAKE 501
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 0.401
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,961,672
Number of Sequences: 62578
Number of extensions: 353585
Number of successful extensions: 653
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 633
Number of HSP's gapped (non-prelim): 16
length of query: 319
length of database: 14,973,337
effective HSP length: 99
effective length of query: 220
effective length of database: 8,778,115
effective search space: 1931185300
effective search space used: 1931185300
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)