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= psy17539
(443 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2YLM|A Chain A, Mechanism Of Usp7 (Hausp) Activation By Its C-Terminal
Ubiquitin-Like Domain (Hubl) And Allosteric Regulation
By Gmp-Synthetase
Length = 530
Score = 188 bits (478), Expect = 5e-48, Method: Compositional matrix adjust.
Identities = 118/301 (39%), Positives = 162/301 (53%), Gaps = 53/301 (17%)
Query: 2 FLDLFNRVEVTFCDKTILNDQGFTLELSLKMTYEQLVALVAQHLNTDKKLIQMFKVQAYK 61
F DL++RV+V FCDKTI ND GF + LS +M Y Q+ VAQ LNTD L+Q FK Q Y+
Sbjct: 233 FRDLYHRVDVIFCDKTIPNDPGFVVTLSNRMNYFQVAKTVAQRLNTDPMLLQFFKSQGYR 292
Query: 62 DTPGNPLPHNFEGTLKDILAPINKPKMPKKMHYQKLSIPVVELINKRPFKV----QAYKD 117
D PGNPL HN+EGTL+D+L KP+ PKK++YQ+L + + + N+R FK +++
Sbjct: 293 DGPGNPLRHNYEGTLRDLLQ-FFKPRQPKKLYYQQLKMKITDFENRRSFKCIWLNSQFRE 351
Query: 118 TPGNPLPHNFEGTLKDILAPINKPKMPKKMHYQKLSIPVVELINKRPFKVRTQFLDEAKK 177
P G ++D+L K VEL K
Sbjct: 352 EEITLYPDK-HGCVRDLLEECKK---------------AVELGEK--------------- 380
Query: 178 DAAIQPELLGPDNGGSGLLRLLEISNQKITAELDHSVSMDQLFGMNATTKIYRLEEIPQD 237
SG LRLLEI + KI ++ L AT++ +R+EEIP D
Sbjct: 381 --------------ASGKLRLLEIVSYKIIGVHQEDELLECL--SPATSRTFRIEEIPLD 424
Query: 238 EVSLDPD-ELLIPVAHFQKDIHNIFGYPFLLRIKDNERFSKVKERLAKKLNIQEKEFEKV 296
+V +D + E+L+ VAHF K++ FG PFLLRI E F +V +R+ L+IQEKEFEK
Sbjct: 425 QVDIDKENEMLVTVAHFHKEVFGTFGIPFLLRIHQGEHFREVMKRIQSLLDIQEKEFEKF 484
Query: 297 R 297
+
Sbjct: 485 K 485
Score = 132 bits (333), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 102/346 (29%), Positives = 161/346 (46%), Gaps = 82/346 (23%)
Query: 88 MPKKMHYQKLSIPVVELINKRP-----FKVQAYKDTPGNPLPHNFEGTLKDILAPINKPK 142
+ +M+Y +++ V + +N P FK Q Y+D PGNPL HN+EGTL+D+L KP+
Sbjct: 259 LSNRMNYFQVAKTVAQRLNTDPMLLQFFKSQGYRDGPGNPLRHNYEGTLRDLLQ-FFKPR 317
Query: 143 MPKKMHYQKLSIPVVELINKRPFKVRTQFLDEAKKDAAIQPELLGPDNGGSGLLRLLEIS 202
PKK++YQ+L + + + N+R F + +L+ ++ I L PD G + LLE
Sbjct: 318 QPKKLYYQQLKMKITDFENRRSF--KCIWLNSQFREEEIT---LYPDKHGC-VRDLLEEC 371
Query: 203 NQKITAELDHSVSMDQLFGMNATTKIYRLEEIPQDEVSLDPDELLIPVAHFQKDIHNIFG 262
+ + G A+ K+ LE I
Sbjct: 372 KKAVE------------LGEKASGKLRLLE---------------------------IVS 392
Query: 263 YPFLLRIKDNERFSKVKERLAKKLNIQEKEFEKVRVQDKIHPGRESNPWPSAYMANAPPS 322
Y + +++E + ++ I+E ++V + +
Sbjct: 393 YKIIGVHQEDELLECLSPATSRTFRIEEIPLDQVDIDKE--------------------- 431
Query: 323 KSNPDELLIPVAHFQKDIHNIFGYPFLLRIKDNERFSKVKERLAKKLNIQEKEFEKYKFG 382
+E+L+ VAHF K++ FG PFLLRI E F +V +R+ L+IQEKEFEK+KF
Sbjct: 432 ----NEMLVTVAHFHKEVFGTFGIPFLLRIHQGEHFREVMKRIQSLLDIQEKEFEKFKFA 487
Query: 383 VINNNRITYIEEDSDCPVSINQFR---SNISHQDYKVWLGLDHINK 425
++ R YI ED + V++ F N+SH + WLGLDH NK
Sbjct: 488 IVMMGRHQYINED-EYEVNLKDFEPQPGNMSHP--RPWLGLDHFNK 530
>pdb|1W7E|A Chain A, Nmr Ensemble Of Fasciclin-Like Protein From Rhodobacter
Sphaeroides
pdb|1W7D|A Chain A, Nmr Structure Of Fasciclin-Like Protein From Rhodobacter
Sphaeroides
Length = 137
Score = 30.8 bits (68), Expect = 1.4, Method: Composition-based stats.
Identities = 17/42 (40%), Positives = 23/42 (54%), Gaps = 3/42 (7%)
Query: 109 PFKVQAYKDTPGNPLPHNFEGTLKDILAPINKPKMPKKMHYQ 150
PF V A D LP EGT++D+L P NK K+ + + Y
Sbjct: 36 PFTVFAPTDAAFAALP---EGTVEDLLKPENKEKLTEILTYH 74
>pdb|3UM9|A Chain A, Crystal Structure Of The Defluorinating L-2-Haloacid
Dehalogenase Bpro0530
pdb|3UM9|B Chain B, Crystal Structure Of The Defluorinating L-2-Haloacid
Dehalogenase Bpro0530
Length = 230
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 29/122 (23%), Positives = 53/122 (43%), Gaps = 8/122 (6%)
Query: 158 ELINKRPFKVRTQFLDEAKKDAAIQPELLGPDNGGSGLLRLLEISNQKITAELDHSVSMD 217
E ++ PF Q L + + A ++ +L NG +R + + N +T DH +S+D
Sbjct: 91 EYLSLTPFADVPQALQQLRA-AGLKTAIL--SNGSRHSIRQV-VGNSGLTNSFDHLISVD 146
Query: 218 QLFGMNATTKIYRLEEIPQDEVSLDPDELL-IPVAHFQKDIHNIFGYPFLLRIKDNERFS 276
++ K+Y E+ D + L E+L + + FGYP + N F
Sbjct: 147 EVRLFKPHQKVY---ELAMDTLHLGESEILFVSCNSWDATGAKYFGYPVCWINRSNGVFD 203
Query: 277 KV 278
++
Sbjct: 204 QL 205
>pdb|1R8W|A Chain A, Native Structure Of The B12-Independent Glycerol
Dehydratase From Clostridium Butyricum
pdb|1R8W|B Chain B, Native Structure Of The B12-Independent Glycerol
Dehydratase From Clostridium Butyricum
pdb|1R9D|A Chain A, Glycerol Bound Form Of The B12-Independent Glycerol
Dehydratase From Clostridium Butyricum
pdb|1R9D|B Chain B, Glycerol Bound Form Of The B12-Independent Glycerol
Dehydratase From Clostridium Butyricum
pdb|1R9E|A Chain A, Structure Of The B12-Independent Glycerol Dehydratase With
1,2-Propanediol Bound
pdb|1R9E|B Chain B, Structure Of The B12-Independent Glycerol Dehydratase With
1,2-Propanediol Bound
Length = 787
Score = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 23/109 (21%), Positives = 46/109 (42%)
Query: 273 ERFSKVKERLAKKLNIQEKEFEKVRVQDKIHPGRESNPWPSAYMANAPPSKSNPDELLIP 332
+ ++ +R I E+ EK++ + G+ ++ ++YM N D +
Sbjct: 96 DELDRLNKRTGDAFQISEESKEKLKDVFEYWNGKTTSELATSYMTEETREAVNCDVFTVG 155
Query: 333 VAHFQKDIHNIFGYPFLLRIKDNERFSKVKERLAKKLNIQEKEFEKYKF 381
++ H Y +LR+ N ++ KE+L K +I +K KF
Sbjct: 156 NYYYNGVGHVSVDYGKVLRVGFNGIINEAKEQLEKNRSIDPDFIKKEKF 204
>pdb|1JRL|A Chain A, Crystal Structure Of E. Coli Lysophospholiase L1ACYL-Coa
Thioesterase IPROTEASE I L109P MUTANT
pdb|1V2G|A Chain A, The L109p Mutant Of E. Coli Thioesterase IPROTEASE
ILYSOPHOSPHOLIPASE L1 (TAP) IN COMPLEXED WITH OCTANOIC
Acid
Length = 190
Score = 30.0 bits (66), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 40/79 (50%), Gaps = 16/79 (20%)
Query: 255 KDIHNIFGYPFLLRIKD--------NERFSKVKERLAKKLNIQEKEF--EKVRVQ----- 299
+D+ P L++I+ NE FS + +LAK+ ++ F E+V ++
Sbjct: 93 QDVKAANAEPLLMQIRPPANYGRRYNEAFSAIYPKLAKEFDVPLLPFFMEEVYLKPQWMQ 152
Query: 300 -DKIHPGRESNPWPSAYMA 317
D IHP R++ P+ + +MA
Sbjct: 153 DDGIHPNRDAQPFIADWMA 171
>pdb|1IVN|A Chain A, E.Coli Thioesterase IPROTEASE ILYSOPHOSPHOLIASE L1
pdb|1U8U|A Chain A, E. Coli Thioesterase IPROTEASE ILYSOPHOSPHOLIASE L1 IN
COMPLEXED With Octanoic Acid
Length = 190
Score = 29.6 bits (65), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 40/79 (50%), Gaps = 16/79 (20%)
Query: 255 KDIHNIFGYPFLLRIK--------DNERFSKVKERLAKKLNIQEKEF--EKVRVQ----- 299
+D+ P L++I+ NE FS + +LAK+ ++ F E+V ++
Sbjct: 93 QDVKAANAEPLLMQIRLPANYGRRYNEAFSAIYPKLAKEFDVPLLPFFMEEVYLKPQWMQ 152
Query: 300 -DKIHPGRESNPWPSAYMA 317
D IHP R++ P+ + +MA
Sbjct: 153 DDGIHPNRDAQPFIADWMA 171
>pdb|1J00|A Chain A, E. Coli Thioesterase I/protease I/lysophospholipase L1 In
Complexed With Diethyl Phosphono Moiety
Length = 190
Score = 29.6 bits (65), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 40/79 (50%), Gaps = 16/79 (20%)
Query: 255 KDIHNIFGYPFLLRIK--------DNERFSKVKERLAKKLNIQEKEF--EKVRVQ----- 299
+D+ P L++I+ NE FS + +LAK+ ++ F E+V ++
Sbjct: 93 QDVKAANAEPLLMQIRLPANYGRRYNEAFSAIYPKLAKEFDVPLLPFFMEEVYLKPQWMQ 152
Query: 300 -DKIHPGRESNPWPSAYMA 317
D IHP R++ P+ + +MA
Sbjct: 153 DDGIHPNRDAQPFIADWMA 171
>pdb|1BJ7|A Chain A, Bovine Lipocalin Allergen Bos D 2
Length = 156
Score = 28.5 bits (62), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 27/51 (52%), Gaps = 6/51 (11%)
Query: 354 DNERFSKVKERLAKKLNIQEKEFEKYK-----FGVINNNRITYIEEDSDCP 399
D ER +K+ E LAK + +E EKY+ GV N N I+ D +CP
Sbjct: 106 DGERITKMTEGLAKGTSFTPEELEKYQQLNSERGVPNENIENLIKTD-NCP 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
0.318 0.137 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,897,388
Number of Sequences: 62578
Number of extensions: 622101
Number of successful extensions: 1329
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1312
Number of HSP's gapped (non-prelim): 24
length of query: 443
length of database: 14,973,337
effective HSP length: 102
effective length of query: 341
effective length of database: 8,590,381
effective search space: 2929319921
effective search space used: 2929319921
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)