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= psy9704
(116 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1SGM|A Chain A, Crystal Structure Of Hypothetical Protein Yxaf
pdb|1SGM|B Chain B, Crystal Structure Of Hypothetical Protein Yxaf
Length = 191
Score = 27.7 bits (60), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 27/61 (44%), Gaps = 2/61 (3%)
Query: 14 NVMEMVGIEGLTYAGNHGLEIIHPDGSRFVHPIPTECASIYILRTAFGLDWTERVKIIYA 73
N E + IE +TY G +I P+ E ++I +TA D TE +K I
Sbjct: 49 NGKEELAIEAVTYTGKIVEHLIQQSMDESSDPV--EAIQLFIKKTASQFDNTESIKGIPV 106
Query: 74 G 74
G
Sbjct: 107 G 107
>pdb|2LAK|A Chain A, Solution Nmr Structure Of The Ahsa1-Like Protein
Rhe_ch02687 (1-152) From Rhizobium Etli, Northeast
Structural Genomics Consortium Target Rer242
Length = 160
Score = 27.3 bits (59), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 20/90 (22%), Positives = 40/90 (44%), Gaps = 5/90 (5%)
Query: 11 NVHNVMEMVGIEGLTYAGNHGLEIIHPDGSRFVHPIPTECASIYILRTAFGLDWTERVKI 70
+ ++ +G E GL +++ G+RF E ++ L +FG D +E +
Sbjct: 30 DPEKILRWMGTEAEVEPEPGGLYLVNVTGARFARGSFREVVPVHRLAYSFGWDGSE---V 86
Query: 71 IYAGDDVTDEDAMEALKGMAATFRVTQSQI 100
+ G + + D +E +G R+T S +
Sbjct: 87 VPPGSSLVEIDLIE--QGGGTLLRLTHSGL 114
>pdb|3IF4|A Chain A, Structure From The Mobile Metagenome Of North West Arm
Sewage Outfall: Integron Cassette Protein Hfx_cass5
pdb|3IF4|B Chain B, Structure From The Mobile Metagenome Of North West Arm
Sewage Outfall: Integron Cassette Protein Hfx_cass5
pdb|3IF4|C Chain C, Structure From The Mobile Metagenome Of North West Arm
Sewage Outfall: Integron Cassette Protein Hfx_cass5
pdb|3IF4|D Chain D, Structure From The Mobile Metagenome Of North West Arm
Sewage Outfall: Integron Cassette Protein Hfx_cass5
Length = 119
Score = 26.9 bits (58), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 25/56 (44%), Gaps = 2/56 (3%)
Query: 20 GIEGLTYAG--NHGLEIIHPDGSRFVHPIPTECASIYILRTAFGLDWTERVKIIYA 73
G E L + G + I DG+ +H P E YI R A + W E + +++
Sbjct: 13 GRENLYFQGXKQEFVAAIEIDGTGRIHVTPGESQFPYIYREAXEVSWNESTRSLHS 68
>pdb|1WDK|A Chain A, Fatty Acid Beta-Oxidation Multienzyme Complex From
Pseudomonas Fragi, Form I (Native2)
pdb|1WDK|B Chain B, Fatty Acid Beta-Oxidation Multienzyme Complex From
Pseudomonas Fragi, Form I (Native2)
pdb|1WDL|A Chain A, Fatty Acid Beta-Oxidation Multienzyme Complex From
Pseudomonas Fragi, Form Ii (Native4)
pdb|1WDL|B Chain B, Fatty Acid Beta-Oxidation Multienzyme Complex From
Pseudomonas Fragi, Form Ii (Native4)
pdb|1WDM|A Chain A, Fatty Acid Beta-Oxidation Multienzyme Complex From
Pseudomonas Fragi, Form I (Native3)
pdb|1WDM|B Chain B, Fatty Acid Beta-Oxidation Multienzyme Complex From
Pseudomonas Fragi, Form I (Native3)
pdb|2D3T|A Chain A, Fatty Acid Beta-Oxidation Multienzyme Complex From
Pseudomonas Fragi, Form V
pdb|2D3T|B Chain B, Fatty Acid Beta-Oxidation Multienzyme Complex From
Pseudomonas Fragi, Form V
Length = 715
Score = 26.6 bits (57), Expect = 4.1, Method: Composition-based stats.
Identities = 16/39 (41%), Positives = 21/39 (53%), Gaps = 2/39 (5%)
Query: 70 IIYAGDDVTDEDAME--ALKGMAATFRVTQSQIVKTAAE 106
I+Y DVTDED + + T R + IV+TAAE
Sbjct: 615 IVYEQRDVTDEDIINWMMIPLCLETVRCLEDGIVETAAE 653
>pdb|1WKV|A Chain A, Crystal Structure Of O-Phosphoserine Sulfhydrylase
pdb|1WKV|B Chain B, Crystal Structure Of O-Phosphoserine Sulfhydrylase
pdb|3VSA|A Chain A, Crystal Structure Of O-Phosphoserine Sulfhydrylase Without
Acetate
pdb|3VSA|B Chain B, Crystal Structure Of O-Phosphoserine Sulfhydrylase Without
Acetate
Length = 389
Score = 26.2 bits (56), Expect = 4.6, Method: Composition-based stats.
Identities = 26/83 (31%), Positives = 37/83 (44%), Gaps = 2/83 (2%)
Query: 9 GRNVHNVMEMVGIEGLTYAGNHGLEIIHPDGSRFVHPIPTECASIY-ILRTAFGLDWTER 67
G + V +G G A L+ + P R V P + SI I R G+ W
Sbjct: 250 GLALRGVAGSLGTSGHMSAAAFYLQSVDPS-IRAVLVQPAQGDSIPGIRRVETGMLWINM 308
Query: 68 VKIIYAGDDVTDEDAMEALKGMA 90
+ I Y +VT E+AMEA+ +A
Sbjct: 309 LDISYTLAEVTLEEAMEAVVEVA 331
>pdb|3VSC|A Chain A, Crystal Structure Of The K127a Mutant Of O-Phosphoserine
Sulfhydrylase Complexed With External Schiff Base Of
Pyridoxal 5'-Phosphate With O- Phospho-L-Serine
pdb|3VSC|B Chain B, Crystal Structure Of The K127a Mutant Of O-Phosphoserine
Sulfhydrylase Complexed With External Schiff Base Of
Pyridoxal 5'-Phosphate With O- Phospho-L-Serine
pdb|3VSD|A Chain A, Crystal Structure Of The K127a Mutant Of O-Phosphoserine
Sulfhydrylase Complexed With External Schiff Base Of
Pyridoxal 5'-Phosphate With O- Acetyl-L-Serine
pdb|3VSD|B Chain B, Crystal Structure Of The K127a Mutant Of O-Phosphoserine
Sulfhydrylase Complexed With External Schiff Base Of
Pyridoxal 5'-Phosphate With O- Acetyl-L-Serine
Length = 389
Score = 26.2 bits (56), Expect = 4.7, Method: Composition-based stats.
Identities = 26/83 (31%), Positives = 37/83 (44%), Gaps = 2/83 (2%)
Query: 9 GRNVHNVMEMVGIEGLTYAGNHGLEIIHPDGSRFVHPIPTECASIY-ILRTAFGLDWTER 67
G + V +G G A L+ + P R V P + SI I R G+ W
Sbjct: 250 GLALRGVAGSLGTSGHMSAAAFYLQSVDPS-IRAVLVQPAQGDSIPGIRRVETGMLWINM 308
Query: 68 VKIIYAGDDVTDEDAMEALKGMA 90
+ I Y +VT E+AMEA+ +A
Sbjct: 309 LDISYTLAEVTLEEAMEAVVEVA 331
>pdb|4FOM|A Chain A, Crystal Structure Of Human Nectin-3 Full Ectodomain
(D1-D3)
Length = 308
Score = 25.4 bits (54), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 11/35 (31%), Positives = 16/35 (45%)
Query: 41 RFVHPIPTECASIYILRTAFGLDWTERVKIIYAGD 75
FVHP+ + +YI + L K+IY D
Sbjct: 266 HFVHPLTFNYSGVYICKVTNSLGQRSDQKVIYISD 300
>pdb|2GEE|A Chain A, Crystal Structure Of Human Type Iii Fibronectin
Extradomain B And Domain 8
Length = 203
Score = 25.4 bits (54), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 24/50 (48%), Gaps = 9/50 (18%)
Query: 37 PDGSRFVHPIPTECASIYILRTAFGLDWTE---------RVKIIYAGDDV 77
P GS P PT+ + + I ++ GL WT R+ ++ AG+ +
Sbjct: 16 PRGSHMEVPQPTDLSFVDITDSSIGLRWTPLNSSTIIGYRITVVAAGEGI 65
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 0.136 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,396,357
Number of Sequences: 62578
Number of extensions: 126772
Number of successful extensions: 295
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 289
Number of HSP's gapped (non-prelim): 9
length of query: 116
length of database: 14,973,337
effective HSP length: 79
effective length of query: 37
effective length of database: 10,029,675
effective search space: 371097975
effective search space used: 371097975
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: 45 (21.9 bits)