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= 036605
(340 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1M42|A Chain A, Solution Structure Of Apocopc From Pseudomonas Syringae
pdb|1OT4|A Chain A, Solution Structure Of Cu(Ii)-Copc From Pseudomonas
Syringae
pdb|1NM4|A Chain A, Solution Structure Of Cu(I)-Copc From Pseudomonas Syringae
pdb|2C9P|A Chain A, Cu(I)cu(Ii)-Copc At Ph 4.5
pdb|2C9P|B Chain B, Cu(I)cu(Ii)-Copc At Ph 4.5
pdb|2C9P|C Chain C, Cu(I)cu(Ii)-Copc At Ph 4.5
pdb|2C9Q|A Chain A, Cu(I)cu(Ii)-Copc At Ph 7.5
Length = 102
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 28/108 (25%), Positives = 44/108 (40%), Gaps = 30/108 (27%)
Query: 149 LKFSDDVGPLQYVSASDGAKIIITAGYGEKHLQVWRCDISSKTVNKGPALSMRHSPVAID 208
L FS+++ V+ GAK+++TA G M HSP+A+
Sbjct: 23 LHFSENL-----VTQFSGAKLVMTAMPG-----------------------MEHSPMAVK 54
Query: 209 CKNSPNGEDGTVILAVAESGVA--YSWDLKTVSQDEKTNPAKITVKLK 254
S G+ T+++ A A Y D + VS D +T K+K
Sbjct: 55 AAVSGGGDPKTMVITPASPLTAGTYKVDWRAVSSDTHPITGSVTFKVK 102
>pdb|2VID|A Chain A, Serine Protease Splb From Staphylococcus Aureus At 1.8a
Resolution
pdb|2VID|B Chain B, Serine Protease Splb From Staphylococcus Aureus At 1.8a
Resolution
Length = 204
Score = 29.3 bits (64), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 21/99 (21%), Positives = 45/99 (45%), Gaps = 8/99 (8%)
Query: 141 SLENGEEVLKFSDDVGPLQYVSASDGAKIIITAGYGEKHLQVWRCDISSKTVNKGPALSM 200
++E G + F+D+V P +Y + + + I GY + + S+ GP +S+
Sbjct: 87 AIERGPKGFNFNDNVTPFKYAAGAKAGERIKVIGYPHPYKNKYVLYEST-----GPVMSV 141
Query: 201 RHSPVAIDCKNSPNGEDGTVILAVAES--GVAYSWDLKT 237
S + ++ +G G+ +L G+ ++ D+K
Sbjct: 142 EGSSIVYSA-HTESGNSGSPVLNSNNELVGIHFASDVKN 179
>pdb|2E8G|A Chain A, The Structure Of Protein From P. Horikoshii At 1.7
Angstrom Resolution
pdb|2E8G|B Chain B, The Structure Of Protein From P. Horikoshii At 1.7
Angstrom Resolution
Length = 241
Score = 28.9 bits (63), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 19/29 (65%), Gaps = 2/29 (6%)
Query: 45 LALGTSNGDILAVDVLTGEMKWKSTGRHP 73
L LG N ++AVD++ GE+ S G+HP
Sbjct: 124 LKLGKINDPVIAVDIVVGEV--MSVGKHP 150
>pdb|2C9R|A Chain A, Apo-H91f Copc
Length = 102
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 28/108 (25%), Positives = 44/108 (40%), Gaps = 30/108 (27%)
Query: 149 LKFSDDVGPLQYVSASDGAKIIITAGYGEKHLQVWRCDISSKTVNKGPALSMRHSPVAID 208
L FS+++ V+ GAK+++TA G M HSP+A+
Sbjct: 23 LHFSENL-----VTQFSGAKLVMTAMPG-----------------------MEHSPMAVK 54
Query: 209 CKNSPNGEDGTVILAVAESGVA--YSWDLKTVSQDEKTNPAKITVKLK 254
S G+ T+++ A A Y D + VS D +T K+K
Sbjct: 55 AAVSGGGDPKTMVITPASPLTAGTYKVDWRAVSSDTFPITGSVTFKVK 102
>pdb|3FG6|A Chain A, Structure Of The C-terminus Of Adseverin
pdb|3FG6|C Chain C, Structure Of The C-terminus Of Adseverin
pdb|3FG6|G Chain G, Structure Of The C-terminus Of Adseverin
pdb|3FG6|E Chain E, Structure Of The C-terminus Of Adseverin
pdb|3FG6|F Chain F, Structure Of The C-terminus Of Adseverin
pdb|3FG6|H Chain H, Structure Of The C-terminus Of Adseverin
pdb|3FG6|D Chain D, Structure Of The C-terminus Of Adseverin
pdb|3FG6|B Chain B, Structure Of The C-terminus Of Adseverin
Length = 371
Score = 28.5 bits (62), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 29/60 (48%), Gaps = 1/60 (1%)
Query: 215 GEDGTVILAVAESG-VAYSWDLKTVSQDEKTNPAKITVKLKKADADQQNSVNVKKSRTSI 273
G D +IL G + Y+W ++DE T A +TV+L ++ Q + V + + +
Sbjct: 77 GGDCYIILYTYPRGQIIYTWQGANATRDELTTSAFLTVQLDRSLGGQAVQIRVSQGKEPV 136
>pdb|3IHJ|A Chain A, Human Alanine Aminotransferase 2 In Complex With Plp
Length = 498
Score = 28.1 bits (61), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 24/45 (53%)
Query: 251 VKLKKADADQQNSVNVKKSRTSIIAARLNDLEADGQKTITGLHDL 295
+ LK + + + +KK T +I A + D +A GQ+ IT L +
Sbjct: 43 IVLKAGEIELELQRGIKKPFTEVIRANIGDAQAMGQQPITFLRQV 87
>pdb|3J2K|X Chain X, Cryo-Em Structure Of The Mammalian Erf1-Erf3-Associated
Termination Complex
Length = 144
Score = 27.7 bits (60), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 25/42 (59%), Gaps = 3/42 (7%)
Query: 137 VRILSLENGEEVLKFSDDVGPLQYVSASDGAKIIITAGYGEK 178
VR+ ++NG++V F + G L +V +D ++ AG+G K
Sbjct: 71 VRVQLIKNGKKVTAFVPNDGCLNFVDENDE---VLLAGFGRK 109
>pdb|3IZB|L Chain L, Localization Of The Small Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O2Z|P Chain P, Yeast 80s Ribosome. This Entry Consists Of The 40s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O30|P Chain P, Yeast 80s Ribosome. This Entry Consists Of The 40s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3U5C|X Chain X, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome A
pdb|3U5G|X Chain X, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome B
Length = 145
Score = 27.7 bits (60), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 25/42 (59%), Gaps = 3/42 (7%)
Query: 137 VRILSLENGEEVLKFSDDVGPLQYVSASDGAKIIITAGYGEK 178
VR+ ++NG++V F + G L +V +D ++ AG+G K
Sbjct: 72 VRVQLIKNGKKVTAFVPNDGCLNFVDENDE---VLLAGFGRK 110
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
0.311 0.128 0.360
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,493,801
Number of Sequences: 62578
Number of extensions: 353472
Number of successful extensions: 774
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 772
Number of HSP's gapped (non-prelim): 17
length of query: 340
length of database: 14,973,337
effective HSP length: 99
effective length of query: 241
effective length of database: 8,778,115
effective search space: 2115525715
effective search space used: 2115525715
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 52 (24.6 bits)