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= 036778
(145 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1LYN|A Chain A, Crystal Structure And Subunit Dynamics Of The Lysin Dimer:
Egg Envelopes Dissociate Dimers, The Monomer Is The
Active Species
pdb|1LYN|B Chain B, Crystal Structure And Subunit Dynamics Of The Lysin Dimer:
Egg Envelopes Dissociate Dimers, The Monomer Is The
Active Species
pdb|2LIS|A Chain A, High Resolution Structure Of The Red Abalone Lysin Monomer
pdb|2LYN|A Chain A, High Resolution Structure Of Red Abalone Lysin Dimer
pdb|2LYN|B Chain B, High Resolution Structure Of Red Abalone Lysin Dimer
pdb|2LYN|C Chain C, High Resolution Structure Of Red Abalone Lysin Dimer
pdb|2LYN|D Chain D, High Resolution Structure Of Red Abalone Lysin Dimer
pdb|1LIS|A Chain A, The Crystal Structure Of A Fertilization Protein
Length = 136
Score = 31.6 bits (70), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 36/80 (45%), Gaps = 1/80 (1%)
Query: 8 GSTAIAYYASSIFDVASNKLSTKFGNFRISILRHIQSLFQVPVVGSSVLLADKFGRRPLL 67
G T +++ V + T + N+ + I + I +L + PVVG L + GRR +
Sbjct: 39 GRTLSTVQKKALYFVNRRYMQTHWANYMLWINKKIDALGRTPVVGDYTRLGAEIGRR-ID 97
Query: 68 LGYTITFSKGMVRLPNLIMF 87
+ Y F K +P + +
Sbjct: 98 MAYFYDFLKDKNMIPKYLPY 117
>pdb|4GBY|A Chain A, The Structure Of The Mfs (Major Facilitator Superfamily)
Proton:xylose Symporter Xyle Bound To D-Xylose
pdb|4GBZ|A Chain A, The Structure Of The Mfs (Major Facilitator Superfamily)
Proton:xylose Symporter Xyle Bound To D-Glucose
pdb|4GC0|A Chain A, The Structure Of The Mfs (Major Facilitator Superfamily)
Proton:xylose Symporter Xyle Bound To
6-Bromo-6-Deoxy-D-Glucose
Length = 491
Score = 28.5 bits (62), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 44/196 (22%), Positives = 70/196 (35%), Gaps = 66/196 (33%)
Query: 2 LMQTLGGSTAIAYYASSIFDVASNKLSTKFGNFRISILRHIQSLFQVPVVGSSVLLADKF 61
+ Q G + YYA +F ST + I+ I F V +++ DKF
Sbjct: 286 IFQQFVGINVVLYYAPEVFKTLGA--STDIALLQTIIVGVINLTFTV----LAIMTVDKF 339
Query: 62 GRRPL----LLGYTI----------TFSKGMVRLPNLIMF-----------------ETF 90
GR+PL LG I T + G+V L +++ + E F
Sbjct: 340 GRKPLQIIGALGMAIGMFSLGTAFYTQAPGIVALLSMLFYVAAFAMSWGPVCWVLLSEIF 399
Query: 91 SINIKGSAGSLVTFLHNNSNSLVAYAFNFMIE---------------------------- 122
I+G A ++ +N V++ F M +
Sbjct: 400 PNAIRGKALAIAVAAQWLANYFVSWTFPMMDKNSWLVAHFHNGFSYWIYGCMGVLAALFM 459
Query: 123 WSTI-ETKGRTLEEIQ 137
W + ETKG+TLEE++
Sbjct: 460 WKFVPETKGKTLEELE 475
>pdb|3PJZ|A Chain A, Crystal Structure Of The Potassium Transporter Trkh From
Vibrio Parahaemolyticus
pdb|3PJZ|B Chain B, Crystal Structure Of The Potassium Transporter Trkh From
Vibrio Parahaemolyticus
Length = 494
Score = 26.6 bits (57), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 25/95 (26%), Positives = 41/95 (43%), Gaps = 25/95 (26%)
Query: 70 YTITFSKGMVRLPN---------------LIMFETFSINIKGSAGSLVTFLHNNSNSLVA 114
+ + F M PN +++F T + GSAGSL + +N N V
Sbjct: 44 FVLLFCGAMCWFPNRRHKHELKSRDGFLIVVLFWT----VLGSAGSLPFLIADNPNISVT 99
Query: 115 YAFNFMIEWSTIETKGRT----LEEIQRSIIKFSQ 145
A F +S + T G T L+E+ ++I+ + Q
Sbjct: 100 DA--FFESFSALTTTGATVIVGLDELPKAILFYRQ 132
>pdb|2EC8|A Chain A, Crystal Structure Of The Exctracellular Domain Of The
Receptor Tyrosine Kinase, Kit
Length = 524
Score = 26.2 bits (56), Expect = 6.9, Method: Composition-based stats.
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 94 IKGSAGSLVTFLHNNSNSLVAYAFNFMI 121
+KG+ G TFL +NS+ A AFN +
Sbjct: 382 LKGTEGGTYTFLVSNSDVNAAIAFNVYV 409
>pdb|2E9W|A Chain A, Crystal Structure Of The Extracellular Domain Of Kit In
Complex With Stem Cell Factor (Scf)
pdb|2E9W|B Chain B, Crystal Structure Of The Extracellular Domain Of Kit In
Complex With Stem Cell Factor (Scf)
Length = 489
Score = 26.2 bits (56), Expect = 6.9, Method: Composition-based stats.
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 94 IKGSAGSLVTFLHNNSNSLVAYAFNFMI 121
+KG+ G TFL +NS+ A AFN +
Sbjct: 357 LKGTEGGTYTFLVSNSDVNAAIAFNVYV 384
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
0.324 0.136 0.381
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,615,020
Number of Sequences: 62578
Number of extensions: 122543
Number of successful extensions: 296
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 292
Number of HSP's gapped (non-prelim): 6
length of query: 145
length of database: 14,973,337
effective HSP length: 89
effective length of query: 56
effective length of database: 9,403,895
effective search space: 526618120
effective search space used: 526618120
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 47 (22.7 bits)