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= 024990
(259 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3KKJ|A Chain A, X-Ray Structure Of P. Syringae Q888a4 Oxidoreductase At
Resolution 2.5a, Northeast Structural Genomics
Consortium Target Psr10
pdb|3KKJ|B Chain B, X-Ray Structure Of P. Syringae Q888a4 Oxidoreductase At
Resolution 2.5a, Northeast Structural Genomics
Consortium Target Psr10
Length = 336
Score = 93.6 bits (231), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 76/249 (30%), Positives = 121/249 (48%), Gaps = 29/249 (11%)
Query: 4 KYVGVPGMNSICKALCHQPGVESKFGVGVGRFEWLEDKNLWSVSGLDGQSLGQFNGVVAS 63
++VG PG ++I +A V + E + W++ +GQ+ G F+ V+
Sbjct: 102 RWVGKPGXSAITRAXRGDXPVSFSCRI----TEVFRGEEHWNLLDAEGQNHGPFSHVI-- 155
Query: 64 DKNVVSPRFRDVTGRPPPLDLTFAPDLAVKLEEIPVNPCFALMLAFSEPLSSIPVKGFSF 123
+ +P + T L AP LA + + +P +A+ LAF PL + P +G
Sbjct: 156 ---IATPAPQAST------LLAAAPKLASVVAGVKXDPTWAVALAFETPLQT-PXQGCFV 205
Query: 124 QDSEVLSWAHCDSSKPGRSANSERWVLHSTADYARTVIAQTGLQKPSEATLKKVAEEMFQ 183
QDS L W + SKP R + W+LH+T+ ++R + +A+ ++V E +
Sbjct: 206 QDSP-LDWLARNRSKPERDDTLDTWILHATSQWSRQNL---------DASREQVIEHLHG 255
Query: 184 EF-QGTGLSIPLPIFRKAHRWGSAFPAASIAKEERCLWDVKRRLAICGDFCVSPNVEGAI 242
F + + P P+F AHRW A PA A E L D + +CGD+C+S VEGA
Sbjct: 256 AFAELIDCTXPAPVFSLAHRWLYARPAG--AHEWGALSDADLGIYVCGDWCLSGRVEGAW 313
Query: 243 LSGLDAASK 251
LSG +AA +
Sbjct: 314 LSGQEAARR 322
>pdb|3QJ4|A Chain A, Crystal Structure Of Human Renalase (Isoform 1)
pdb|3QJ4|B Chain B, Crystal Structure Of Human Renalase (Isoform 1)
Length = 342
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 60/257 (23%), Positives = 96/257 (37%), Gaps = 42/257 (16%)
Query: 4 KYVGVPGMNSICKALCHQPGVESKFGVGVGRFEWLEDKNLWSVSGLDGQSLGQFNGVVAS 63
+V G++SI K + G E F V + +DK W VS G S QF+ +V +
Sbjct: 104 NFVAPQGISSIIKHYLKESGAEVYFRHRVTQINLRDDK--WEVSKQTG-SPEQFDLIVLT 160
Query: 64 DKNVVSPRFRDVTGRPPPLDLTFAPDLAV--------KLEEIPVNPCFALMLAFSEPLS- 114
P P L D+ +LE + + +AL L +
Sbjct: 161 --------------MPVPEILQLQGDITTLISECQRQQLEAVSYSSRYALGLFYEAGTKI 206
Query: 115 SIPVKGFSFQDSEVLSWAHCDSSKPGRSANSER----WVLHSTADYARTVIAQTGLQKPS 170
+P G + + + D+ K R+ S V+H+T + T +
Sbjct: 207 DVPWAGQYITSNPCIRFVSIDNKK--RNIESSEIGPSLVIHTTVPFGVTYL--------- 255
Query: 171 EATLKKVAEEMFQEFQGTGLSIPLPIFRKAHRW-GSAFPAASIAKEERCLWDVKRRLAIC 229
E +++ V E +FQ+ + +P PI K +W S A+ + K LA
Sbjct: 256 EHSIEDVQELVFQQLENILPGLPQPIATKCQKWRHSQVTNAAANCPGQMTLHHKPFLACG 315
Query: 230 GDFCVSPNVEGAILSGL 246
GD N +G I S L
Sbjct: 316 GDGFTQSNFDGCITSAL 332
>pdb|1GFF|1 Chain 1, The Atomic Structure Of The Degraded Procapsid Particle Of
The Bacteriophage G4: Induced Structural Changes In The
Presence Of Calcium Ions And Functional Implications
Length = 426
Score = 28.9 bits (63), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 16/29 (55%)
Query: 44 WSVSGLDGQSLGQFNGVVASDKNVVSPRF 72
+ V G D SLGQF+G V N PRF
Sbjct: 247 YDVDGTDQSSLGQFSGRVQQTFNHKVPRF 275
>pdb|2BPA|1 Chain 1, Atomic Structure Of Single-Stranded Dna Bacteriophage
Phix174 And Its Functional Implications
pdb|1AL0|F Chain F, Procapsid Of Bacteriophage Phix174
Length = 426
Score = 28.9 bits (63), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 16/35 (45%), Positives = 18/35 (51%), Gaps = 4/35 (11%)
Query: 42 NLWS----VSGLDGQSLGQFNGVVASDKNVVSPRF 72
NLW+ V G D SLGQF+G V PRF
Sbjct: 241 NLWASGYDVDGTDQTSLGQFSGRVQQTYKHSVPRF 275
>pdb|1CD3|F Chain F, Procapsid Of Bacteriophage Phix174
Length = 426
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 16/35 (45%), Positives = 18/35 (51%), Gaps = 4/35 (11%)
Query: 42 NLWS----VSGLDGQSLGQFNGVVASDKNVVSPRF 72
NLW+ V G D SLGQF+G V PRF
Sbjct: 241 NLWASGYDVDGTDQTSLGQFSGRVQQTYKHSVPRF 275
>pdb|1KVP|A Chain A, Structural Analysis Of The Spiroplasma Virus, Spv4,
Implications For Evolutionary Variation To Obtain Host
Diversity Among The Microviridae, Electron Microscopy,
Alpha Carbons Only
Length = 497
Score = 28.9 bits (63), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 16/35 (45%), Positives = 18/35 (51%), Gaps = 4/35 (11%)
Query: 42 NLWS----VSGLDGQSLGQFNGVVASDKNVVSPRF 72
NLW+ V G D SLGQF+G V PRF
Sbjct: 312 NLWASGYDVDGTDQTSLGQFSGRVQQTYKHSVPRF 346
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
0.319 0.135 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,042,858
Number of Sequences: 62578
Number of extensions: 328965
Number of successful extensions: 725
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 720
Number of HSP's gapped (non-prelim): 6
length of query: 259
length of database: 14,973,337
effective HSP length: 97
effective length of query: 162
effective length of database: 8,903,271
effective search space: 1442329902
effective search space used: 1442329902
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 50 (23.9 bits)