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= 041015
(211 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2GCC|A Chain A, Solution Structure Of The Gcc-Box Binding Domain, Nmr,
Minimized Mean Structure
pdb|3GCC|A Chain A, Solution Structure Of The Gcc-Box Binding Domain, Nmr, 46
Structures
Length = 70
Score = 68.9 bits (167), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 34/58 (58%), Positives = 42/58 (72%), Gaps = 1/58 (1%)
Query: 61 YRGVRMRSWGKWVSEIRQPRK-KSRIWLGSFPTAEMAARAHDVAALAIKGHSAHLNFP 117
YRGVR R WGK+ +EIR P K +R+WLG+F TAE AA A+D AA ++G A LNFP
Sbjct: 6 YRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFP 63
>pdb|1GCC|A Chain A, Solution Nmr Structure Of The Complex Of Gcc-Box Binding
Domain Of Aterf1 And Gcc-Box Dna, Minimized Average
Structure
Length = 63
Score = 67.8 bits (164), Expect = 4e-12, Method: Composition-based stats.
Identities = 34/58 (58%), Positives = 42/58 (72%), Gaps = 1/58 (1%)
Query: 61 YRGVRMRSWGKWVSEIRQPRKK-SRIWLGSFPTAEMAARAHDVAALAIKGHSAHLNFP 117
YRGVR R WGK+ +EIR P K +R+WLG+F TAE AA A+D AA ++G A LNFP
Sbjct: 3 YRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFP 60
>pdb|2PEM|A Chain A, Crystal Structure Of Rbcx In Complex With Substrate
pdb|2PEM|B Chain B, Crystal Structure Of Rbcx In Complex With Substrate
pdb|2PEM|C Chain C, Crystal Structure Of Rbcx In Complex With Substrate
pdb|2PEM|D Chain D, Crystal Structure Of Rbcx In Complex With Substrate
pdb|2PEM|E Chain E, Crystal Structure Of Rbcx In Complex With Substrate
pdb|2PEM|F Chain F, Crystal Structure Of Rbcx In Complex With Substrate
pdb|2PEN|A Chain A, Crystal Structure Of Rbcx, Crystal Form I
pdb|2PEN|B Chain B, Crystal Structure Of Rbcx, Crystal Form I
pdb|2PEN|C Chain C, Crystal Structure Of Rbcx, Crystal Form I
pdb|2PEN|D Chain D, Crystal Structure Of Rbcx, Crystal Form I
pdb|2PEN|E Chain E, Crystal Structure Of Rbcx, Crystal Form I
pdb|2PEN|F Chain F, Crystal Structure Of Rbcx, Crystal Form I
pdb|2PEQ|A Chain A, Crystal Structure Of Rbcx, Crystal Form Ii
pdb|2PEQ|B Chain B, Crystal Structure Of Rbcx, Crystal Form Ii
pdb|2Z45|A Chain A, Crystal Structure Of Zn-bound Orf134
pdb|2Z45|B Chain B, Crystal Structure Of Zn-bound Orf134
pdb|2Z46|A Chain A, Crystal Structure Of Native-Orf134
pdb|2Z46|B Chain B, Crystal Structure Of Native-Orf134
pdb|2Z46|C Chain C, Crystal Structure Of Native-Orf134
pdb|2Z46|D Chain D, Crystal Structure Of Native-Orf134
pdb|2Z46|E Chain E, Crystal Structure Of Native-Orf134
pdb|2Z46|F Chain F, Crystal Structure Of Native-Orf134
Length = 134
Score = 30.0 bits (66), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 5/46 (10%)
Query: 45 KKICNNGANALNKYPTYRGVRMRSWGKWVSEIRQPRKKSRIWLGSF 90
KK+ A L Y TY+ VR+ S ++ + IWLG F
Sbjct: 4 KKVAKETAITLQSYLTYQAVRLIS-----QQLSETNPGQAIWLGEF 44
>pdb|2Z44|A Chain A, Crystal Structure Of Selenomethionine-Labeled Orf134
Length = 134
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 5/46 (10%)
Query: 45 KKICNNGANALNKYPTYRGVRMRSWGKWVSEIRQPRKKSRIWLGSF 90
KK+ A L Y TY+ VR+ S ++ + IWLG F
Sbjct: 4 KKVAKETAITLQSYLTYQAVRLIS-----QQLSETNPGQAIWLGEF 44
>pdb|2PEI|A Chain A, Crystal Structure Of Selenomethionine-Labeled Rbcx
pdb|2PEI|B Chain B, Crystal Structure Of Selenomethionine-Labeled Rbcx
pdb|2PEI|C Chain C, Crystal Structure Of Selenomethionine-Labeled Rbcx
pdb|2PEI|D Chain D, Crystal Structure Of Selenomethionine-Labeled Rbcx
pdb|2PEI|E Chain E, Crystal Structure Of Selenomethionine-Labeled Rbcx
pdb|2PEI|F Chain F, Crystal Structure Of Selenomethionine-Labeled Rbcx
pdb|2PEI|G Chain G, Crystal Structure Of Selenomethionine-Labeled Rbcx
pdb|2PEI|H Chain H, Crystal Structure Of Selenomethionine-Labeled Rbcx
pdb|2PEI|I Chain I, Crystal Structure Of Selenomethionine-Labeled Rbcx
pdb|2PEI|J Chain J, Crystal Structure Of Selenomethionine-Labeled Rbcx
pdb|2PEI|K Chain K, Crystal Structure Of Selenomethionine-Labeled Rbcx
pdb|2PEI|L Chain L, Crystal Structure Of Selenomethionine-Labeled Rbcx
Length = 109
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 5/46 (10%)
Query: 45 KKICNNGANALNKYPTYRGVRMRSWGKWVSEIRQPRKKSRIWLGSF 90
KK+ A L Y TY+ VR+ S ++ + IWLG F
Sbjct: 4 KKVAKETAITLQSYLTYQAVRLIS-----QQLSETNPGQAIWLGEF 44
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
0.313 0.128 0.391
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,733,766
Number of Sequences: 62578
Number of extensions: 141874
Number of successful extensions: 259
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 255
Number of HSP's gapped (non-prelim): 5
length of query: 211
length of database: 14,973,337
effective HSP length: 95
effective length of query: 116
effective length of database: 9,028,427
effective search space: 1047297532
effective search space used: 1047297532
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 49 (23.5 bits)