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= 033067
(128 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2WSF|K Chain K, Improved Model Of Plant Photosystem I
Length = 131
Score = 134 bits (338), Expect = 9e-33, Method: Compositional matrix adjust.
Identities = 71/105 (67%), Positives = 84/105 (80%), Gaps = 5/105 (4%)
Query: 3 TSLMTMPQFSGLRPQISAAPAQSLVAAQPMRRKCSGALGARCGFIGSPTNLIMVTTTTLM 62
+++ ++PQF GLR + + +S+ +RR+ S G RC +IGS TNLIMVTTTTLM
Sbjct: 6 SAMTSVPQFHGLR---TYSSPRSMATLPSLRRRRS--QGIRCDYIGSSTNLIMVTTTTLM 60
Query: 63 LFAGRFGLAPSANRKATAGLKLEVRDSGLQTGDPAGFTLADTLAC 107
LFAGRFGLAPSANRKATAGLKLE R+SGLQTGDPAGFTLADTLAC
Sbjct: 61 LFAGRFGLAPSANRKATAGLKLEARESGLQTGDPAGFTLADTLAC 105
>pdb|2WSC|K Chain K, Improved Model Of Plant Photosystem I
pdb|2WSE|K Chain K, Improved Model Of Plant Photosystem I
Length = 131
Score = 134 bits (337), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 70/105 (66%), Positives = 84/105 (80%), Gaps = 5/105 (4%)
Query: 3 TSLMTMPQFSGLRPQISAAPAQSLVAAQPMRRKCSGALGARCGFIGSPTNLIMVTTTTLM 62
+++ ++PQF GLR + + +S+ +RR+ S G RC +IGS TNLIMVTTTTLM
Sbjct: 6 SAMTSVPQFHGLR---TYSSPRSMATLPSLRRRRS--QGIRCDYIGSSTNLIMVTTTTLM 60
Query: 63 LFAGRFGLAPSANRKATAGLKLEVRDSGLQTGDPAGFTLADTLAC 107
LFAGRFGLAPSANRKATAGLKLE R+SG+QTGDPAGFTLADTLAC
Sbjct: 61 LFAGRFGLAPSANRKATAGLKLEARESGIQTGDPAGFTLADTLAC 105
>pdb|3LW5|K Chain K, Improved Model Of Plant Photosystem I
Length = 84
Score = 123 bits (309), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 60/62 (96%), Positives = 62/62 (100%)
Query: 46 FIGSPTNLIMVTTTTLMLFAGRFGLAPSANRKATAGLKLEVRDSGLQTGDPAGFTLADTL 105
FIGSPTNLIMVT+T+LMLFAGRFGLAPSANRKATAGLKLEVRDSGLQTGDPAGFTLADTL
Sbjct: 2 FIGSPTNLIMVTSTSLMLFAGRFGLAPSANRKATAGLKLEVRDSGLQTGDPAGFTLADTL 61
Query: 106 AC 107
AC
Sbjct: 62 AC 63
>pdb|2Y4D|A Chain A, X-Ray Crystallographic Structure Of E. Coli Apo-Efeb
pdb|2Y4D|B Chain B, X-Ray Crystallographic Structure Of E. Coli Apo-Efeb
pdb|2Y4E|A Chain A, X-Ray Crystallographic Structure Of E. Coli Ppix-Efeb
pdb|2Y4E|B Chain B, X-Ray Crystallographic Structure Of E. Coli Ppix-Efeb
Length = 403
Score = 29.6 bits (65), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 23/41 (56%), Gaps = 4/41 (9%)
Query: 37 SGALGARCGFIGSPTNLIMVTTTTLMLFAGRFGLAPSANRK 77
SG LG G+I +P NL + + LF RFGLAP +K
Sbjct: 100 SGILG---GYI-APDNLTITLSVGHSLFDERFGLAPQMPKK 136
>pdb|2Y4F|A Chain A, X-Ray Crystallographic Structure Of E. Coli Heme-Efeb
pdb|2Y4F|B Chain B, X-Ray Crystallographic Structure Of E. Coli Heme-Efeb
Length = 392
Score = 29.6 bits (65), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 23/41 (56%), Gaps = 4/41 (9%)
Query: 37 SGALGARCGFIGSPTNLIMVTTTTLMLFAGRFGLAPSANRK 77
SG LG G+I +P NL + + LF RFGLAP +K
Sbjct: 89 SGILG---GYI-APDNLTITLSVGHSLFDERFGLAPQMPKK 125
>pdb|3O72|A Chain A, Crystal Structure Of Efeb In Complex With Heme
pdb|3O72|B Chain B, Crystal Structure Of Efeb In Complex With Heme
pdb|3O72|C Chain C, Crystal Structure Of Efeb In Complex With Heme
pdb|3O72|D Chain D, Crystal Structure Of Efeb In Complex With Heme
Length = 396
Score = 28.5 bits (62), Expect = 1.2, Method: Composition-based stats.
Identities = 18/41 (43%), Positives = 23/41 (56%), Gaps = 4/41 (9%)
Query: 37 SGALGARCGFIGSPTNLIMVTTTTLMLFAGRFGLAPSANRK 77
SG LG G+I +P NL + + LF RFGLAP +K
Sbjct: 85 SGILG---GYI-APDNLTITLSVGHSLFDERFGLAPQXPKK 121
>pdb|2WSC|G Chain G, Improved Model Of Plant Photosystem I
pdb|2WSE|G Chain G, Improved Model Of Plant Photosystem I
pdb|2WSF|G Chain G, Improved Model Of Plant Photosystem I
Length = 167
Score = 25.4 bits (54), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 30/72 (41%), Gaps = 15/72 (20%)
Query: 49 SPTNLIMVTTTTLMLFAGRFGL-----------APSAN---RKATAGLKLEVRDSGLQTG 94
SP+ L++ +T L LF GRF P N + + S L++
Sbjct: 72 SPS-LVISLSTGLSLFLGRFVFFNFQRENMAKQVPEQNGMSHFEAGDTRAKEYVSLLKSN 130
Query: 95 DPAGFTLADTLA 106
DP GF + D LA
Sbjct: 131 DPVGFNIVDVLA 142
>pdb|3LGW|A Chain A, H198pT167V DOUBLE MUTANT OF DEGS-Deltapdz Protease
Length = 241
Score = 25.4 bits (54), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 16/27 (59%)
Query: 47 IGSPTNLIMVTTTTLMLFAGRFGLAPS 73
IG+P NL V T ++ GR GL P+
Sbjct: 143 IGNPYNLGQVITQGIISATGRIGLNPT 169
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 0.132 0.385
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,679,357
Number of Sequences: 62578
Number of extensions: 88223
Number of successful extensions: 180
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 176
Number of HSP's gapped (non-prelim): 15
length of query: 128
length of database: 14,973,337
effective HSP length: 87
effective length of query: 41
effective length of database: 9,529,051
effective search space: 390691091
effective search space used: 390691091
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)