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= 027965
(216 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2PW6|A Chain A, Crystal Structure Of Uncharacterized Protein Jw3007 From
Escherichia Coli K12
Length = 271
Score = 143 bits (361), Expect = 6e-35, Method: Compositional matrix adjust.
Identities = 77/207 (37%), Positives = 120/207 (57%), Gaps = 11/207 (5%)
Query: 8 VIAAKSRLSVMDTFFISHGSPTLSIDESLPARGFLQAWQAKVFS-QRPNSILVISAHWDT 66
+I + +R + F+ HGSP ++++L + ++WQ + RP +I+V+SAHW T
Sbjct: 8 IIXSSTRXPAL---FLGHGSPXNVLEDNL----YTRSWQKLGXTLPRPQAIVVVSAHWFT 60
Query: 67 DFPSVNVVQRNDTIHDFYGFPKQMYDLKYPAPGAPELAKRVKDLLKASGIKHVNEDRKRG 126
V + TIHDF GFP+ +YD YPAPG+P LA+R+ +LL I + G
Sbjct: 61 RGTGVTAXETPPTIHDFGGFPQALYDTHYPAPGSPALAQRLVELLAP--IPVTLDKEAWG 118
Query: 127 LDHGAWVPLMLMYPEADIPVCQLSVQMHHTGTYHYNIGKALAPLKEEGVLIIGSGSATHN 186
DHG+W L+ YP+ADIP QLS+ +H+ G+ LA L++EG+ ++ SG+ HN
Sbjct: 119 FDHGSWGVLIKXYPDADIPXVQLSIDSSKPAAWHFEXGRKLAALRDEGIXLVASGNVVHN 178
Query: 187 LRALQFES-SSISSWALEFDNWLKDAL 212
LR +++ SS WA F+ ++K L
Sbjct: 179 LRTVKWHGDSSPYPWATSFNEYVKANL 205
>pdb|3VSG|B Chain B, Crystal Structure Of Iron Free 1,6-apd,
2-animophenol-1,6-dioxygenase
pdb|3VSG|D Chain D, Crystal Structure Of Iron Free 1,6-apd,
2-animophenol-1,6-dioxygenase
pdb|3VSH|B Chain B, Crystal Structure Of Native 1,6-apd (with Iron),
2-animophenol-1,6- Dioxygenase
pdb|3VSH|D Chain D, Crystal Structure Of Native 1,6-apd (with Iron),
2-animophenol-1,6- Dioxygenase
pdb|3VSI|B Chain B, Crystal Structure Of Native 1,6-apd
(2-animophenol-1,6-dioxygenase) Complex With
4-nitrocatechol
pdb|3VSI|D Chain D, Crystal Structure Of Native 1,6-apd
(2-animophenol-1,6-dioxygenase) Complex With
4-nitrocatechol
pdb|3VSJ|B Chain B, Crystal Structure Of 1,6-apd
(2-animophenol-1,6-dioxygenase) Complexed With
Intermediate Products
pdb|3VSJ|D Chain D, Crystal Structure Of 1,6-apd
(2-animophenol-1,6-dioxygenase) Complexed With
Intermediate Products
Length = 312
Score = 28.9 bits (63), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 38/164 (23%), Positives = 69/164 (42%), Gaps = 31/164 (18%)
Query: 51 SQRPNSILVISAHWDTDFPSVNVVQRNDTIHDFYGFPK-----------QMYDLKYPAPG 99
+ +P+ +LV S HW T SV H F G P+ ++ +
Sbjct: 50 AMKPDVLLVHSPHWIT---SVG--------HHFLGVPELSGKSVDPIFPNVFRYDFSLNV 98
Query: 100 APELAKRVKDLLKASG-IKHVNEDRKRGLDHGAWVPLMLMYPEADIPVCQLSVQMHHTGT 158
ELA+ + + +G + + + K +D+G L L+ P+ DIPV +S +
Sbjct: 99 DVELAEACAEEGRKAGLVTKMMRNPKFRVDYGTITTLHLIRPQWDIPVVGISA---NNSP 155
Query: 159 YHYNIGKALAPLKEEGVLIIGSGSATHNL--RALQFESSSISSW 200
Y+ N + ++ E VL + A +A+ S+++S W
Sbjct: 156 YYLNTKEGMS---EMDVLGKATREAIRKTGRKAVLLASNTLSHW 196
>pdb|2FA8|A Chain A, Crystal Structure Of The Putative Selenoprotein W-Related
Family Protein From Agrobacterium Tumefaciens
pdb|2FA8|B Chain B, Crystal Structure Of The Putative Selenoprotein W-Related
Family Protein From Agrobacterium Tumefaciens
pdb|2FA8|C Chain C, Crystal Structure Of The Putative Selenoprotein W-Related
Family Protein From Agrobacterium Tumefaciens
pdb|2FA8|D Chain D, Crystal Structure Of The Putative Selenoprotein W-Related
Family Protein From Agrobacterium Tumefaciens
Length = 105
Score = 28.1 bits (61), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 21/35 (60%), Gaps = 1/35 (2%)
Query: 98 PGAPELAKRVKDLLK-ASGIKHVNEDRKRGLDHGA 131
PG EL +R++DL+ + HV+ + GLD G+
Sbjct: 71 PGPKELKQRIRDLIDPERDLGHVDRTKHEGLDTGS 105
>pdb|3I2V|A Chain A, Crystal Structure Of Human Mocs3 Rhodanese-Like Domain
Length = 127
Score = 27.7 bits (60), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 21/33 (63%)
Query: 122 DRKRGLDHGAWVPLMLMYPEADIPVCQLSVQMH 154
D KR LD GA+ L+ + P+ ++ +C+L +H
Sbjct: 7 DYKRLLDSGAFHLLLDVRPQVEVDICRLPHALH 39
>pdb|2H6C|A Chain A, Crystal Structure Of Reduced Cprk In Absence Of Any Ligand
pdb|2H6C|B Chain B, Crystal Structure Of Reduced Cprk In Absence Of Any Ligand
Length = 232
Score = 27.3 bits (59), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 141 EADIPVCQLSVQMHHTGTYHYNIGKALAPLKEEGVL 176
E +P+ Q S+ TG +H + K LA LK+E +L
Sbjct: 173 EITMPLSQKSIG-EITGAHHVTVSKVLACLKKENIL 207
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
0.320 0.135 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,022,403
Number of Sequences: 62578
Number of extensions: 290009
Number of successful extensions: 767
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 764
Number of HSP's gapped (non-prelim): 9
length of query: 216
length of database: 14,973,337
effective HSP length: 95
effective length of query: 121
effective length of database: 9,028,427
effective search space: 1092439667
effective search space used: 1092439667
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: 49 (23.5 bits)