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= 044043
(428 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1SXJ|E Chain E, Crystal Structure Of The Eukaryotic Clamp Loader
(Replication Factor C, Rfc) Bound To The Dna Sliding
Clamp (Proliferating Cell Nuclear Antigen, Pcna)
Length = 354
Score = 32.7 bits (73), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 36/77 (46%), Gaps = 23/77 (29%)
Query: 213 RLYVQDWHKEKKQ----GFEKSKLADQCTHRYKIYVEGQAWSVS-----------EKY-- 255
R+ +Q+ KE Q F+ SK D HRYK + +A S++ EKY
Sbjct: 106 RIVIQELLKEVAQMEQVDFQDSK--DGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSK 163
Query: 256 ----ILACDSMTLLIEP 268
I+ CDSM+ +I P
Sbjct: 164 NIRLIMVCDSMSPIIAP 180
>pdb|2RLI|A Chain A, Solution Structure Of Cu(i) Human Sco2
Length = 171
Score = 31.6 bits (70), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 28/65 (43%), Gaps = 2/65 (3%)
Query: 215 YVQDWHKEKKQGFEKSKLADQCTHRYKIYVEGQAWSVSEKYILACDSMTLLIEPK--YYD 272
YVQD+H +K Q +H Y++Y + YI+ L+ P + D
Sbjct: 85 YVQDFHPRLLGLTGSTKQVAQASHSYRVYYNAGPKDEDQDYIVDHSIAIYLLNPDGLFTD 144
Query: 273 FYSRS 277
+Y RS
Sbjct: 145 YYGRS 149
>pdb|3PYA|A Chain A, Crystal Structure Of Ent-Copalyl Diphosphate Synthase From
Arabidopsis Thaliana In Complex With
(S)-15-Aza-14,15-Dihydrogeranylgeranyl Thiolodiphosphate
pdb|3PYB|A Chain A, Crystal Structure Of Ent-Copalyl Diphosphate Synthase From
Arabidopsis Thaliana In Complex With
13-Aza-13,14-Dihydrocopalyl Diphosphate
pdb|3PYB|B Chain B, Crystal Structure Of Ent-Copalyl Diphosphate Synthase From
Arabidopsis Thaliana In Complex With
13-Aza-13,14-Dihydrocopalyl Diphosphate
pdb|3PYB|C Chain C, Crystal Structure Of Ent-Copalyl Diphosphate Synthase From
Arabidopsis Thaliana In Complex With
13-Aza-13,14-Dihydrocopalyl Diphosphate
Length = 727
Score = 28.9 bits (63), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 17/69 (24%), Positives = 31/69 (44%), Gaps = 8/69 (11%)
Query: 171 GNKRTKWINRAPYA--YWKGNPYVSIAREDLMKCNVTDKYQWKTRLYVQDWHKEKKQ--- 225
G + WI + Y Y N Y+ +A++D C + +W Q W++E +
Sbjct: 416 GGENDVWIGKTLYRMPYVNNNGYLELAKQDYNNCQAQHQLEWDI---FQKWYEENRLSEW 472
Query: 226 GFEKSKLAD 234
G +S+L +
Sbjct: 473 GVRRSELLE 481
>pdb|1VKD|A Chain A, Crystal Structure Of A Predicted Glycosidase (tm1225) From
Thermotoga Maritima Msb8 At 2.10 A Resolution
pdb|1VKD|B Chain B, Crystal Structure Of A Predicted Glycosidase (tm1225) From
Thermotoga Maritima Msb8 At 2.10 A Resolution
pdb|1VKD|C Chain C, Crystal Structure Of A Predicted Glycosidase (tm1225) From
Thermotoga Maritima Msb8 At 2.10 A Resolution
pdb|1VKD|D Chain D, Crystal Structure Of A Predicted Glycosidase (tm1225) From
Thermotoga Maritima Msb8 At 2.10 A Resolution
pdb|1VKD|E Chain E, Crystal Structure Of A Predicted Glycosidase (tm1225) From
Thermotoga Maritima Msb8 At 2.10 A Resolution
pdb|1VKD|F Chain F, Crystal Structure Of A Predicted Glycosidase (tm1225) From
Thermotoga Maritima Msb8 At 2.10 A Resolution
Length = 338
Score = 28.5 bits (62), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 31/68 (45%), Gaps = 2/68 (2%)
Query: 16 LNSSSEESLGECPEYFRWIHKDLEPWKHTGISREMLERAKAHAQFRLVIINGDAYVEKYK 75
NS+ GE FR HK+ P+ H G S++ + + + V +NG+ + Y
Sbjct: 57 FNSAVVPYNGEFVGVFRIDHKNTRPFLHFGRSKDGINWEIEPEEIQWVDVNGEPFQPSY- 115
Query: 76 NAYQTRDV 83
AY R V
Sbjct: 116 -AYDPRVV 122
>pdb|3Q7J|A Chain A, Engineered Thermoplasma Acidophilum F3 Factor Mimics Human
Aminopeptidase N (Apn) As A Target For Anticancer Drug
Development
pdb|3Q7J|B Chain B, Engineered Thermoplasma Acidophilum F3 Factor Mimics Human
Aminopeptidase N (Apn) As A Target For Anticancer Drug
Development
Length = 780
Score = 28.1 bits (61), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 8/14 (57%), Positives = 13/14 (92%)
Query: 139 ESLDIVFPDWSFWG 152
+++D +FP+WSFWG
Sbjct: 297 KTMDTLFPEWSFWG 310
>pdb|1Z1W|A Chain A, Crystal Structures Of The Tricorn Interacting Facor F3
From Thermoplasma Acidophilum, A Zinc Aminopeptidase In
Three Different Conformations
pdb|1Z5H|A Chain A, Crystal Structures Of The Tricorn Interacting Factor F3
From Thermoplasma Acidophilum
pdb|1Z5H|B Chain B, Crystal Structures Of The Tricorn Interacting Factor F3
From Thermoplasma Acidophilum
Length = 780
Score = 28.1 bits (61), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 8/14 (57%), Positives = 13/14 (92%)
Query: 139 ESLDIVFPDWSFWG 152
+++D +FP+WSFWG
Sbjct: 297 KTMDTLFPEWSFWG 310
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 0.431
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,686,087
Number of Sequences: 62578
Number of extensions: 581437
Number of successful extensions: 1083
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: 1081
Number of HSP's gapped (non-prelim): 9
length of query: 428
length of database: 14,973,337
effective HSP length: 102
effective length of query: 326
effective length of database: 8,590,381
effective search space: 2800464206
effective search space used: 2800464206
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: 53 (25.0 bits)