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= 043933
(128 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1V2D|A Chain A, Crystal Structure Of T.Th Hb8 Glutamine Aminotransferase
pdb|1V2E|A Chain A, Crystal Structure Of T.Th Hb8 Glutamine Aminotransferase
Complex With A-Keto-G-Methylthiobutyrate
pdb|1V2E|B Chain B, Crystal Structure Of T.Th Hb8 Glutamine Aminotransferase
Complex With A-Keto-G-Methylthiobutyrate
pdb|1V2F|A Chain A, Crystal Structure Of T.Th Hb8 Glutamine Aminotransferase
Complex With 3-Phenylpropionate
pdb|1V2F|B Chain B, Crystal Structure Of T.Th Hb8 Glutamine Aminotransferase
Complex With 3-Phenylpropionate
Length = 381
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 29/66 (43%), Gaps = 10/66 (15%)
Query: 10 FNESNTELLICLARLCPNDLFAAFDK--------EKLLRLVEFYPKDFFAIDLIALEMQL 61
F E E + LAR +DLF D+ E+ RL EF P+ F + ++
Sbjct: 169 FGERELEAIARLARA--HDLFLISDEVYDELYYGERPRRLREFAPERTFTVGSAGKRLEA 226
Query: 62 DLYRIG 67
YR+G
Sbjct: 227 TGYRVG 232
>pdb|3S28|A Chain A, The Crystal Structure Of Sucrose Synthase-1 In Complex
With A Breakdown Product Of The Udp-Glucose
pdb|3S28|B Chain B, The Crystal Structure Of Sucrose Synthase-1 In Complex
With A Breakdown Product Of The Udp-Glucose
pdb|3S28|C Chain C, The Crystal Structure Of Sucrose Synthase-1 In Complex
With A Breakdown Product Of The Udp-Glucose
pdb|3S28|D Chain D, The Crystal Structure Of Sucrose Synthase-1 In Complex
With A Breakdown Product Of The Udp-Glucose
pdb|3S28|E Chain E, The Crystal Structure Of Sucrose Synthase-1 In Complex
With A Breakdown Product Of The Udp-Glucose
pdb|3S28|F Chain F, The Crystal Structure Of Sucrose Synthase-1 In Complex
With A Breakdown Product Of The Udp-Glucose
pdb|3S28|G Chain G, The Crystal Structure Of Sucrose Synthase-1 In Complex
With A Breakdown Product Of The Udp-Glucose
pdb|3S28|H Chain H, The Crystal Structure Of Sucrose Synthase-1 In Complex
With A Breakdown Product Of The Udp-Glucose
pdb|3S29|A Chain A, The Crystal Structure Of Sucrose Synthase-1 From
Arabidopsis Thaliana And Its Functional Implications.
pdb|3S29|B Chain B, The Crystal Structure Of Sucrose Synthase-1 From
Arabidopsis Thaliana And Its Functional Implications.
pdb|3S29|C Chain C, The Crystal Structure Of Sucrose Synthase-1 From
Arabidopsis Thaliana And Its Functional Implications.
pdb|3S29|D Chain D, The Crystal Structure Of Sucrose Synthase-1 From
Arabidopsis Thaliana And Its Functional Implications.
pdb|3S29|E Chain E, The Crystal Structure Of Sucrose Synthase-1 From
Arabidopsis Thaliana And Its Functional Implications.
pdb|3S29|F Chain F, The Crystal Structure Of Sucrose Synthase-1 From
Arabidopsis Thaliana And Its Functional Implications.
pdb|3S29|G Chain G, The Crystal Structure Of Sucrose Synthase-1 From
Arabidopsis Thaliana And Its Functional Implications.
pdb|3S29|H Chain H, The Crystal Structure Of Sucrose Synthase-1 From
Arabidopsis Thaliana And Its Functional Implications
Length = 816
Score = 26.6 bits (57), Expect = 4.2, Method: Composition-based stats.
Identities = 13/35 (37%), Positives = 20/35 (57%)
Query: 60 QLDLYRIGELARTMVNTKKDKVYPLVYQLVTLALI 94
Q+D R GEL R + +TK V P +Y+ L ++
Sbjct: 648 QMDRVRNGELYRYICDTKGAFVQPALYEAFGLTVV 682
>pdb|2BW3|A Chain A, Three-Dimensional Structure Of The Hermes Dna Transposase
Length = 534
Score = 26.2 bits (56), Expect = 4.8, Method: Composition-based stats.
Identities = 25/100 (25%), Positives = 42/100 (42%), Gaps = 25/100 (25%)
Query: 24 LCPNDLFAAFDKEKLLRLVEFYPKDFFAIDLIALEMQLDLYRIGELARTMVNTKKDKVYP 83
+CP+D F + KE ++ +F +++ + N+KK YP
Sbjct: 443 VCPSDEFEFYRKEIVILSEDFKVXEWWNL----------------------NSKK---YP 477
Query: 84 LVYQLVTLALILPVAIATVERVFSSMTFVKNLLRNRMGDQ 123
+ +L L +P + A ER FS + RNR+G Q
Sbjct: 478 KLSKLALSLLSIPASSAASERTFSLAGNIITEKRNRIGQQ 517
>pdb|2HVQ|A Chain A, Structure Of Adenylated Full-length T4 Rna Ligase 2
Length = 335
Score = 26.2 bits (56), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 28/57 (49%), Gaps = 1/57 (1%)
Query: 29 LFAAFDKEKLLRLVEFYPKDFFAIDLIALEMQLDLYRIGE-LARTMVNTKKDKVYPL 84
+F F + + V++ KDF+ D+I D+ + + + + NT K K+ PL
Sbjct: 97 VFGEFAGPGIQKNVDYGDKDFYVFDIIVTTESGDVTYVDDYMMESFCNTFKFKMAPL 153
>pdb|2HVR|A Chain A, Structure Of T4 Rna Ligase 2 With Nicked 5'-Adenylated
Nucleic Acid Duplex Containing A 3'-Deoxyribonucleotide
At The Nick
pdb|2HVR|B Chain B, Structure Of T4 Rna Ligase 2 With Nicked 5'-Adenylated
Nucleic Acid Duplex Containing A 3'-Deoxyribonucleotide
At The Nick
pdb|2HVS|A Chain A, Structure Of T4 Rna Ligase 2 With Nicked 5'-Adenylated
Nucleic Acid Duplex Containing A 2'-Deoxyribonucleotide
At The Nick
pdb|2HVS|B Chain B, Structure Of T4 Rna Ligase 2 With Nicked 5'-Adenylated
Nucleic Acid Duplex Containing A 2'-Deoxyribonucleotide
At The Nick
Length = 335
Score = 25.8 bits (55), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 28/57 (49%), Gaps = 1/57 (1%)
Query: 29 LFAAFDKEKLLRLVEFYPKDFFAIDLIALEMQLDLYRIGE-LARTMVNTKKDKVYPL 84
+F F + + V++ KDF+ D+I D+ + + + + NT K K+ PL
Sbjct: 97 VFGEFAGPGIQKNVDYGDKDFYVFDIIVTTESGDVTYVDDYMMESFCNTFKFKMAPL 153
>pdb|1S68|A Chain A, Structure And Mechanism Of Rna Ligase
Length = 249
Score = 25.4 bits (54), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 28/57 (49%), Gaps = 1/57 (1%)
Query: 29 LFAAFDKEKLLRLVEFYPKDFFAIDLIALEMQLDLYRIGE-LARTMVNTKKDKVYPL 84
+F F + + V++ KDF+ D+I D+ + + + + NT K K+ PL
Sbjct: 96 VFGEFAGPGIQKNVDYCDKDFYVFDIIVTTESGDVTYVDDYMMESFCNTFKFKMAPL 152
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
0.328 0.141 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,232,385
Number of Sequences: 62578
Number of extensions: 108801
Number of successful extensions: 291
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 289
Number of HSP's gapped (non-prelim): 8
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: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 45 (21.9 bits)