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= 025395
(253 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1CT9|A Chain A, Crystal Structure Of Asparagine Synthetase B From
Escherichia Coli
pdb|1CT9|B Chain B, Crystal Structure Of Asparagine Synthetase B From
Escherichia Coli
pdb|1CT9|C Chain C, Crystal Structure Of Asparagine Synthetase B From
Escherichia Coli
pdb|1CT9|D Chain D, Crystal Structure Of Asparagine Synthetase B From
Escherichia Coli
Length = 553
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 37/82 (45%), Gaps = 2/82 (2%)
Query: 122 QVVKDLQGKFAFILFDAKSHTLFAARDCDGGVDLNWGIAGDGSLICSNDSNLMKEACGIS 181
+ + DLQG FAF L+D++ RD G + L G G L +++ + C +
Sbjct: 112 EFLDDLQGMFAFALYDSEKDAYLIGRDHLGIIPLYMGYDEHGQLYVASEMKALVPVCR-T 170
Query: 182 CAPFPPGCMFMNGTG-LMSFVH 202
FP G + G + S+ H
Sbjct: 171 IKEFPAGSYLWSQDGEIRSYYH 192
>pdb|1BML|C Chain C, Complex Of The Catalytic Domain Of Human Plasmin And
Streptokinase
pdb|1BML|D Chain D, Complex Of The Catalytic Domain Of Human Plasmin And
Streptokinase
Length = 362
Score = 32.0 bits (71), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 26/55 (47%), Gaps = 1/55 (1%)
Query: 67 RSIVVMDDIFCMFIGTSENICELKRHYGLSRQATEAMVLIEAYKVLRD-RAPYPP 120
R+I+ MD F + E E+ + GL+ + ++ E Y VL+ PY P
Sbjct: 221 RTILPMDQEFTYHVKNREQAYEINKKSGLNEEINNTDLISEKYYVLKKGEKPYDP 275
>pdb|2GAF|A Chain A, Crystal Structure Of The Vaccinia Polyadenylate Polymerase
Heterodimer (Apo Form)
Length = 297
Score = 28.1 bits (61), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 30/64 (46%), Gaps = 3/64 (4%)
Query: 64 LHPRSIVVMDDIFCMFIGTSENICELKRHYGLSRQATEAMVLIEAYKVLRDRAPYPPDQV 123
LHP I+++ D+ G + +L +Y L Q +L L+ R P+ PDQ
Sbjct: 128 LHPSKIILISDVASAAGGNEPSTADLLSNYAL--QNVXISILNPVASSLKWRCPF-PDQW 184
Query: 124 VKDL 127
+KD
Sbjct: 185 IKDF 188
>pdb|1VPT|A Chain A, As11 Variant Of Vaccinia Virus Protein Vp39 In Complex
With S- Adenosyl-L-Methionine
Length = 348
Score = 27.3 bits (59), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 30/64 (46%), Gaps = 3/64 (4%)
Query: 64 LHPRSIVVMDDIFCMFIGTSENICELKRHYGLSRQATEAMVLIEAYKVLRDRAPYPPDQV 123
LHP I+++ D+ G + +L +Y L Q +L L+ R P+ PDQ
Sbjct: 143 LHPSKIILISDVASAAGGNEPSTADLLSNYAL--QNVMISILNPVASSLKWRCPF-PDQW 199
Query: 124 VKDL 127
+KD
Sbjct: 200 IKDF 203
>pdb|1VP3|A Chain A, Vaccinia Virus Protein Vp39 In Complex With
S-Adenosylhomocysteine
Length = 348
Score = 27.3 bits (59), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 30/64 (46%), Gaps = 3/64 (4%)
Query: 64 LHPRSIVVMDDIFCMFIGTSENICELKRHYGLSRQATEAMVLIEAYKVLRDRAPYPPDQV 123
LHP I+++ D+ G + +L +Y L Q +L L+ R P+ PDQ
Sbjct: 143 LHPSKIILISDVRSKRGGNEPSTADLLSNYAL--QNVMISILNPVASSLKWRCPF-PDQW 199
Query: 124 VKDL 127
+KD
Sbjct: 200 IKDF 203
>pdb|2GA9|A Chain A, Crystal Structure Of The Heterodimeric Vaccinia Virus
Polyadenylate Polymerase With Bound Atp-Gamma-S
pdb|3ER8|A Chain A, Crystal Structure Of The Heterodimeric Vaccinia Virus Mrna
Polyadenylate Polymerase Complex With Two Fragments Of
Rna
pdb|3ER8|B Chain B, Crystal Structure Of The Heterodimeric Vaccinia Virus Mrna
Polyadenylate Polymerase Complex With Two Fragments Of
Rna
pdb|3ER9|A Chain A, Crystal Structure Of The Heterodimeric Vaccinia Virus Mrna
Polyadenylate Polymerase Complex With Uu And 3'-deoxy
Atp
pdb|3ERC|A Chain A, Crystal Structure Of The Heterodimeric Vaccinia Virus Mrna
Polyadenylate Polymerase With Three Fragments Of Rna And
3'-Deoxy Atp
pdb|3ERC|B Chain B, Crystal Structure Of The Heterodimeric Vaccinia Virus Mrna
Polyadenylate Polymerase With Three Fragments Of Rna And
3'-Deoxy Atp
Length = 297
Score = 26.9 bits (58), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 30/64 (46%), Gaps = 3/64 (4%)
Query: 64 LHPRSIVVMDDIFCMFIGTSENICELKRHYGLSRQATEAMVLIEAYKVLRDRAPYPPDQV 123
LHP I+++ D+ G + +L +Y L Q +L L+ R P+ PDQ
Sbjct: 128 LHPSKIILISDVASAAGGNEPSTADLLSNYAL--QNVMISILNPVASSLKWRCPF-PDQW 184
Query: 124 VKDL 127
+KD
Sbjct: 185 IKDF 188
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 0.137 0.421
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,883,169
Number of Sequences: 62578
Number of extensions: 328110
Number of successful extensions: 535
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 534
Number of HSP's gapped (non-prelim): 14
length of query: 253
length of database: 14,973,337
effective HSP length: 97
effective length of query: 156
effective length of database: 8,903,271
effective search space: 1388910276
effective search space used: 1388910276
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: 50 (23.9 bits)