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= 007320
(608 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3F09|A Chain A, 1.82 Angstrom Resolution Crystal Structure Of
Holo-(Acyl-Carrier- Protein) Synthase (Acps) From
Staphylococcus Aureus
pdb|3F09|B Chain B, 1.82 Angstrom Resolution Crystal Structure Of
Holo-(Acyl-Carrier- Protein) Synthase (Acps) From
Staphylococcus Aureus
pdb|3F09|C Chain C, 1.82 Angstrom Resolution Crystal Structure Of
Holo-(Acyl-Carrier- Protein) Synthase (Acps) From
Staphylococcus Aureus
pdb|4DXE|A Chain A, 2.52 Angstrom Resolution Crystal Structure Of The
Acyl-Carrier-Protein Synthase (Acps)-Acyl Carrier
Protein (Acp) Protein-Protein Complex From
Staphylococcus Aureus Subsp. Aureus Col
pdb|4DXE|B Chain B, 2.52 Angstrom Resolution Crystal Structure Of The
Acyl-Carrier-Protein Synthase (Acps)-Acyl Carrier
Protein (Acp) Protein-Protein Complex From
Staphylococcus Aureus Subsp. Aureus Col
pdb|4DXE|C Chain C, 2.52 Angstrom Resolution Crystal Structure Of The
Acyl-Carrier-Protein Synthase (Acps)-Acyl Carrier
Protein (Acp) Protein-Protein Complex From
Staphylococcus Aureus Subsp. Aureus Col
pdb|4DXE|D Chain D, 2.52 Angstrom Resolution Crystal Structure Of The
Acyl-Carrier-Protein Synthase (Acps)-Acyl Carrier
Protein (Acp) Protein-Protein Complex From
Staphylococcus Aureus Subsp. Aureus Col
pdb|4DXE|E Chain E, 2.52 Angstrom Resolution Crystal Structure Of The
Acyl-Carrier-Protein Synthase (Acps)-Acyl Carrier
Protein (Acp) Protein-Protein Complex From
Staphylococcus Aureus Subsp. Aureus Col
pdb|4DXE|F Chain F, 2.52 Angstrom Resolution Crystal Structure Of The
Acyl-Carrier-Protein Synthase (Acps)-Acyl Carrier
Protein (Acp) Protein-Protein Complex From
Staphylococcus Aureus Subsp. Aureus Col
Length = 143
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 29/51 (56%), Gaps = 4/51 (7%)
Query: 475 RMQAFTSLYPNLVTKETLLTPSELEPFRNFSSQLAALDFIA--CATADVFA 523
R+QA S P LV E +LT +E F NF+ + ++F+A AT + F+
Sbjct: 38 RIQALYSKQPKLV--ERILTKNEQHKFNNFTHEQRKIEFLAGRFATKEAFS 86
>pdb|3ISO|A Chain A, Crystal Structure Of 26 Kda Gst Of Clonorchis Sinensis In
P3221 Symmetry
pdb|3ISO|B Chain B, Crystal Structure Of 26 Kda Gst Of Clonorchis Sinensis In
P3221 Symmetry
Length = 218
Score = 31.2 bits (69), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 39/87 (44%), Gaps = 9/87 (10%)
Query: 467 SQIYGANSRMQAFTSLYPNLVTKETL-----LTPSELEPFRNFSSQLAALDFIACATADV 521
SQ G NS + T + + + E L L P+ +E F N + ++ A ++
Sbjct: 134 SQFLGNNSYLHGSTPTHLDFMFYEALDVIRYLDPTSVEAFPNLMQFIHRIE----ALPNI 189
Query: 522 FAMTDSGSQLSSLVSGFRTYYGNGQAP 548
A +S + ++G+ Y+G G AP
Sbjct: 190 KAFMESDRFIKWPLNGWSAYFGGGDAP 216
>pdb|1IHF|B Chain B, Integration Host FactorDNA COMPLEX
pdb|1OWG|B Chain B, Crystal Structure Of Wt Ihf Complexed With An Altered H'
Site (T44a)
pdb|2HT0|B Chain B, Ihf Bound To Doubly Nicked Dna
Length = 94
Score = 30.4 bits (67), Expect = 3.3, Method: Composition-based stats.
Identities = 20/56 (35%), Positives = 31/56 (55%), Gaps = 12/56 (21%)
Query: 555 KRLAAILSENSTIRWNDFEDRVRKMIE-------EGQRVRVRGFGRSI--YRQPRS 601
+RLA ++ S I ED V++M+E +G+R+ +RGFG YR PR+
Sbjct: 8 ERLA---TQQSHIPAKTVEDAVKEMLEHMASTLAQGERIEIRGFGSFSLHYRAPRT 60
>pdb|3HIM|A Chain A, The Crystal Structure Of A Bacterial Regulatory Protein In
The Tetr Family From Rhodococcus Rha1 To 2.2a
pdb|3HIM|B Chain B, The Crystal Structure Of A Bacterial Regulatory Protein In
The Tetr Family From Rhodococcus Rha1 To 2.2a
Length = 211
Score = 30.0 bits (66), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 38/85 (44%), Gaps = 16/85 (18%)
Query: 470 YGANSRMQAFTSL-------YPNLVTKETLLTPSELEPFRNFSSQLAALDFIACATADVF 522
YGA + + SL YP+ TKE+LL LE + + + A DF A D
Sbjct: 34 YGATTTREIAASLDMSPGAVYPHYKTKESLLYAISLEGHHSVLAAITAADFPDIAAPD-- 91
Query: 523 AMTDSGSQLSSLVSGFRTYYGNGQA 547
+L S V+ + T++ + +A
Sbjct: 92 -------RLMSTVTAYVTWHADNRA 109
>pdb|1OUZ|B Chain B, Crystal Structure Of A Mutant Ihf (Betae44a) Complexed
With A Variant H' Site (T44a)
pdb|1OWF|B Chain B, Crystal Structure Of A Mutant Ihf (Betae44a) Complexed
With The Native H' Site
Length = 94
Score = 29.6 bits (65), Expect = 4.7, Method: Composition-based stats.
Identities = 20/56 (35%), Positives = 31/56 (55%), Gaps = 12/56 (21%)
Query: 555 KRLAAILSENSTIRWNDFEDRVRKMIE-------EGQRVRVRGFGRSI--YRQPRS 601
+RLA ++ S I ED V++M+E +G+R+ +RGFG YR PR+
Sbjct: 8 ERLA---TQQSHIPAKTVEDAVKEMLEHMASTLAQGERIAIRGFGSFSLHYRAPRT 60
>pdb|1GY7|A Chain A, N77y Point Mutant Of S.Cerevisiae Ntf2
pdb|1GY7|B Chain B, N77y Point Mutant Of S.Cerevisiae Ntf2
pdb|1GY7|C Chain C, N77y Point Mutant Of S.Cerevisiae Ntf2
pdb|1GY7|D Chain D, N77y Point Mutant Of S.Cerevisiae Ntf2
pdb|1GYB|A Chain A, N77y Point Mutant Of Yntf2 Bound To Fxfg Nucleoporin
Repeat
pdb|1GYB|B Chain B, N77y Point Mutant Of Yntf2 Bound To Fxfg Nucleoporin
Repeat
pdb|1GYB|C Chain C, N77y Point Mutant Of Yntf2 Bound To Fxfg Nucleoporin
Repeat
pdb|1GYB|D Chain D, N77y Point Mutant Of Yntf2 Bound To Fxfg Nucleoporin
Repeat
Length = 125
Score = 29.3 bits (64), Expect = 6.2, Method: Composition-based stats.
Identities = 17/64 (26%), Positives = 32/64 (50%), Gaps = 1/64 (1%)
Query: 216 RFLYSNVWKDPSQFGDIYQEEYFISVLKHEVNIVKELPSPLKSIDIEAIGSLITDADIAK 275
+F Y+ D SQ G++Y+ E ++ ++ K++ L S+ + + IT D A+
Sbjct: 14 QFYYNQFDTDRSQLGNLYRNESMLTFETSQLQGAKDIVEKLVSLPFQKVQHRITTLD-AQ 72
Query: 276 EAKP 279
A P
Sbjct: 73 PASP 76
>pdb|3KXP|A Chain A, Crystal Structure Of E-2-(Acetamidomethylene)succinate
Hydrolase
pdb|3KXP|B Chain B, Crystal Structure Of E-2-(Acetamidomethylene)succinate
Hydrolase
pdb|3KXP|C Chain C, Crystal Structure Of E-2-(Acetamidomethylene)succinate
Hydrolase
pdb|3KXP|D Chain D, Crystal Structure Of E-2-(Acetamidomethylene)succinate
Hydrolase
pdb|3KXP|E Chain E, Crystal Structure Of E-2-(Acetamidomethylene)succinate
Hydrolase
pdb|3KXP|F Chain F, Crystal Structure Of E-2-(Acetamidomethylene)succinate
Hydrolase
pdb|3KXP|G Chain G, Crystal Structure Of E-2-(Acetamidomethylene)succinate
Hydrolase
pdb|3KXP|H Chain H, Crystal Structure Of E-2-(Acetamidomethylene)succinate
Hydrolase
pdb|3KXP|I Chain I, Crystal Structure Of E-2-(Acetamidomethylene)succinate
Hydrolase
pdb|3KXP|J Chain J, Crystal Structure Of E-2-(Acetamidomethylene)succinate
Hydrolase
pdb|3KXP|K Chain K, Crystal Structure Of E-2-(Acetamidomethylene)succinate
Hydrolase
pdb|3KXP|L Chain L, Crystal Structure Of E-2-(Acetamidomethylene)succinate
Hydrolase
Length = 314
Score = 28.9 bits (63), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 41/126 (32%), Positives = 57/126 (45%), Gaps = 19/126 (15%)
Query: 325 ALKFVPKIQ-EAASLLVRRIRKHDSARSML-------DKQLLGNYMPNIPSKHHEV-ARG 375
A+ F P I+ EA L R+ +A S L + L G Y PNIP+ + A
Sbjct: 164 AIDFTPYIETEALDALEARV----NAGSQLFEDIKAVEAYLAGRY-PNIPADAIRIRAES 218
Query: 376 SYRYLALHLRFEEDMVAYSQCDFGGGESERKEL-QAYREIHFPLLIERLKSSKPISPEEL 434
Y+ + LR A +Q G R +L AYR++ P+LI R +SSK +S L
Sbjct: 219 GYQPVDGGLRPLASSAAXAQTARG----LRSDLVPAYRDVTKPVLIVRGESSKLVSAAAL 274
Query: 435 RKLGRC 440
K R
Sbjct: 275 AKTSRL 280
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 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,800,930
Number of Sequences: 62578
Number of extensions: 729035
Number of successful extensions: 1795
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 1795
Number of HSP's gapped (non-prelim): 17
length of query: 608
length of database: 14,973,337
effective HSP length: 104
effective length of query: 504
effective length of database: 8,465,225
effective search space: 4266473400
effective search space used: 4266473400
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: 54 (25.4 bits)