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= 020674
(323 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1MQS|A Chain A, Crystal Structure Of Sly1p In Complex With An N-Terminal
Peptide Of Sed5p
Length = 671
Score = 34.3 bits (77), Expect = 0.097, Method: Compositional matrix adjust.
Identities = 33/113 (29%), Positives = 55/113 (48%), Gaps = 15/113 (13%)
Query: 49 QMPEKTGGGNSGMRFHVALTATDAIYSQWQSRIMYYWYKKVKDMPRSDM-GKFTRILHSG 107
++PE T N+ + H + A A+ SQ +S+ + +++ +D + +F IL G
Sbjct: 391 KLPELTAKKNT-IDTHXNIFA--ALLSQLESKSLDTFFEVEQDPGSTKTRSRFLDILKDG 447
Query: 108 KADNLMDEIPSFVVDPLPE--GLDRGYIVLNRPWAFVQWLEKATIEEEYILMA 158
K +NL D++ SF+V L GL P FVQ +E E +Y + A
Sbjct: 448 KTNNLEDKLRSFIVLYLTSTTGL---------PKDFVQNVENYFKENDYDINA 491
>pdb|1CYX|A Chain A, Quinol Oxidase (Periplasmic Fragment Of Subunit Ii With
Engineered Cu-A Binding Site)(Cyoa)
Length = 205
Score = 28.9 bits (63), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 24/54 (44%), Gaps = 10/54 (18%)
Query: 52 EKTGGGNSGMRFHVALTATDAIYSQWQSRIMYYWYKKVKDMPR--SDMGKFTRI 103
E G G+SGM+F T A + QW + K K P SDM F ++
Sbjct: 99 EICGPGHSGMKFKAIATPDRAAFDQWVA--------KAKQSPNTMSDMAAFEKL 144
>pdb|1TUF|A Chain A, Crystal Structure Of Diaminopimelate Decarboxylase From M.
Jannaschi
pdb|1TUF|B Chain B, Crystal Structure Of Diaminopimelate Decarboxylase From M.
Jannaschi
Length = 434
Score = 28.5 bits (62), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 7/46 (15%)
Query: 279 WDPEVGKRFILHYTYGCDYNLKV-RLVKMVNEATANIPGWDTVTRG 323
W+ E GK FI+ Y Y + NL + RL+ + G D V+ G
Sbjct: 54 WEEETGKEFIVAYAYXANANLAITRLLAKLG------CGADVVSGG 93
>pdb|1TWI|A Chain A, Crystal Structure Of Diaminopimelate Decarboxylase From M.
Jannaschii In Co-Complex With L-Lysine
pdb|1TWI|B Chain B, Crystal Structure Of Diaminopimelate Decarboxylase From M.
Jannaschii In Co-Complex With L-Lysine
pdb|1TWI|C Chain C, Crystal Structure Of Diaminopimelate Decarboxylase From M.
Jannaschii In Co-Complex With L-Lysine
pdb|1TWI|D Chain D, Crystal Structure Of Diaminopimelate Decarboxylase From M.
Jannaschii In Co-Complex With L-Lysine
Length = 434
Score = 28.5 bits (62), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 7/46 (15%)
Query: 279 WDPEVGKRFILHYTYGCDYNLKV-RLVKMVNEATANIPGWDTVTRG 323
W+ E GK FI+ Y Y + NL + RL+ + G D V+ G
Sbjct: 54 WEEETGKEFIVAYAYKANANLAITRLLAKLG------CGADVVSGG 93
>pdb|2JZA|A Chain A, Solution Nmr Structure Of Nitrite Reductase [nad(P)h]
Small Subunit From Erwinia Carotovora. Northeast
Structural Genomics Consortium Target Ewr120
Length = 130
Score = 28.1 bits (61), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 17/68 (25%), Positives = 33/68 (48%), Gaps = 3/68 (4%)
Query: 193 IIRKFYPEEMGPVTNVDPIGNSPVIIKKYLLEEISPTWLNVSLRMKDDHETDKQFGWVLE 252
+ R E++ ++N+DP + V+ + + E W+ L+ + D G+ LE
Sbjct: 30 VFRPRNDEQVYAISNIDPFAQASVLSRGIVAEHQDDLWVASPLKKQHFRLYD---GFCLE 86
Query: 253 MYAYAVAS 260
AY+VA+
Sbjct: 87 DGAYSVAA 94
>pdb|2V6K|A Chain A, Structure Of Maleyl Pyruvate Isomerase, A Bacterial
Glutathione-s-transferase In Zeta Class, In Complex With
Substrate Analogue Dicarboxyethyl Glutathione
pdb|2V6K|B Chain B, Structure Of Maleyl Pyruvate Isomerase, A Bacterial
Glutathione-s-transferase In Zeta Class, In Complex With
Substrate Analogue Dicarboxyethyl Glutathione
Length = 214
Score = 27.7 bits (60), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 23/44 (52%)
Query: 104 LHSGKADNLMDEIPSFVVDPLPEGLDRGYIVLNRPWAFVQWLEK 147
+H GK ++L D + L LD G VL + A ++WLE+
Sbjct: 33 VHLGKEEHLKDAFKALNPQQLVPALDTGAQVLIQSPAIIEWLEE 76
>pdb|2JL4|A Chain A, Holo Structure Of Maleyl Pyruvate Isomerase, A Bacterial
Glutathione-S-Transferase In Zeta Class
pdb|2JL4|B Chain B, Holo Structure Of Maleyl Pyruvate Isomerase, A Bacterial
Glutathione-S-Transferase In Zeta Class
Length = 213
Score = 27.7 bits (60), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 23/44 (52%)
Query: 104 LHSGKADNLMDEIPSFVVDPLPEGLDRGYIVLNRPWAFVQWLEK 147
+H GK ++L D + L LD G VL + A ++WLE+
Sbjct: 32 VHLGKEEHLKDAFKALNPQQLVPALDTGAQVLIQSPAIIEWLEE 75
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 0.139 0.437
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,977,694
Number of Sequences: 62578
Number of extensions: 440502
Number of successful extensions: 1069
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1065
Number of HSP's gapped (non-prelim): 8
length of query: 323
length of database: 14,973,337
effective HSP length: 99
effective length of query: 224
effective length of database: 8,778,115
effective search space: 1966297760
effective search space used: 1966297760
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: 51 (24.3 bits)