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= 008969
(547 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1W4S|A Chain A, Crystal Structure Of The Proximal Bah Domain Of Polybromo
Length = 174
Score = 35.4 bits (80), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 30/110 (27%), Positives = 51/110 (46%), Gaps = 15/110 (13%)
Query: 21 VHDFVYV-LAEEN-KRLIAYLEDMYEDSRGNKMVVVRWFHKIDEVGIFLPHNFNDREIFF 78
V D+VYV AE N + I +E ++EDS G K + WF++ +E F ++E+F
Sbjct: 29 VGDYVYVEPAEANLQPHIVCIERLWEDSAGEKWLYGCWFYRPNETFHLATRKFLEKEVFK 88
Query: 79 SLCLQDLSIECIDGLATVLSPQHFEKFMNEATYPQLQPFICDKQFENDDV 128
S + + I G V+ + + K +C + F ++DV
Sbjct: 89 SDYYNKVPVSKILGKCVVMFVKEYFK-------------LCPENFRDEDV 125
>pdb|4FSX|A Chain A, Crystal Structure Of Se-Substituted Zea Mays Zmet2 In
Complex With Sah
pdb|4FSX|B Chain B, Crystal Structure Of Se-Substituted Zea Mays Zmet2 In
Complex With Sah
Length = 784
Score = 32.7 bits (73), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 26/95 (27%), Positives = 41/95 (43%), Gaps = 8/95 (8%)
Query: 4 KKRKHYQSFCRNGVKVSVHDFVYVLAEENKR-LIAYLEDMYEDSRGNKMVVVRWFHKIDE 62
K R HY+S + V + D VYV A EN+ I + + +E + RWF + ++
Sbjct: 43 KARCHYRSAKVDNVVYCLGDDVYVKAGENEADYIGRITEFFEGTDQCHYFTCRWFFRAED 102
Query: 63 VGI-------FLPHNFNDREIFFSLCLQDLSIECI 90
I H + R +F S D ++CI
Sbjct: 103 TVINSLVSISVDGHKHDPRRVFLSEEKNDNVLDCI 137
>pdb|4FT2|A Chain A, Crystal Structure Of Zea Mays Zmet2 In Complex
H3(1-15)k9me2 Peptide And Sah
pdb|4FT2|B Chain B, Crystal Structure Of Zea Mays Zmet2 In Complex
H3(1-15)k9me2 Peptide And Sah
pdb|4FT4|B Chain B, Crystal Structure Of Zea Mays Zmet2 In Complex
H3(1-32)k9me2 Peptide And Sah
pdb|4FT4|A Chain A, Crystal Structure Of Zea Mays Zmet2 In Complex
H3(1-32)k9me2 Peptide And Sah
Length = 784
Score = 32.3 bits (72), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 26/95 (27%), Positives = 41/95 (43%), Gaps = 8/95 (8%)
Query: 4 KKRKHYQSFCRNGVKVSVHDFVYVLAEENKR-LIAYLEDMYEDSRGNKMVVVRWFHKIDE 62
K R HY+S + V + D VYV A EN+ I + + +E + RWF + ++
Sbjct: 43 KARCHYRSAKVDNVVYCLGDDVYVKAGENEADYIGRITEFFEGTDQCHYFTCRWFFRAED 102
Query: 63 VGI-------FLPHNFNDREIFFSLCLQDLSIECI 90
I H + R +F S D ++CI
Sbjct: 103 TVINSLVSISVDGHKHDPRRVFLSEEKNDNVLDCI 137
>pdb|1REQ|B Chain B, Methylmalonyl-Coa Mutase
pdb|1REQ|D Chain D, Methylmalonyl-Coa Mutase
pdb|2REQ|B Chain B, Methylmalonyl-Coa Mutase, Non-Productive Coa Complex, In
Open Conformation Representing Substrate-Free State
pdb|2REQ|D Chain D, Methylmalonyl-Coa Mutase, Non-Productive Coa Complex, In
Open Conformation Representing Substrate-Free State
pdb|3REQ|B Chain B, Methylmalonyl-Coa Mutase, Substrate-Free State (Poor
Quality Structure)
pdb|6REQ|B Chain B, Methylmalonyl-Coa Mutase, 3-Carboxypropyl-Coa Inhibitor
Complex
pdb|6REQ|D Chain D, Methylmalonyl-Coa Mutase, 3-Carboxypropyl-Coa Inhibitor
Complex
pdb|7REQ|B Chain B, Methylmalonyl-Coa Mutase, 2-Carboxypropyl-Coa Inhibitor
Complex
pdb|7REQ|D Chain D, Methylmalonyl-Coa Mutase, 2-Carboxypropyl-Coa Inhibitor
Complex
pdb|4REQ|B Chain B, Methylmalonyl-Coa Mutase Substrate Complex
pdb|4REQ|D Chain D, Methylmalonyl-Coa Mutase Substrate Complex
pdb|5REQ|B Chain B, Methylmalonyl-Coa Mutase, Y89f Mutant, Substrate Complex
pdb|5REQ|D Chain D, Methylmalonyl-Coa Mutase, Y89f Mutant, Substrate Complex
pdb|1E1C|B Chain B, Methylmalonyl-Coa Mutase H244a Mutant
pdb|1E1C|D Chain D, Methylmalonyl-Coa Mutase H244a Mutant
Length = 637
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 32/63 (50%), Gaps = 5/63 (7%)
Query: 73 DREIFFSLCLQDLSIECIDGLATV--LSPQHFEKFMNEATYPQLQPFICDKQFENDDVKP 130
++++ F+ CL+ L++ +DG+ V P+ K + YP + PF N D+
Sbjct: 49 EKQLTFAECLKRLTVHTVDGIDIVPMYRPKDAPKKLG---YPGVAPFTRGTTVRNGDMDA 105
Query: 131 FDI 133
+D+
Sbjct: 106 WDV 108
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 0.134 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,339,131
Number of Sequences: 62578
Number of extensions: 608207
Number of successful extensions: 1161
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1160
Number of HSP's gapped (non-prelim): 5
length of query: 547
length of database: 14,973,337
effective HSP length: 104
effective length of query: 443
effective length of database: 8,465,225
effective search space: 3750094675
effective search space used: 3750094675
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)