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= 023684
(279 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2BYD|A Chain A, Structure Of Aminoadipate-semialdehyde Dehydrogenase-
Phosphopantetheinyl Transferase
pdb|2C43|A Chain A, Structure Of Aminoadipate-Semialdehyde Dehydrogenase-
Phosphopantetheinyl Transferase In Complex With Coenzyme
A
Length = 323
Score = 135 bits (340), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 68/184 (36%), Positives = 102/184 (55%), Gaps = 1/184 (0%)
Query: 7 RWVVDISKWDPTPHDFSFALYLLPQRHHSSIIKYVKLEDRKRALVSLLLQYALVHQVLGI 66
RW W P+ ++ A+ + I ++V D K A+ L+ LV + L I
Sbjct: 28 RWAFSCGTWLPSRAEWLLAVRSIQPEEKERIGQFVFARDAKAAMAGRLMIRKLVAEKLNI 87
Query: 67 PFEEITINRTIEGKPYLESDKAGMDFPNFNFNVSHHGDYVAIASEPLCLVGLDIVSCTIP 126
P+ I + RT +GKP L D + +PNFNFN+SH GDY +A+EP VG+DI+ + P
Sbjct: 88 PWNHIRLQRTAKGKPVLAKDSSN-PYPNFNFNISHQGDYAVLAAEPELQVGIDIMKTSFP 146
Query: 127 LRETIPEFVQNFSSYFSSFEWDNILNAGTSDEILIEFYRYWCLKEAYVKAIGIGVAYGLD 186
R +IPEF F++ EW+ I + L FYR W LKE+++KAIG+G+ + L
Sbjct: 147 GRGSIPEFFHIMKRKFTNKEWETIRSFKDEWTQLDMFYRNWALKESFIKAIGVGLGFELQ 206
Query: 187 KVEF 190
++EF
Sbjct: 207 RLEF 210
>pdb|2CG5|A Chain A, Structure Of Aminoadipate-Semialdehyde Dehydrogenase-
Phosphopantetheinyl Transferase In Complex With
Cytosolic Acyl Carrier Protein And Coenzyme A
Length = 319
Score = 135 bits (339), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 68/184 (36%), Positives = 102/184 (55%), Gaps = 1/184 (0%)
Query: 7 RWVVDISKWDPTPHDFSFALYLLPQRHHSSIIKYVKLEDRKRALVSLLLQYALVHQVLGI 66
RW W P+ ++ A+ + I ++V D K A+ L+ LV + L I
Sbjct: 28 RWAFSCGTWLPSRAEWLLAVRSIQPEEKERIGQFVFARDAKAAMAGRLMIRKLVAEKLNI 87
Query: 67 PFEEITINRTIEGKPYLESDKAGMDFPNFNFNVSHHGDYVAIASEPLCLVGLDIVSCTIP 126
P+ I + RT +GKP L D + +PNFNFN+SH GDY +A+EP VG+DI+ + P
Sbjct: 88 PWNHIRLQRTAKGKPVLAKDSSN-PYPNFNFNISHQGDYAVLAAEPELQVGIDIMKTSFP 146
Query: 127 LRETIPEFVQNFSSYFSSFEWDNILNAGTSDEILIEFYRYWCLKEAYVKAIGIGVAYGLD 186
R +IPEF F++ EW+ I + L FYR W LKE+++KAIG+G+ + L
Sbjct: 147 GRGSIPEFFHIMKRKFTNKEWETIRSFKDEWTQLDMFYRNWALKESFIKAIGVGLGFELQ 206
Query: 187 KVEF 190
++EF
Sbjct: 207 RLEF 210
>pdb|1QR0|A Chain A, Crystal Structure Of The 4'-Phosphopantetheinyl
Transferase Sfp- Coenzyme A Complex
Length = 228
Score = 60.8 bits (146), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 56/227 (24%), Positives = 104/227 (45%), Gaps = 25/227 (11%)
Query: 24 FALYLLPQRHHSSIIKYVKLEDRKRALVSLLLQYALVHQVLGIPFEEITINRTIEGKPYL 83
F ++ P++ Y K ED R L+ +L +++ + + +I + GKP +
Sbjct: 20 FMTFISPEKREKCRRFYHK-EDAHRTLLGDVLVRSVISRQYQLDKSDIRFSTQEYGKPCI 78
Query: 84 ESDKAGMDFPNFNFNVSHHGDYV--AIASEPLCLVGLDIVSCTIPLRETIPEFVQNFSSY 141
D P+ +FN+SH G +V A S+P +G+DI +T P ++ +
Sbjct: 79 P------DLPDAHFNISHSGRWVIGAFDSQP---IGIDI-------EKTKPISLEIAKRF 122
Query: 142 FSSFEWDNILNAGTSDEILIEFYRYWCLKEAYVKAIGIGVAYGLDKVEFHHTGWGNISVK 201
FS E+ ++L A DE FY W +KE+++K G G++ LD G +S++
Sbjct: 123 FSKTEYSDLL-AKDKDEQTDYFYHLWSMKESFIKQEGKGLSLPLDSFSVRLHQDGQVSIE 181
Query: 202 IDGETMTEWKFWLFELGKRHWASVAKGHPKSATE----SYKRTLRQS 244
+ ++ + +E+ + +V HP + SY+ LR +
Sbjct: 182 L-PDSHSPCYIKTYEVDPGYKMAVCAAHPDFPEDITMVSYEELLRAA 227
>pdb|3POT|A Chain A, Structural Analysis Of A Ni(Iii)-Methyl Species In
Methyl-Coenzyme M Reductase From Methanothermobacter
Marburgensis
pdb|3POT|D Chain D, Structural Analysis Of A Ni(Iii)-Methyl Species In
Methyl-Coenzyme M Reductase From Methanothermobacter
Marburgensis
Length = 550
Score = 32.7 bits (73), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 21/42 (50%)
Query: 76 TIEGKPYLESDKAGMDFPNFNFNVSHHGDYVAIASEPLCLVG 117
+I G L + G ++PN+ NV H G+Y I+ P G
Sbjct: 459 SIRGDEGLPLELRGPNYPNYAMNVGHQGEYAGISQAPHAARG 500
>pdb|1HBM|A Chain A, Methyl-Coenzyme M Reductase Enzyme Product Complex
pdb|1HBM|D Chain D, Methyl-Coenzyme M Reductase Enzyme Product Complex
pdb|1HBN|A Chain A, Methyl-Coenzyme M Reductase
pdb|1HBN|D Chain D, Methyl-Coenzyme M Reductase
pdb|1HBO|A Chain A, Methyl-Coenzyme M Reductase Mcr-Red1-Silent
pdb|1HBO|D Chain D, Methyl-Coenzyme M Reductase Mcr-Red1-Silent
pdb|1HBU|A Chain A, Methyl-Coenzyme M Reductase In The Mcr-Red1-Silent State
In Complex With Coenzyme M
pdb|1HBU|D Chain D, Methyl-Coenzyme M Reductase In The Mcr-Red1-Silent State
In Complex With Coenzyme M
pdb|3M1V|A Chain A, Structural Insight Into Methyl-Coenzyme M Reductase
Chemistry Using Coenzyme B Analogues
pdb|3M1V|D Chain D, Structural Insight Into Methyl-Coenzyme M Reductase
Chemistry Using Coenzyme B Analogues
pdb|3M2R|A Chain A, Structural Insight Into Methyl-Coenzyme M Reductase
Chemistry Using Coenzyme B Analogues
pdb|3M2R|D Chain D, Structural Insight Into Methyl-Coenzyme M Reductase
Chemistry Using Coenzyme B Analogues
pdb|3M2U|A Chain A, Structural Insight Into Methyl-Coenzyme M Reductase
Chemistry Using Coenzyme B Analogues
pdb|3M2U|D Chain D, Structural Insight Into Methyl-Coenzyme M Reductase
Chemistry Using Coenzyme B Analogues
pdb|3M2V|A Chain A, Structural Insight Into Methyl-Coenzyme M Reductase
Chemistry Using Coenzyme B Analogues
pdb|3M2V|D Chain D, Structural Insight Into Methyl-Coenzyme M Reductase
Chemistry Using Coenzyme B Analogues
pdb|3M30|A Chain A, Structural Insight Into Methyl-Coenzyme M Reductase
Chemistry Using Coenzyme B Analogues
pdb|3M30|D Chain D, Structural Insight Into Methyl-Coenzyme M Reductase
Chemistry Using Coenzyme B Analogues
pdb|3M32|A Chain A, Structural Insight Into Methyl-Coenzyme M Reductase
Chemistry Using Coenzyme B Analogues
pdb|3M32|D Chain D, Structural Insight Into Methyl-Coenzyme M Reductase
Chemistry Using Coenzyme B Analogues
Length = 549
Score = 32.7 bits (73), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 21/42 (50%)
Query: 76 TIEGKPYLESDKAGMDFPNFNFNVSHHGDYVAIASEPLCLVG 117
+I G L + G ++PN+ NV H G+Y I+ P G
Sbjct: 458 SIRGDEGLPLELRGPNYPNYAMNVGHQGEYAGISQAPHAARG 499
>pdb|1MRO|A Chain A, Methyl-Coenzyme M Reductase
pdb|1MRO|D Chain D, Methyl-Coenzyme M Reductase
Length = 548
Score = 32.7 bits (73), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 21/42 (50%)
Query: 76 TIEGKPYLESDKAGMDFPNFNFNVSHHGDYVAIASEPLCLVG 117
+I G L + G ++PN+ NV H G+Y I+ P G
Sbjct: 458 SIRGDEGLPLELRGPNYPNYAMNVGHQGEYAGISQAPHAARG 499
>pdb|1E6Y|A Chain A, Methyl-Coenzyme M Reductase From Methanosarcina Barkeri
pdb|1E6Y|D Chain D, Methyl-Coenzyme M Reductase From Methanosarcina Barkeri
Length = 569
Score = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 17/32 (53%)
Query: 78 EGKPYLESDKAGMDFPNFNFNVSHHGDYVAIA 109
+G L + G ++PN+ NV H G Y IA
Sbjct: 480 QGDEGLPDELRGPNYPNYAMNVGHQGGYAGIA 511
>pdb|3P8C|D Chain D, Structure And Control Of The Actin Regulatory Wave Complex
Length = 279
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 25/102 (24%), Positives = 45/102 (44%), Gaps = 13/102 (12%)
Query: 1 MEKGVQRWVVDISKWDPTPHDFSFALYLLPQRHHSSIIKYVKLEDRKRALVSLLLQYALV 60
+++ V R V +++ DP + S + + SS I+ +L DRK + L Y +
Sbjct: 69 LQERVDRLSVSVTQLDPKEEELSLQDITMRKAFRSSTIQDQQLFDRKTLPIPLQETYDVC 128
Query: 61 HQVLGIPFEEITINRTIEGKPYLESDKAGMDF---PNFNFNV 99
Q P +T PY + K G+ F P++ F++
Sbjct: 129 EQ--PPPLNILT--------PYRDDGKEGLKFYTNPSYFFDL 160
>pdb|2XBO|3 Chain 3, Equine Rhinitis A Virus In Complex With Its Sialic Acid
Receptor
Length = 226
Score = 28.1 bits (61), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 18/37 (48%), Gaps = 5/37 (13%)
Query: 76 TIEGKPYLESDKAGMDFPNFNFNVS-----HHGDYVA 107
+I GKPY E D P F +VS HG YVA
Sbjct: 55 SISGKPYFEVTNTSGDEPLFQMDVSLSAAELHGTYVA 91
>pdb|2WFF|3 Chain 3, Equine Rhinitis A Virus
pdb|2WS9|3 Chain 3, Equine Rhinitis A Virus At Low Ph
Length = 226
Score = 28.1 bits (61), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 18/37 (48%), Gaps = 5/37 (13%)
Query: 76 TIEGKPYLESDKAGMDFPNFNFNVS-----HHGDYVA 107
+I GKPY E D P F +VS HG YVA
Sbjct: 55 SISGKPYFEVTNTSGDEPLFQMDVSLSAAELHGTYVA 91
>pdb|1E6V|A Chain A, Methyl-Coenzyme M Reductase From Methanopyrus Kandleri
pdb|1E6V|D Chain D, Methyl-Coenzyme M Reductase From Methanopyrus Kandleri
Length = 553
Score = 27.7 bits (60), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 19/34 (55%), Gaps = 3/34 (8%)
Query: 75 RTIEGKPYLESDKAGMDFPNFNFNVSHHGDYVAI 108
R+ EG P + G ++PN+ NV H G+Y I
Sbjct: 464 RSDEGLPL---ELRGPNYPNYAMNVGHLGEYAGI 494
>pdb|1V7V|A Chain A, Crystal Structure Of Vibrio Proteolyticus Chitobiose
Phosphorylase
pdb|1V7W|A Chain A, Crystal Structure Of Vibrio Proteolyticus Chitobiose
Phosphorylase In Complex With Glcnac
pdb|1V7X|A Chain A, Crystal Structure Of Vibrio Proteolyticus Chitobiose
Phosphorylase In Complex With Glcnac And Sulfate
Length = 807
Score = 27.3 bits (59), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 8/26 (30%), Positives = 16/26 (61%)
Query: 146 EWDNILNAGTSDEILIEFYRYWCLKE 171
+W++ LN G + ++ F +W L+E
Sbjct: 489 DWNDCLNLGGGESSMVSFLHFWALQE 514
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 0.138 0.435
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,325,432
Number of Sequences: 62578
Number of extensions: 395314
Number of successful extensions: 927
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 914
Number of HSP's gapped (non-prelim): 15
length of query: 279
length of database: 14,973,337
effective HSP length: 98
effective length of query: 181
effective length of database: 8,840,693
effective search space: 1600165433
effective search space used: 1600165433
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)