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= 030717
(172 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2DGE|A Chain A, Crystal Structure Of Oxidized Cytochrome C6a From
Arabidopsis Thaliana
pdb|2DGE|B Chain B, Crystal Structure Of Oxidized Cytochrome C6a From
Arabidopsis Thaliana
pdb|2DGE|C Chain C, Crystal Structure Of Oxidized Cytochrome C6a From
Arabidopsis Thaliana
pdb|2DGE|D Chain D, Crystal Structure Of Oxidized Cytochrome C6a From
Arabidopsis Thaliana
Length = 105
Score = 187 bits (475), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 84/104 (80%), Positives = 95/104 (91%)
Query: 66 QTVDIQKGVSLFRQACIGCHDGGGNVIQPGATLFLKDLQRNGVDTEDEIYHVTYFGKGRM 125
QT+DIQ+G +LF +ACIGCHD GGN+IQPGATLF KDL+RNGVDTE+EIY VTYFGKGRM
Sbjct: 1 QTLDIQRGATLFNRACIGCHDTGGNIIQPGATLFTKDLERNGVDTEEEIYRVTYFGKGRM 60
Query: 126 PGFGEKCTPRGQCTFGARLQDEDIKLLAQFVKSQADQGWPKIES 169
PGFGEKCTPRGQCTFG RLQDE+IKLLA+FVK QADQGWP + +
Sbjct: 61 PGFGEKCTPRGQCTFGPRLQDEEIKLLAEFVKFQADQGWPTVST 104
>pdb|2CE0|A Chain A, Structure Of Oxidized Arabidopsis Thaliana Cytochrome 6a
pdb|2CE1|A Chain A, Structure Of Reduced Arabidopsis Thaliana Cytochrome 6a
Length = 105
Score = 183 bits (465), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 82/104 (78%), Positives = 93/104 (89%)
Query: 66 QTVDIQKGVSLFRQACIGCHDGGGNVIQPGATLFLKDLQRNGVDTEDEIYHVTYFGKGRM 125
QT+DIQ+G +LF +AC CHD GGN+IQPGATLF KDL+RNGVDTE+EIY VTYFGKGRM
Sbjct: 1 QTLDIQRGATLFNRACAACHDTGGNIIQPGATLFTKDLERNGVDTEEEIYRVTYFGKGRM 60
Query: 126 PGFGEKCTPRGQCTFGARLQDEDIKLLAQFVKSQADQGWPKIES 169
PGFGEKCTPRGQCTFG RLQDE+IKLLA+FVK QADQGWP + +
Sbjct: 61 PGFGEKCTPRGQCTFGPRLQDEEIKLLAEFVKFQADQGWPTVST 104
>pdb|2V07|A Chain A, Structure Of The Arabidopsis Thaliana Cytochrome C6a V52q
Variant
Length = 105
Score = 182 bits (463), Expect = 6e-47, Method: Compositional matrix adjust.
Identities = 82/104 (78%), Positives = 93/104 (89%)
Query: 66 QTVDIQKGVSLFRQACIGCHDGGGNVIQPGATLFLKDLQRNGVDTEDEIYHVTYFGKGRM 125
QT+DIQ+G +LF +ACI CHD GGN+IQPGATLF KDL+RNGVDTE+EIY TYFGKGRM
Sbjct: 1 QTLDIQRGATLFNRACIACHDTGGNIIQPGATLFTKDLERNGVDTEEEIYRQTYFGKGRM 60
Query: 126 PGFGEKCTPRGQCTFGARLQDEDIKLLAQFVKSQADQGWPKIES 169
PGFGEKCTPRGQCTFG RLQDE+IKLLA+FVK QADQGWP + +
Sbjct: 61 PGFGEKCTPRGQCTFGPRLQDEEIKLLAEFVKFQADQGWPTVST 104
>pdb|1GDV|A Chain A, Crystal Structure Of Cytochrome C6 From Red Alga Porphyra
Yezoensis At 1.57 A Resolution
Length = 85
Score = 66.6 bits (161), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 36/97 (37%), Positives = 47/97 (48%), Gaps = 12/97 (12%)
Query: 68 VDIQKGVSLFRQACIGCHDGGGNVIQPGATLFLKDLQRNGVDTEDEIYHVTYFGKGRMPG 127
D+ G +F C CH GG N I P TL L+ N ++T D I + GK MP
Sbjct: 1 ADLDNGEKVFSANCAACHAGGNNAIMPDKTLKKDVLEANSMNTIDAITYQVQNGKNAMP- 59
Query: 128 FGEKCTPRGQCTFGARLQDEDIKLLAQFVKSQADQGW 164
FG RL DEDI+ A +V SQ+++GW
Sbjct: 60 -----------AFGGRLVDEDIEDAANYVLSQSEKGW 85
>pdb|2ZBO|A Chain A, Crystal Structure Of Low-Redox-Potential Cytochrom C6 From
Brown Alga Hizikia Fusiformis At 1.6 A Resolution
pdb|2ZBO|C Chain C, Crystal Structure Of Low-Redox-Potential Cytochrom C6 From
Brown Alga Hizikia Fusiformis At 1.6 A Resolution
pdb|2ZBO|E Chain E, Crystal Structure Of Low-Redox-Potential Cytochrom C6 From
Brown Alga Hizikia Fusiformis At 1.6 A Resolution
pdb|2ZBO|G Chain G, Crystal Structure Of Low-Redox-Potential Cytochrom C6 From
Brown Alga Hizikia Fusiformis At 1.6 A Resolution
pdb|2ZBO|I Chain I, Crystal Structure Of Low-Redox-Potential Cytochrom C6 From
Brown Alga Hizikia Fusiformis At 1.6 A Resolution
pdb|2ZBO|K Chain K, Crystal Structure Of Low-Redox-Potential Cytochrom C6 From
Brown Alga Hizikia Fusiformis At 1.6 A Resolution
Length = 86
Score = 63.5 bits (153), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 35/97 (36%), Positives = 47/97 (48%), Gaps = 12/97 (12%)
Query: 68 VDIQKGVSLFRQACIGCHDGGGNVIQPGATLFLKDLQRNGVDTEDEIYHVTYFGKGRMPG 127
DI G ++F C CH GG NVI P TL L N +++ I + GK MP
Sbjct: 1 ADINHGENVFTANCSACHAGGNNVIMPEKTLQKDALSTNQMNSVGAITYQVTNGKNAMPA 60
Query: 128 FGEKCTPRGQCTFGARLQDEDIKLLAQFVKSQADQGW 164
FG RL D+DI+ +A FV SQ+++ W
Sbjct: 61 ------------FGGRLSDDDIEDVASFVLSQSEKSW 85
>pdb|1C6S|A Chain A, The Solution Structure Of Cytochrome C6 From The
Thermophilic Cyanobacterium Synechococcus Elongatus,
Nmr, 20 Structures
Length = 87
Score = 62.0 bits (149), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 34/98 (34%), Positives = 47/98 (47%), Gaps = 12/98 (12%)
Query: 68 VDIQKGVSLFRQACIGCHDGGGNVIQPGATLFLKDLQRNGVDTEDEIYHVTYFGKGRMPG 127
D+ G +F C CH GGGNV+ TL + L++ G+ +ED I + GK MP
Sbjct: 1 ADLANGAKVFSGNCAACHMGGGNVVMANKTLKKEALEQFGMYSEDAIIYQVQHGKNAMP- 59
Query: 128 FGEKCTPRGQCTFGARLQDEDIKLLAQFVKSQADQGWP 165
F RL DE I+ +A +V QA +GW
Sbjct: 60 -----------AFAGRLTDEQIQDVAAYVLDQAAKGWA 86
>pdb|1F1F|A Chain A, Crystal Structure Of Cytochrome C6 From Arthrospira Maxima
Length = 89
Score = 56.6 bits (135), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 38/101 (37%), Positives = 49/101 (48%), Gaps = 18/101 (17%)
Query: 69 DIQKGVSLFRQACIGCHDGGGNVIQPGATLFLKDLQR--NGVDTEDEIYHVTY---FGKG 123
D+ G S+F C CH GG NVI TL DL + G D +D + V Y GK
Sbjct: 2 DVAAGASVFSANCAACHMGGRNVIVANKTLSKSDLAKYLKGFD-DDAVAAVAYQVTNGKN 60
Query: 124 RMPGFGEKCTPRGQCTFGARLQDEDIKLLAQFVKSQADQGW 164
MPGF + +P LQ ED+ A +V QA++GW
Sbjct: 61 AMPGFNGRLSP---------LQIEDV---AAYVVDQAEKGW 89
>pdb|3DMI|A Chain A, Crystallization And Structural Analysis Of Cytochrome C6
From The Diatom Phaeodactylum Tricornutum At 1.5 A
Resolution
Length = 88
Score = 56.2 bits (134), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 35/98 (35%), Positives = 44/98 (44%), Gaps = 14/98 (14%)
Query: 69 DIQKGVSLFRQACIGCHDGGGNVIQPGATLFLKDLQR--NGVDTEDEIYHVTYFGKGRMP 126
D+ G +F C CH GG NVI P TL + L + G TE I GK MP
Sbjct: 2 DVGAGEQIFNANCAACHAGGQNVIMPEKTLEKEALDQYLAGGRTEKSIISQVTGGKNAMP 61
Query: 127 GFGEKCTPRGQCTFGARLQDEDIKLLAQFVKSQADQGW 164
FG RL DE+I +A +V + A+ GW
Sbjct: 62 ------------AFGGRLSDEEIANVAAYVLASAEAGW 87
>pdb|1KIB|A Chain A, Cytochrome C6 From Arthrospira Maxima: An Assembly Of 24
Subunits In The Form Of An Oblate Shell
pdb|1KIB|B Chain B, Cytochrome C6 From Arthrospira Maxima: An Assembly Of 24
Subunits In The Form Of An Oblate Shell
pdb|1KIB|C Chain C, Cytochrome C6 From Arthrospira Maxima: An Assembly Of 24
Subunits In The Form Of An Oblate Shell
pdb|1KIB|D Chain D, Cytochrome C6 From Arthrospira Maxima: An Assembly Of 24
Subunits In The Form Of An Oblate Shell
pdb|1KIB|E Chain E, Cytochrome C6 From Arthrospira Maxima: An Assembly Of 24
Subunits In The Form Of An Oblate Shell
pdb|1KIB|F Chain F, Cytochrome C6 From Arthrospira Maxima: An Assembly Of 24
Subunits In The Form Of An Oblate Shell
pdb|1KIB|G Chain G, Cytochrome C6 From Arthrospira Maxima: An Assembly Of 24
Subunits In The Form Of An Oblate Shell
pdb|1KIB|H Chain H, Cytochrome C6 From Arthrospira Maxima: An Assembly Of 24
Subunits In The Form Of An Oblate Shell
Length = 89
Score = 55.8 bits (133), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 37/101 (36%), Positives = 49/101 (48%), Gaps = 18/101 (17%)
Query: 69 DIQKGVSLFRQACIGCHDGGGNVIQPGATLFLKDLQR--NGVDTEDEIYHVTY---FGKG 123
D+ G S+F C CH GG NVI TL DL + G D +D + V Y GK
Sbjct: 2 DVAAGASVFSANCAACHMGGRNVIVANKTLSKSDLAKYLKGFD-DDAVAAVAYQVTNGKN 60
Query: 124 RMPGFGEKCTPRGQCTFGARLQDEDIKLLAQFVKSQADQGW 164
MPGF + +P+ Q ED+ A +V QA++GW
Sbjct: 61 AMPGFNGRLSPK---------QIEDV---AAYVVDQAEKGW 89
>pdb|3PH2|B Chain B, Structure Of The Imidazole-Adduct Of The Phormidium
Laminosum Cytochrome C6 Q51v Variant
Length = 86
Score = 54.3 bits (129), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 31/96 (32%), Positives = 47/96 (48%), Gaps = 12/96 (12%)
Query: 69 DIQKGVSLFRQACIGCHDGGGNVIQPGATLFLKDLQRNGVDTEDEIYHVTYFGKGRMPGF 128
D+ G +F C CH GG N++ TL + L++ G+++ I V GK MP F
Sbjct: 3 DLATGAKVFSANCAACHAGGINLVNAEKTLKKEALEKFGMNSIVAITTVVTNGKAGMPAF 62
Query: 129 GEKCTPRGQCTFGARLQDEDIKLLAQFVKSQADQGW 164
+G RL D+ I +A +V QA++GW
Sbjct: 63 ------KG------RLTDDQIAAVAAYVLDQAEKGW 86
>pdb|2V08|A Chain A, Structure Of Wild-Type Phormidium Laminosum Cytochrome C6
pdb|2V08|B Chain B, Structure Of Wild-Type Phormidium Laminosum Cytochrome C6
Length = 86
Score = 50.8 bits (120), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 30/97 (30%), Positives = 46/97 (47%), Gaps = 12/97 (12%)
Query: 68 VDIQKGVSLFRQACIGCHDGGGNVIQPGATLFLKDLQRNGVDTEDEIYHVTYFGKGRMPG 127
D+ G +F C CH GG N++ TL + L++ G+++ I GK MP
Sbjct: 2 ADLATGAKVFSANCAACHAGGINLVNAEKTLKKEALEKFGMNSIVAITTQVTNGKAGMPA 61
Query: 128 FGEKCTPRGQCTFGARLQDEDIKLLAQFVKSQADQGW 164
F +G RL D+ I +A +V QA++GW
Sbjct: 62 F------KG------RLTDDQIAAVAAYVLDQAEKGW 86
>pdb|3DP5|A Chain A, Crystal Structure Of Geobacter Sulfurreducens Omcf With N-
Terminal Strep-Tag Ii
Length = 99
Score = 44.3 bits (103), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 26/69 (37%), Positives = 31/69 (44%), Gaps = 2/69 (2%)
Query: 67 TVDIQKGVSLFRQACIGCHDGGGNVIQPGATLFLKDLQRNGVDT-EDEIYHVTYFGKGRM 125
V G LF C GCH GGN + P TL + NG+ T D ++ G G M
Sbjct: 16 AVPNSGGGELFATHCAGCHPQGGNTVHPEKTLARARREANGIRTVRDVAAYIRNPGPG-M 74
Query: 126 PGFGEKCTP 134
P FGE P
Sbjct: 75 PAFGEAMIP 83
>pdb|3CU4|A Chain A, Omcf, Outer Membrance Cytochrome F From Geobacter
Sulfurreducens
Length = 85
Score = 43.1 bits (100), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 24/60 (40%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 76 LFRQACIGCHDGGGNVIQPGATLFLKDLQRNGVDT-EDEIYHVTYFGKGRMPGFGEKCTP 134
LF C GCH GGN + P TL + NG+ T D ++ G G MP FGE P
Sbjct: 11 LFATHCAGCHPQGGNTVHPEKTLARARREANGIRTVRDVAAYIRNPGPG-MPAFGEAMIP 69
>pdb|3DR0|A Chain A, Structure Of Reduced Cytochrome C6 From Synechococcus Sp.
Pcc 7002
pdb|3DR0|B Chain B, Structure Of Reduced Cytochrome C6 From Synechococcus Sp.
Pcc 7002
pdb|3DR0|C Chain C, Structure Of Reduced Cytochrome C6 From Synechococcus Sp.
Pcc 7002
Length = 93
Score = 43.1 bits (100), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 36/89 (40%), Gaps = 19/89 (21%)
Query: 81 CIGCHDGGGNVIQPGATL-------FLKDLQRNGVDTEDEIYHVTYFGKGRMPGFGEKCT 133
C CH GG N + P TL +L + E+ + + G+G MP
Sbjct: 14 CAACHAGGNNAVMPTKTLKADALKTYLAGYKDGSKSLEEAVAYQVTNGQGAMP------- 66
Query: 134 PRGQCTFGARLQDEDIKLLAQFVKSQADQ 162
FG RL D DI +A ++ QA+
Sbjct: 67 -----AFGGRLSDADIANVAAYIADQAEN 90
>pdb|1CED|A Chain A, The Structure Of Cytochrome C6 From Monoraphidium Braunii,
Nmr, Minimized Average Structure
pdb|1CTJ|A Chain A, Crystal Structure Of Cytochrome C6
Length = 89
Score = 40.8 bits (94), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 28/96 (29%), Positives = 43/96 (44%), Gaps = 16/96 (16%)
Query: 68 VDIQKGVSLFRQACIGCHDGGGNVIQPGATL---FLKDLQRNGVDTEDEIYHVTYFGKGR 124
D+ G ++F C CH GGGN + P TL ++ G + E +Y + GKG
Sbjct: 2 ADLALGKAVFDGNCAACHAGGGNNVIPDHTLQKAAIEQFLDGGFNIEAIVYQIEN-GKGA 60
Query: 125 MPGFGEKCTPRGQCTFGARLQDEDIKLLAQFVKSQA 160
MP + RL +++I +A +V QA
Sbjct: 61 MP------------AWDGRLDEDEIAGVAAYVYDQA 84
>pdb|1A2S|A Chain A, The Solution Nmr Structure Of Oxidized Cytochrome C6 From
The Green Alga Monoraphidium Braunii, Minimized Average
Structure
Length = 89
Score = 40.4 bits (93), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 28/96 (29%), Positives = 43/96 (44%), Gaps = 16/96 (16%)
Query: 68 VDIQKGVSLFRQACIGCHDGGGNVIQPGATL---FLKDLQRNGVDTEDEIYHVTYFGKGR 124
D+ G ++F C CH GGGN + P TL ++ G + E +Y + GKG
Sbjct: 2 ADLALGKAVFDGNCAACHAGGGNNVIPDHTLQKAAIEQFLDGGFNIEAIVYQIEN-GKGA 60
Query: 125 MPGFGEKCTPRGQCTFGARLQDEDIKLLAQFVKSQA 160
MP + RL +++I +A +V QA
Sbjct: 61 MP------------AWDGRLDEDEIAGVAAYVYDQA 84
>pdb|1C6O|A Chain A, Crystal Structure Of Oxidized Cytochrome C6 From The Green
Algae Scenedesmus Obliquus
pdb|1C6O|B Chain B, Crystal Structure Of Oxidized Cytochrome C6 From The Green
Algae Scenedesmus Obliquus
pdb|1C6R|A Chain A, Crystal Structure Of Reduced Cytochrome C6 From The Green
Algae Scenedesmus Obliquus
Length = 89
Score = 40.0 bits (92), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 28/97 (28%), Positives = 40/97 (41%), Gaps = 16/97 (16%)
Query: 67 TVDIQKGVSLFRQACIGCHDGGGNVIQPGATL---FLKDLQRNGVDTEDEIYHVTYFGKG 123
+ D+ G F C CH GG N + P TL ++ + G + E Y V GKG
Sbjct: 1 SADLALGKQTFEANCAACHAGGNNSVIPDHTLRKAAMEQFLQGGFNLEAITYQVEN-GKG 59
Query: 124 RMPGFGEKCTPRGQCTFGARLQDEDIKLLAQFVKSQA 160
MP + L D++I +A +V QA
Sbjct: 60 AMP------------AWSGTLDDDEIAAVAAYVYDQA 84
>pdb|1LS9|A Chain A, Structure Of The Cytochrome C6 From The Green Alga
Cladophora Glomerata
Length = 91
Score = 36.6 bits (83), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 25/93 (26%), Positives = 41/93 (44%), Gaps = 14/93 (15%)
Query: 70 IQKGVSLFRQACIGCHDGGGNVIQPGATLFLKDLQR--NGVDTEDEIYHVTYFGKGRMPG 127
+ G +F C CH GG N + TL +++ G T + I + GKG MP
Sbjct: 6 LADGKKVFAGNCAACHLGGNNSVLADKTLKKDAIEKYLEGGLTLEAIKYQVNNGKGAMPA 65
Query: 128 FGEKCTPRGQCTFGARLQDEDIKLLAQFVKSQA 160
+ + RL ++DI+ ++ +V QA
Sbjct: 66 WAD------------RLDEDDIEAVSNYVYDQA 86
>pdb|3QD9|A Chain A, C72sC353S MUTANT OF TRYPANOSOMA BRUCEI QSOX CONTAINING AN
INTERDOMAIN Disulfide
pdb|3QD9|B Chain B, C72sC353S MUTANT OF TRYPANOSOMA BRUCEI QSOX CONTAINING AN
INTERDOMAIN Disulfide
pdb|3QD9|C Chain C, C72sC353S MUTANT OF TRYPANOSOMA BRUCEI QSOX CONTAINING AN
INTERDOMAIN Disulfide
pdb|3QD9|D Chain D, C72sC353S MUTANT OF TRYPANOSOMA BRUCEI QSOX CONTAINING AN
INTERDOMAIN Disulfide
Length = 470
Score = 30.4 bits (67), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 79 QACIGCHDGGGNVIQPGATLFLK 101
+AC C+DG GN I+ T FLK
Sbjct: 388 EACTECYDGAGNFIEAHVTGFLK 410
>pdb|3QCP|A Chain A, Qsox From Trypanosoma Brucei
Length = 470
Score = 30.4 bits (67), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 79 QACIGCHDGGGNVIQPGATLFLK 101
+AC C+DG GN I+ T FLK
Sbjct: 388 EACTECYDGAGNFIEAHVTGFLK 410
>pdb|1B7V|A Chain A, Structure Of The C-553 Cytochrome From Bacillus Pasteruii
To 1.7 A Resolution
pdb|1K3H|A Chain A, Nmr Solution Structure Of Oxidized Cytochrome C-553 From
Bacillus Pasteurii
pdb|1N9C|A Chain A, Structure And Dynamics Of Reduced Bacillus Pasteurii
Cytochrome C: Oxidation State Dependent Properties And
Implications For Electron Transfer Processes
pdb|1C75|A Chain A, 0.97 A "ab Initio" Crystal Structure Of Cytochrome C-553
From Bacillus Pasteurii
Length = 71
Score = 29.3 bits (64), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 29/54 (53%), Gaps = 7/54 (12%)
Query: 75 SLFRQACIGCHDGGGNVIQPGATLFLKDLQRNGVD-TEDEIYHVTYFGKGRMPG 127
++ +Q CI CH GG++ A + + G + +E+EI + G+G MPG
Sbjct: 5 AVVQQKCISCH--GGDLTGASAPA----IDKAGANYSEEEILDIILNGQGGMPG 52
>pdb|1K3G|A Chain A, Nmr Solution Structure Of Oxidized Cytochrome C-553 From
Bacillus Pasteurii
Length = 71
Score = 29.3 bits (64), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 29/54 (53%), Gaps = 7/54 (12%)
Query: 75 SLFRQACIGCHDGGGNVIQPGATLFLKDLQRNGVD-TEDEIYHVTYFGKGRMPG 127
++ +Q CI CH GG++ A + + G + +E+EI + G+G MPG
Sbjct: 5 AVVQQKCISCH--GGDLTGASAPA----IDKAGANYSEEEILDIILNGQGGMPG 52
>pdb|1NML|A Chain A, Di-Haemic Cytochrome C Peroxidase From Pseudomonas Nautica
617, Form In (Ph 4.0)
pdb|1RZ5|A Chain A, Di-Haem Cytochrome C Peroxidase, Form Out
pdb|1RZ6|A Chain A, Di-Haem Cytochrome C Peroxidase, Form In
Length = 326
Score = 27.3 bits (59), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 26/113 (23%), Positives = 48/113 (42%), Gaps = 25/113 (22%)
Query: 71 QKGVSLFR-QACIGCHDG---GGN-------VIQPGATLFLK-DLQRNGVD---TEDEIY 115
++G++LF + C CH G GG V +PGA + + D R V +++ ++
Sbjct: 186 KEGLALFMDRGCTACHSGVNLGGQNYYPFGLVAKPGAEILPEGDKGRFSVTETASDEYVF 245
Query: 116 HVT----------YFGKGRMPGFGEKCTPRGQCTFGARLQDEDIKLLAQFVKS 158
+ YF G + E G G L ++++K + F+K+
Sbjct: 246 RASPLRNIELTAPYFHSGAVWSLEEAVAVMGTAQLGTELNNDEVKSIVAFLKT 298
>pdb|2EGY|A Chain A, Crystal Structure Of Lysn, Alpha-Aminoadipate
Aminotransferase (Substrate Free Form), From Thermus
Thermophilus Hb27
pdb|2EGY|B Chain B, Crystal Structure Of Lysn, Alpha-Aminoadipate
Aminotransferase (Substrate Free Form), From Thermus
Thermophilus Hb27
pdb|2EGY|C Chain C, Crystal Structure Of Lysn, Alpha-Aminoadipate
Aminotransferase (Substrate Free Form), From Thermus
Thermophilus Hb27
pdb|2EGY|D Chain D, Crystal Structure Of Lysn, Alpha-Aminoadipate
Aminotransferase (Substrate Free Form), From Thermus
Thermophilus Hb27
pdb|2ZP7|C Chain C, Crystal Structure Of Lysn, Alpha-Aminoadipate
Aminotransferase (Leucine Complex), From Thermus
Thermophilus Hb27
pdb|2ZP7|D Chain D, Crystal Structure Of Lysn, Alpha-Aminoadipate
Aminotransferase (Leucine Complex), From Thermus
Thermophilus Hb27
pdb|2ZP7|F Chain F, Crystal Structure Of Lysn, Alpha-Aminoadipate
Aminotransferase (Leucine Complex), From Thermus
Thermophilus Hb27
pdb|3CBF|A Chain A, Crystal Structure Of Lysn, Alpha-Aminoadipate
Aminotransferase, From Thermus Thermophilus Hb27
pdb|3CBF|B Chain B, Crystal Structure Of Lysn, Alpha-Aminoadipate
Aminotransferase, From Thermus Thermophilus Hb27
pdb|2Z1Y|A Chain A, Crystal Structure Of Lysn, Alpha-Aminoadipate
Aminotransferase (Complexed With
N-(5'-Phosphopyridoxyl)-L-Leucine), From Thermus
Thermophilus Hb27
pdb|2Z1Y|B Chain B, Crystal Structure Of Lysn, Alpha-Aminoadipate
Aminotransferase (Complexed With
N-(5'-Phosphopyridoxyl)-L-Leucine), From Thermus
Thermophilus Hb27
pdb|2ZP7|A Chain A, Crystal Structure Of Lysn, Alpha-Aminoadipate
Aminotransferase (Leucine Complex), From Thermus
Thermophilus Hb27
pdb|2ZP7|B Chain B, Crystal Structure Of Lysn, Alpha-Aminoadipate
Aminotransferase (Leucine Complex), From Thermus
Thermophilus Hb27
pdb|2ZP7|E Chain E, Crystal Structure Of Lysn, Alpha-Aminoadipate
Aminotransferase (Leucine Complex), From Thermus
Thermophilus Hb27
pdb|2ZYJ|A Chain A, Crystal Structure Of Lysn, Alpha-Aminoadipate
Aminotransferase (Complexed With
N-(5'-Phosphopyridoxyl)-L-Glutamate), From Thermus
Thermophilus Hb27
pdb|2ZYJ|B Chain B, Crystal Structure Of Lysn, Alpha-Aminoadipate
Aminotransferase (Complexed With
N-(5'-Phosphopyridoxyl)-L-Glutamate), From Thermus
Thermophilus Hb27
Length = 397
Score = 27.3 bits (59), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 103 LQRNGVDTEDEIYHVTYFGKGRMPGFGE 130
++R V ED+ Y YFG+ R+P E
Sbjct: 193 MERGLVVVEDDAYRELYFGEARLPSLFE 220
>pdb|1E3M|A Chain A, The Crystal Structure Of E. Coli Muts Binding To Dna With
A G:t Mismatch
pdb|1E3M|B Chain B, The Crystal Structure Of E. Coli Muts Binding To Dna With
A G:t Mismatch
Length = 800
Score = 27.3 bits (59), Expect = 4.8, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 14/26 (53%)
Query: 120 FGKGRMPGFGEKCTPRGQCTFGARLQ 145
FG + GFG + PRG C G LQ
Sbjct: 217 FGTRDLVGFGVENAPRGLCAAGCLLQ 242
>pdb|1WB9|A Chain A, Crystal Structure Of E. Coli Dna Mismatch Repair Enzyme
Muts, E38t Mutant, In Complex With A G.T Mismatch
pdb|1WB9|B Chain B, Crystal Structure Of E. Coli Dna Mismatch Repair Enzyme
Muts, E38t Mutant, In Complex With A G.T Mismatch
Length = 800
Score = 27.3 bits (59), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 14/26 (53%)
Query: 120 FGKGRMPGFGEKCTPRGQCTFGARLQ 145
FG + GFG + PRG C G LQ
Sbjct: 217 FGTRDLVGFGVENAPRGLCAAGCLLQ 242
>pdb|1NG9|A Chain A, E.Coli Muts R697a: An Atpase-Asymmetry Mutant
pdb|1NG9|B Chain B, E.Coli Muts R697a: An Atpase-Asymmetry Mutant
Length = 800
Score = 27.3 bits (59), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 14/26 (53%)
Query: 120 FGKGRMPGFGEKCTPRGQCTFGARLQ 145
FG + GFG + PRG C G LQ
Sbjct: 217 FGTRDLVGFGVENAPRGLCAAGCLLQ 242
>pdb|1WBD|A Chain A, Crystal Structure Of E. Coli Dna Mismatch Repair Enzyme
Muts, E38q Mutant, In Complex With A G.T Mismatch
pdb|1WBD|B Chain B, Crystal Structure Of E. Coli Dna Mismatch Repair Enzyme
Muts, E38q Mutant, In Complex With A G.T Mismatch
Length = 800
Score = 26.9 bits (58), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 14/26 (53%)
Query: 120 FGKGRMPGFGEKCTPRGQCTFGARLQ 145
FG + GFG + PRG C G LQ
Sbjct: 217 FGTRDLVGFGVENAPRGLCAAGCLLQ 242
>pdb|1OH5|A Chain A, The Crystal Structure Of E. Coli Muts Binding To Dna With
A C:a Mismatch
pdb|1OH5|B Chain B, The Crystal Structure Of E. Coli Muts Binding To Dna With
A C:a Mismatch
pdb|1OH6|A Chain A, The Crystal Structure Of E. Coli Muts Binding To Dna With
An A:a Mismatch
pdb|1OH6|B Chain B, The Crystal Structure Of E. Coli Muts Binding To Dna With
An A:a Mismatch
pdb|1OH7|A Chain A, The Crystal Structure Of E. Coli Muts Binding To Dna With
A G:g Mismatch
pdb|1OH7|B Chain B, The Crystal Structure Of E. Coli Muts Binding To Dna With
A G:g Mismatch
pdb|1OH8|A Chain A, The Crystal Structure Of E. Coli Muts Binding To Dna With
An Unpaired Thymidine
pdb|1OH8|B Chain B, The Crystal Structure Of E. Coli Muts Binding To Dna With
An Unpaired Thymidine
pdb|1W7A|A Chain A, Atp Bound Muts
pdb|1W7A|B Chain B, Atp Bound Muts
pdb|2WTU|A Chain A, Crystal Structure Of Escherichia Coli Muts In Complex With
A 16 Basepair Oligo Containing An A.A Mismatch.
pdb|2WTU|B Chain B, Crystal Structure Of Escherichia Coli Muts In Complex With
A 16 Basepair Oligo Containing An A.A Mismatch
Length = 800
Score = 26.9 bits (58), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 14/26 (53%)
Query: 120 FGKGRMPGFGEKCTPRGQCTFGARLQ 145
FG + GFG + PRG C G LQ
Sbjct: 217 FGTRDLVGFGVENAPRGLCAAGCLLQ 242
>pdb|1WBB|A Chain A, Crystal Structure Of E. Coli Dna Mismatch Repair Enzyme
Muts, E38a Mutant, In Complex With A G.T Mismatch
pdb|1WBB|B Chain B, Crystal Structure Of E. Coli Dna Mismatch Repair Enzyme
Muts, E38a Mutant, In Complex With A G.T Mismatch
Length = 800
Score = 26.9 bits (58), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 14/26 (53%)
Query: 120 FGKGRMPGFGEKCTPRGQCTFGARLQ 145
FG + GFG + PRG C G LQ
Sbjct: 217 FGTRDLVGFGVENAPRGLCAAGCLLQ 242
>pdb|3K0S|A Chain A, Crystal Structure Of E.Coli Dna Mismatch Repair Protein
Muts, D693n Mutant, In Complex With Gt Mismatched Dna
pdb|3K0S|B Chain B, Crystal Structure Of E.Coli Dna Mismatch Repair Protein
Muts, D693n Mutant, In Complex With Gt Mismatched Dna
Length = 799
Score = 26.9 bits (58), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 14/26 (53%)
Query: 120 FGKGRMPGFGEKCTPRGQCTFGARLQ 145
FG + GFG + PRG C G LQ
Sbjct: 216 FGTRDLVGFGVENAPRGLCAAGCLLQ 241
>pdb|1RAP|A Chain A, The Structure And Function Of Omega Loop A Replacements
In Cytochrome C
Length = 108
Score = 26.9 bits (58), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 16/27 (59%), Gaps = 3/27 (11%)
Query: 71 QKGVSLFRQACIGCH---DGGGNVIQP 94
+KG +LF+ C+ CH GG N + P
Sbjct: 9 KKGATLFKTRCLQCHTFDQGGANKVGP 35
>pdb|1RAQ|A Chain A, The Structure And Function Of Omega Loop A Replacements
In Cytochrome C
Length = 108
Score = 26.9 bits (58), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 16/27 (59%), Gaps = 3/27 (11%)
Query: 71 QKGVSLFRQACIGCH---DGGGNVIQP 94
+KG +LF+ C+ CH GG N + P
Sbjct: 9 KKGATLFKTRCLQCHTVDQGGANKVGP 35
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
0.322 0.138 0.424
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,173,864
Number of Sequences: 62578
Number of extensions: 216103
Number of successful extensions: 728
Number of sequences better than 100.0: 35
Number of HSP's better than 100.0 without gapping: 27
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 687
Number of HSP's gapped (non-prelim): 35
length of query: 172
length of database: 14,973,337
effective HSP length: 92
effective length of query: 80
effective length of database: 9,216,161
effective search space: 737292880
effective search space used: 737292880
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 48 (23.1 bits)