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= 036786
(158 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1EKG|A Chain A, Mature Human Frataxin
Length = 127
Score = 73.9 bits (180), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 38/70 (54%), Positives = 48/70 (68%), Gaps = 2/70 (2%)
Query: 82 LQEDEFHRLANSTIHDLQEKFEEYGDT-IQIDGFDVDYGNEVLTLKLGA-LGTYVLNKQT 139
L E + RLA T+ L E FE+ D + +DV +G+ VLT+KLG LGTYV+NKQT
Sbjct: 7 LDETTYERLAEETLDSLAEFFEDLADKPYTFEDYDVSFGSGVLTVKLGGDLGTYVINKQT 66
Query: 140 PNRQIWLSSP 149
PN+QIWLSSP
Sbjct: 67 PNKQIWLSSP 76
>pdb|3S4M|A Chain A, Crystal Structure Of Wild-Type Human Frataxin
Length = 129
Score = 73.9 bits (180), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 41/84 (48%), Positives = 55/84 (65%), Gaps = 7/84 (8%)
Query: 82 LQEDEFHRLANSTIHDLQEKFEEYGDT-IQIDGFDVDYGNEVLTLKLGA-LGTYVLNKQT 139
L E + RLA T+ L E FE+ D + +DV +G+ VLT+KLG LGTYV+NKQT
Sbjct: 9 LDETTYERLAEETLDSLAEFFEDLADKPYTFEDYDVSFGSGVLTVKLGGDLGTYVINKQT 68
Query: 140 PNRQIWLSSPV----RY-YCGRSY 158
PN+QIWLSSP RY + G+++
Sbjct: 69 PNKQIWLSSPSSGPKRYDWTGKNW 92
>pdb|3T3X|A Chain A, 1.57 A Structure Of Friedreich's Ataxia Frataxin Variant
R165c
pdb|3T3X|B Chain B, 1.57 A Structure Of Friedreich's Ataxia Frataxin Variant
R165c
Length = 129
Score = 73.6 bits (179), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 38/70 (54%), Positives = 48/70 (68%), Gaps = 2/70 (2%)
Query: 82 LQEDEFHRLANSTIHDLQEKFEEYGDT-IQIDGFDVDYGNEVLTLKLGA-LGTYVLNKQT 139
L E + RLA T+ L E FE+ D + +DV +G+ VLT+KLG LGTYV+NKQT
Sbjct: 9 LDETTYERLAEETLDSLAEFFEDLADKPYTFEDYDVSFGSGVLTVKLGGDLGTYVINKQT 68
Query: 140 PNRQIWLSSP 149
PN+QIWLSSP
Sbjct: 69 PNKQIWLSSP 78
>pdb|1LY7|A Chain A, The Solution Structure Of The The C-Terminal Domain Of
Frataxin, The Protein Responsible For Friedreich Ataxia
Length = 121
Score = 72.4 bits (176), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 37/68 (54%), Positives = 47/68 (69%), Gaps = 2/68 (2%)
Query: 84 EDEFHRLANSTIHDLQEKFEEYGDT-IQIDGFDVDYGNEVLTLKLGA-LGTYVLNKQTPN 141
E + RLA T+ L E FE+ D + +DV +G+ VLT+KLG LGTYV+NKQTPN
Sbjct: 3 ETTYERLAEETLDSLAEFFEDLADKPYTFEDYDVSFGSGVLTVKLGGDLGTYVINKQTPN 62
Query: 142 RQIWLSSP 149
+QIWLSSP
Sbjct: 63 KQIWLSSP 70
>pdb|3T3K|A Chain A, 1.24 A Structure Of Friedreich's Ataxia Frataxin Variant
Q148r
Length = 129
Score = 72.0 bits (175), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 37/70 (52%), Positives = 48/70 (68%), Gaps = 2/70 (2%)
Query: 82 LQEDEFHRLANSTIHDLQEKFEEYGDT-IQIDGFDVDYGNEVLTLKLGA-LGTYVLNKQT 139
L E + RLA T+ L E FE+ D + +DV +G+ VLT+KLG LGTYV+NK+T
Sbjct: 9 LDETTYERLAEETLDSLAEFFEDLADKPYTFEDYDVSFGSGVLTVKLGGDLGTYVINKRT 68
Query: 140 PNRQIWLSSP 149
PN+QIWLSSP
Sbjct: 69 PNKQIWLSSP 78
>pdb|3T3L|A Chain A, 1.15 A Structure Of Human Frataxin Variant Q153a
Length = 129
Score = 71.6 bits (174), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 37/70 (52%), Positives = 47/70 (67%), Gaps = 2/70 (2%)
Query: 82 LQEDEFHRLANSTIHDLQEKFEEYGDT-IQIDGFDVDYGNEVLTLKLGA-LGTYVLNKQT 139
L E + RLA T+ L E FE+ D + +DV +G+ VLT+KLG LGTYV+NKQT
Sbjct: 9 LDETTYERLAEETLDSLAEFFEDLADKPYTFEDYDVSFGSGVLTVKLGGDLGTYVINKQT 68
Query: 140 PNRQIWLSSP 149
PN+ IWLSSP
Sbjct: 69 PNKAIWLSSP 78
>pdb|3T3J|A Chain A, 1.70 A Structure Of Friedreich's Ataxia Frataxin Variant
N146k
Length = 129
Score = 71.6 bits (174), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 37/70 (52%), Positives = 47/70 (67%), Gaps = 2/70 (2%)
Query: 82 LQEDEFHRLANSTIHDLQEKFEEYGDT-IQIDGFDVDYGNEVLTLKLGA-LGTYVLNKQT 139
L E + RLA T+ L E FE+ D + +DV +G+ VLT+KLG LGTYV+ KQT
Sbjct: 9 LDETTYERLAEETLDSLAEFFEDLADKPYTFEDYDVSFGSGVLTVKLGGDLGTYVIKKQT 68
Query: 140 PNRQIWLSSP 149
PN+QIWLSSP
Sbjct: 69 PNKQIWLSSP 78
>pdb|3T3T|A Chain A, 1.38 A Structure Of Human Frataxin Variant Q148g
pdb|3T3T|B Chain B, 1.38 A Structure Of Human Frataxin Variant Q148g
pdb|3T3T|C Chain C, 1.38 A Structure Of Human Frataxin Variant Q148g
pdb|3T3T|D Chain D, 1.38 A Structure Of Human Frataxin Variant Q148g
Length = 129
Score = 71.2 bits (173), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 37/70 (52%), Positives = 47/70 (67%), Gaps = 2/70 (2%)
Query: 82 LQEDEFHRLANSTIHDLQEKFEEYGDT-IQIDGFDVDYGNEVLTLKLGA-LGTYVLNKQT 139
L E + RLA T+ L E FE+ D + +DV +G+ VLT+KLG LGTYV+NK T
Sbjct: 9 LDETTYERLAEETLDSLAEFFEDLADKPYTFEDYDVSFGSGVLTVKLGGDLGTYVINKGT 68
Query: 140 PNRQIWLSSP 149
PN+QIWLSSP
Sbjct: 69 PNKQIWLSSP 78
>pdb|3S5F|A Chain A, Crystal Structure Of Human Frataxin Variant W155f
pdb|3S5F|B Chain B, Crystal Structure Of Human Frataxin Variant W155f
Length = 129
Score = 69.7 bits (169), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 37/70 (52%), Positives = 48/70 (68%), Gaps = 2/70 (2%)
Query: 82 LQEDEFHRLANSTIHDLQEKFEEYGDT-IQIDGFDVDYGNEVLTLKLGA-LGTYVLNKQT 139
L E + RLA T+ L E FE+ D + +DV +G+ VLT+KLG LGTYV+NKQT
Sbjct: 9 LDETTYERLAEETLDSLAEFFEDLADKPYTFEDYDVSFGSGVLTVKLGGDLGTYVINKQT 68
Query: 140 PNRQIWLSSP 149
PN+QI+LSSP
Sbjct: 69 PNKQIFLSSP 78
>pdb|3S5D|A Chain A, Crystal Structure Of Human Frataxin Variant W155a
Length = 129
Score = 68.2 bits (165), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 37/70 (52%), Positives = 47/70 (67%), Gaps = 2/70 (2%)
Query: 82 LQEDEFHRLANSTIHDLQEKFEEYGDT-IQIDGFDVDYGNEVLTLKLGA-LGTYVLNKQT 139
L E + RLA T+ L E FE+ D + +DV +G+ VLT+KLG LGTYV+NKQT
Sbjct: 9 LDETTYERLAEETLDSLAEFFEDLADKPYTFEDYDVSFGSGVLTVKLGGDLGTYVINKQT 68
Query: 140 PNRQIWLSSP 149
PN+QI LSSP
Sbjct: 69 PNKQIALSSP 78
>pdb|3S5E|A Chain A, Crystal Structure Of Human Frataxin Variant W155r, One Of
The Friedreich's Ataxia Point Mutations
Length = 129
Score = 67.8 bits (164), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 37/70 (52%), Positives = 47/70 (67%), Gaps = 2/70 (2%)
Query: 82 LQEDEFHRLANSTIHDLQEKFEEYGDT-IQIDGFDVDYGNEVLTLKLGA-LGTYVLNKQT 139
L E + RLA T+ L E FE+ D + +DV +G+ VLT+KLG LGTYV+NKQT
Sbjct: 9 LDETTYERLAEETLDSLAEFFEDLADKPYTFEDYDVSFGSGVLTVKLGGDLGTYVINKQT 68
Query: 140 PNRQIWLSSP 149
PN+QI LSSP
Sbjct: 69 PNKQIRLSSP 78
>pdb|2GA5|A Chain A, Yeast Frataxin
Length = 123
Score = 54.7 bits (130), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 26/66 (39%), Positives = 42/66 (63%)
Query: 85 DEFHRLANSTIHDLQEKFEEYGDTIQIDGFDVDYGNEVLTLKLGALGTYVLNKQTPNRQI 144
+++H A+ + L + EE + DV+ + V+TL++ A GTYV+NKQ PN+QI
Sbjct: 20 EKYHEEADDYLDHLLDSLEELSEAHPDCIPDVELSHGVMTLEIPAFGTYVINKQPPNKQI 79
Query: 145 WLSSPV 150
WL+SP+
Sbjct: 80 WLASPL 85
>pdb|2FQL|A Chain A, Crystal Structure Of Trimeric Frataxin From The Yeast
Saccharomyces Cerevisiae
pdb|3OEQ|A Chain A, Crystal Structure Of Trimeric Frataxin From The Yeast
Saccharomyces Cerevisiae, With Full Length N-Terminus
pdb|3OER|A Chain A, Crystal Structure Of Trimeric Frataxin From The Yeast
Saccharomyces Cerevisiae, Complexed With Cobalt
pdb|4EC2|A Chain A, Crystal Structure Of Trimeric Frataxin From The Yeast
Saccharomyces Cerevisiae, Complexed With Ferrous
Length = 123
Score = 53.1 bits (126), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 26/53 (49%), Positives = 37/53 (69%), Gaps = 4/53 (7%)
Query: 98 LQEKFEEYGDTIQIDGFDVDYGNEVLTLKLGALGTYVLNKQTPNRQIWLSSPV 150
L+E E + D I DV+ + V+TL++ A GTYV+NKQ PN+QIWL+SP+
Sbjct: 37 LEELSEAHPDCIP----DVELSHGVMTLEIPAFGTYVINKQPPNKQIWLASPL 85
>pdb|3NPG|A Chain A, Crystal Structure Of A Protein With Unknown Function From
Duf364 Family (Ph1506) From Pyrococcus Horikoshii At
2.70 A Resolution
pdb|3NPG|B Chain B, Crystal Structure Of A Protein With Unknown Function From
Duf364 Family (Ph1506) From Pyrococcus Horikoshii At
2.70 A Resolution
pdb|3NPG|C Chain C, Crystal Structure Of A Protein With Unknown Function From
Duf364 Family (Ph1506) From Pyrococcus Horikoshii At
2.70 A Resolution
pdb|3NPG|D Chain D, Crystal Structure Of A Protein With Unknown Function From
Duf364 Family (Ph1506) From Pyrococcus Horikoshii At
2.70 A Resolution
Length = 249
Score = 28.5 bits (62), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 27/100 (27%), Positives = 42/100 (42%), Gaps = 8/100 (8%)
Query: 11 RRLSGAVKPSSPIHRSCSRLLVPSRIINMLPGNSLRHPSSTLITATRNFSSRPSGLDSDF 70
R L A + R + + PS + + +SL TL A N S+ D
Sbjct: 43 RALGVAXTLPEEVQRYTNSIEEPSLLEFIDKADSLNIIERTLGVAAINAVSQYY---IDL 99
Query: 71 QAPEAIDYRSLLQEDEFHRLAN-----STIHDLQEKFEEY 105
+ + ID L+Q+DE R+A + L+EK+E Y
Sbjct: 100 REAKWIDVTELIQQDEIKRIAIIGNXPPVVRTLKEKYEVY 139
>pdb|1B3N|A Chain A, Beta-Ketoacyl Carrier Protein Synthase As A Drug Target,
Implications From The Crystal Structure Of A Complex
With The Inhibitor Cerulenin.
pdb|1KAS|A Chain A, Beta-Ketoacyl-Acp Synthase Ii From Escherichia Coli
Length = 412
Score = 28.1 bits (61), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 20/36 (55%), Gaps = 5/36 (13%)
Query: 25 RSCSRLLVPSRIINMLPGN-----SLRHPSSTLITA 55
R S VPS I+NM+ G+ LR PS ++ TA
Sbjct: 127 RKISPFFVPSTIVNMVAGHLTIMYGLRGPSISIATA 162
>pdb|3HNZ|A Chain A, Structure Of E. Coli Fabf(C163a) In Complex With
Platensimycin
pdb|3HO2|A Chain A, Structure Of E.Coli Fabf(C163a) In Complex With Platencin
pdb|3HO9|A Chain A, Structure Of E.Coli Fabf(C163a) In Complex With Platencin
A1
pdb|3I8P|A Chain A, Crystal Structure Of E. Coli Fabf(C163a) In Complex With
Platensimycin A1
Length = 427
Score = 28.1 bits (61), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 20/37 (54%), Gaps = 5/37 (13%)
Query: 25 RSCSRLLVPSRIINMLPGN-----SLRHPSSTLITAT 56
R S VPS I+NM+ G+ LR PS ++ TA
Sbjct: 142 RKISPFFVPSTIVNMVAGHLTIMYGLRGPSISIATAA 178
>pdb|2GFV|A Chain A, Structure Of E. Coli Fabf (Kasii) C163q Mutant
pdb|2GFX|A Chain A, Structure Of E. Coli Fabf(C163q) In Complex With
Platensimycin
pdb|3G0Y|A Chain A, Structure Of E. Coli Fabf(C163q) In Complex With
Dihydroplatensimycin
pdb|3G11|A Chain A, Structure Of E. Coli Fabf(C163q) In Complex With
Dihydrophenyl Platensimycin
Length = 427
Score = 28.1 bits (61), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 20/36 (55%), Gaps = 5/36 (13%)
Query: 25 RSCSRLLVPSRIINMLPGN-----SLRHPSSTLITA 55
R S VPS I+NM+ G+ LR PS ++ TA
Sbjct: 142 RKISPFFVPSTIVNMVAGHLTIMYGLRGPSISIATA 177
>pdb|1SOY|A Chain A, Solution Structure Of The Bacterial Frataxin Orthologue,
Cyay
Length = 108
Score = 28.1 bits (61), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 36/72 (50%), Gaps = 3/72 (4%)
Query: 82 LQEDEFHRLANSTIHDLQEKFEEYGDTIQIDGFDVDYGNEVLTLKLGALGTYVLNKQTPN 141
+ + EFHRLA+ ++E+ +++ ID + VLT+ ++N+Q P
Sbjct: 3 MNDSEFHRLADQLWLTIEERLDDWDGDSDID---CEINGGVLTITFENGSKIIINRQEPL 59
Query: 142 RQIWLSSPVRYY 153
Q+WL++ Y
Sbjct: 60 HQVWLATKQGGY 71
>pdb|2GFY|A Chain A, Structure Of E. Coli Fabf(K335a) Mutant With Covalently
Linked Dodecanoic Acid
Length = 427
Score = 28.1 bits (61), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 20/36 (55%), Gaps = 5/36 (13%)
Query: 25 RSCSRLLVPSRIINMLPGN-----SLRHPSSTLITA 55
R S VPS I+NM+ G+ LR PS ++ TA
Sbjct: 142 RKISPFFVPSTIVNMVAGHLTIMYGLRGPSISIATA 177
>pdb|2GFW|A Chain A, Structure Of Wild Type E. Coli Fabf (Kasii)
Length = 427
Score = 28.1 bits (61), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 20/36 (55%), Gaps = 5/36 (13%)
Query: 25 RSCSRLLVPSRIINMLPGN-----SLRHPSSTLITA 55
R S VPS I+NM+ G+ LR PS ++ TA
Sbjct: 142 RKISPFFVPSTIVNMVAGHLTIMYGLRGPSISIATA 177
>pdb|1EW4|A Chain A, Crystal Structure Of Escherichia Coli Cyay Protein Reveals
A Novel Fold For The Frataxin Family
pdb|2EFF|A Chain A, Crystal Structure Analysis Of The Complex Between Cyay And
Co(Ii)
pdb|2P1X|A Chain A, Crystal Structure Analysis Of The Complex Between Cyay And
Eu(Iii)
Length = 106
Score = 28.1 bits (61), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 36/72 (50%), Gaps = 3/72 (4%)
Query: 82 LQEDEFHRLANSTIHDLQEKFEEYGDTIQIDGFDVDYGNEVLTLKLGALGTYVLNKQTPN 141
+ + EFHRLA+ ++E+ +++ ID + VLT+ ++N+Q P
Sbjct: 1 MNDSEFHRLADQLWLTIEERLDDWDGDSDID---CEINGGVLTITFENGSKIIINRQEPL 57
Query: 142 RQIWLSSPVRYY 153
Q+WL++ Y
Sbjct: 58 HQVWLATKQGGY 69
>pdb|1OSB|A Chain A, Conjugative Relaxase Trwc In Complex With Orit Dna. Metal-
Free Structure.
pdb|1OSB|C Chain C, Conjugative Relaxase Trwc In Complex With Orit Dna. Metal-
Free Structure
Length = 293
Score = 26.6 bits (57), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 26/51 (50%), Gaps = 1/51 (1%)
Query: 35 RIINMLPGNSLRHPSSTLITATRNFSSRPSGLDSDFQAPEAIDYRSLLQED 85
R +L GN + + +ATR S GLD F AP+++ ++L+ D
Sbjct: 54 RFRELLAGN-IGEGHRIMRSATRQDSKERIGLDLTFSAPKSVSLQALVAGD 103
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
0.318 0.135 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,769,099
Number of Sequences: 62578
Number of extensions: 186706
Number of successful extensions: 476
Number of sequences better than 100.0: 28
Number of HSP's better than 100.0 without gapping: 19
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 433
Number of HSP's gapped (non-prelim): 28
length of query: 158
length of database: 14,973,337
effective HSP length: 91
effective length of query: 67
effective length of database: 9,278,739
effective search space: 621675513
effective search space used: 621675513
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 47 (22.7 bits)