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= 038787
(153 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WFP|A Chain A, Solution Structure Of The Zf-an1 Domain From Arabiopsis
Thaliana F5o11.17 Protein
Length = 74
Score = 60.1 bits (144), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 25/39 (64%), Positives = 28/39 (71%)
Query: 92 RCEICDKKVGSIELKCRCGHLYCGTHRYPKEHACTFDFK 130
RC C+KKVG KCRCG +CGTHRYP+ H C FDFK
Sbjct: 27 RCLSCNKKVGVTGFKCRCGSTFCGTHRYPESHECQFDFK 65
>pdb|1WG2|A Chain A, Solution Structure Of Zf-An1 Domain From Arabidopsis
Thaliana
Length = 64
Score = 58.5 bits (140), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 23/42 (54%), Positives = 32/42 (76%)
Query: 90 EKRCEICDKKVGSIELKCRCGHLYCGTHRYPKEHACTFDFKK 131
RC C+KKVG + KC+CG +CG+HRYP++H C+FDFK+
Sbjct: 15 NNRCFSCNKKVGVMGFKCKCGSTFCGSHRYPEKHECSFDFKE 56
>pdb|1WFH|A Chain A, Solution Structrue Of The Zf-An1 Domain From Arabidopsis
Thaliana At2g36320 Protein
Length = 64
Score = 57.8 bits (138), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 23/41 (56%), Positives = 28/41 (68%)
Query: 91 KRCEICDKKVGSIELKCRCGHLYCGTHRYPKEHACTFDFKK 131
RC +C K+VG CRCG +CG+HRYP+ H CTFDFK
Sbjct: 16 NRCTVCRKRVGLTGFMCRCGTTFCGSHRYPEVHGCTFDFKS 56
>pdb|1WFF|A Chain A, Solution Structure Of The Zf-An1 Domain From Mouse Riken
Cdna 2810002d23 Protein
Length = 85
Score = 55.1 bits (131), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 36/61 (59%), Gaps = 1/61 (1%)
Query: 84 KTTSALEKRCEICDKKVG-SIELKCRCGHLYCGTHRYPKEHACTFDFKKFDRETLVEDDP 142
+T + K C +C KK G + +CRCG+ +C +HRY + H C +D+K R L E +P
Sbjct: 19 QTKKKIMKHCFLCGKKTGLATSFECRCGNNFCASHRYAEAHGCNYDYKSAGRRYLEEANP 78
Query: 143 L 143
+
Sbjct: 79 V 79
>pdb|1WFL|A Chain A, Solution Structure Of The Zf-An1 Domain From Mouse Zinc
Finger Protein 216
Length = 74
Score = 51.2 bits (121), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 21/41 (51%), Positives = 28/41 (68%)
Query: 90 EKRCEICDKKVGSIELKCRCGHLYCGTHRYPKEHACTFDFK 130
+ RC +C KKVG CRCG+L+CG HRY +H C +D+K
Sbjct: 25 KNRCFMCRKKVGLTGFDCRCGNLFCGLHRYSDKHNCPYDYK 65
>pdb|2KZY|A Chain A, Solution Nmr Structure Of The Znf216 A20 Zinc Finger
pdb|2L00|A Chain A, Solution Structure Of The Non-Covalent Complex Of The
Znf216 A20 Domain With Ubiquitin
Length = 62
Score = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 17/35 (48%), Positives = 20/35 (57%)
Query: 3 PPLCAKGCGFYGTKEHKSMCSKCYNDFLEEQVTDG 37
P LC+ GCGFYG MCS CY + L+ Q G
Sbjct: 13 PMLCSTGCGFYGNPRTNGMCSVCYKEHLQRQQNSG 47
>pdb|1X4W|A Chain A, Solution Structure Of The Zf-An1 Domain From Human
Hypothetical Protein Flj13222
Length = 67
Score = 38.9 bits (89), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 27/41 (65%), Gaps = 3/41 (7%)
Query: 91 KRCEICDKKVGSIELK---CRCGHLYCGTHRYPKEHACTFD 128
+RC C K+ ++ + CRCG+++C HR P++H CTFD
Sbjct: 16 RRCFQCQTKLELVQQELGSCRCGYVFCMLHRLPEQHDCTFD 56
>pdb|2C7M|A Chain A, Human Rabex-5 Residues 1-74 In Complex With Ubiquitin
pdb|2C7N|A Chain A, Human Rabex-5 Residues 1-74 In Complex With Ubiquitin
pdb|2C7N|C Chain C, Human Rabex-5 Residues 1-74 In Complex With Ubiquitin
pdb|2C7N|E Chain E, Human Rabex-5 Residues 1-74 In Complex With Ubiquitin
pdb|2C7N|G Chain G, Human Rabex-5 Residues 1-74 In Complex With Ubiquitin
pdb|2C7N|I Chain I, Human Rabex-5 Residues 1-74 In Complex With Ubiquitin
pdb|2C7N|K Chain K, Human Rabex-5 Residues 1-74 In Complex With Ubiquitin
Length = 74
Score = 34.3 bits (77), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 16/24 (66%)
Query: 5 LCAKGCGFYGTKEHKSMCSKCYND 28
LC KGCG+YG + CSKC+ +
Sbjct: 18 LCKKGCGYYGNPAWQGFCSKCWRE 41
>pdb|2FID|B Chain B, Crystal Structure Of A Bovine Rabex-5 Fragment Complexed
With Ubiquitin
pdb|2FIF|B Chain B, Crystal Structure Of A Bovine Rabex-5 Fragment Complexed
With Ubiquitin
pdb|2FIF|D Chain D, Crystal Structure Of A Bovine Rabex-5 Fragment Complexed
With Ubiquitin
pdb|2FIF|F Chain F, Crystal Structure Of A Bovine Rabex-5 Fragment Complexed
With Ubiquitin
Length = 70
Score = 33.9 bits (76), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 16/24 (66%)
Query: 5 LCAKGCGFYGTKEHKSMCSKCYND 28
LC KGCG+YG + CSKC+ +
Sbjct: 15 LCKKGCGYYGNPAWQGFCSKCWRE 38
>pdb|2AM1|A Chain A, Sp Protein Ligand 1
pdb|2AM2|A Chain A, Sp Protein Ligand 2
Length = 454
Score = 28.1 bits (61), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 31/63 (49%), Gaps = 2/63 (3%)
Query: 27 NDFLEEQVTDGV-VKRPLKLMQPNPSILVFDPRXX-XXXXXXXXERTTIDSAAVECSSGK 84
+DF+E +G V K + +P ILV D E+TT+D AV S+GK
Sbjct: 52 HDFIETAFENGAAVTLSEKEVSNHPYILVDDVLTAFQSLASYYLEKTTVDVFAVTGSNGK 111
Query: 85 TTS 87
TT+
Sbjct: 112 TTT 114
>pdb|2AWZ|A Chain A, Hepatitis C Virus Ns5b Rna Polymerase In Complex With A
Covalent Inhibitor (5h)
pdb|2AWZ|B Chain B, Hepatitis C Virus Ns5b Rna Polymerase In Complex With A
Covalent Inhibitor (5h)
pdb|2AX0|A Chain A, Hepatitis C Virus Ns5b Rna Polymerase In Complex With A
Covalent Inhibitor (5x)
pdb|2AX0|B Chain B, Hepatitis C Virus Ns5b Rna Polymerase In Complex With A
Covalent Inhibitor (5x)
pdb|2AX1|A Chain A, Hepatitis C Virus Ns5b Rna Polymerase In Complex With A
Covalent Inhibitor (5ee)
pdb|2AX1|B Chain B, Hepatitis C Virus Ns5b Rna Polymerase In Complex With A
Covalent Inhibitor (5ee)
Length = 580
Score = 26.9 bits (58), Expect = 5.1, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 7/42 (16%)
Query: 1 MTPPLCAKGCGFYGTKEHKSMCSKCYN-------DFLEEQVT 35
+TPP AK YG K+ +++ SK N D LE+ VT
Sbjct: 91 LTPPHSAKSKFGYGAKDVRNLSSKAVNHIHSVWKDLLEDTVT 132
>pdb|4EO6|A Chain A, Hcv Ns5b Polymerase Inhibitors: Tri-Substituted
Acylhydrazines As Tertiary Amide Bioisosteres
pdb|4EO6|B Chain B, Hcv Ns5b Polymerase Inhibitors: Tri-Substituted
Acylhydrazines As Tertiary Amide Bioisosteres
pdb|4EO8|A Chain A, Hcv Ns5b Polymerase Inhibitors: Tri-Substituted
Acylhydrazines As Tertiary Amide Bioisosteres
pdb|4EO8|B Chain B, Hcv Ns5b Polymerase Inhibitors: Tri-Substituted
Acylhydrazines As Tertiary Amide Bioisosteres
Length = 577
Score = 26.9 bits (58), Expect = 5.1, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 7/42 (16%)
Query: 1 MTPPLCAKGCGFYGTKEHKSMCSKCYN-------DFLEEQVT 35
+TPP AK YG K+ +++ SK N D LE+ VT
Sbjct: 98 LTPPHSAKSKFGYGAKDVRNLSSKAVNHIHSVWKDLLEDTVT 139
>pdb|3HHK|A Chain A, Hcv Ns5b Polymerase Complex With A Substituted
Benzothiadizine
pdb|3HHK|B Chain B, Hcv Ns5b Polymerase Complex With A Substituted
Benzothiadizine
Length = 563
Score = 26.9 bits (58), Expect = 5.1, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 7/42 (16%)
Query: 1 MTPPLCAKGCGFYGTKEHKSMCSKCYN-------DFLEEQVT 35
+TPP AK YG K+ +++ SK N D LE+ VT
Sbjct: 91 LTPPHSAKSKFGYGAKDVRNLSSKAVNHIHSVWKDLLEDTVT 132
>pdb|2GIQ|A Chain A, Hepatitis C Virus Rna-Dependent Rna Polymerase Ns5b With
Nni-2 Inhibitor
pdb|2GIQ|B Chain B, Hepatitis C Virus Rna-Dependent Rna Polymerase Ns5b With
Nni-2 Inhibitor
pdb|2GIR|A Chain A, Hepatitis C Virus Rna-Dependent Rna Polymerase Ns5b With
Nni-1 Inhibitor
pdb|2GIR|B Chain B, Hepatitis C Virus Rna-Dependent Rna Polymerase Ns5b With
Nni-1 Inhibitor
Length = 568
Score = 26.9 bits (58), Expect = 5.1, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 7/42 (16%)
Query: 1 MTPPLCAKGCGFYGTKEHKSMCSKCYN-------DFLEEQVT 35
+TPP AK YG K+ +++ SK N D LE+ VT
Sbjct: 97 LTPPHSAKSKFGYGAKDVRNLSSKAVNHIHSVWKDLLEDTVT 138
>pdb|2FVC|A Chain A, Crystal Structure Of Ns5b Bk Strain (Delta 24) In Complex
With A 3-(1,1-Dioxo-2h-(1,2,4)-Benzothiadiazin-3-Yl)-4-
Hydroxy-2(1h)-Quinolinone
pdb|2FVC|B Chain B, Crystal Structure Of Ns5b Bk Strain (Delta 24) In Complex
With A 3-(1,1-Dioxo-2h-(1,2,4)-Benzothiadiazin-3-Yl)-4-
Hydroxy-2(1h)-Quinolinone
Length = 563
Score = 26.9 bits (58), Expect = 5.1, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 7/42 (16%)
Query: 1 MTPPLCAKGCGFYGTKEHKSMCSKCYN-------DFLEEQVT 35
+TPP AK YG K+ +++ SK N D LE+ VT
Sbjct: 91 LTPPHSAKSKFGYGAKDVRNLSSKAVNHIHSVWKDLLEDTVT 132
>pdb|2I1R|A Chain A, Novel Thiazolones As Hcv Ns5b Polymerase Inhibitors:
Further Designs, Synthesis, Sar And X-Ray Complex
Structure
pdb|2I1R|B Chain B, Novel Thiazolones As Hcv Ns5b Polymerase Inhibitors:
Further Designs, Synthesis, Sar And X-Ray Complex
Structure
pdb|2HWH|A Chain A, Hcv Ns5b Allosteric Inhibitor Complex
pdb|2HWH|B Chain B, Hcv Ns5b Allosteric Inhibitor Complex
pdb|2HWI|A Chain A, Hcv Ns5b Allosteric Inhibitor Complex
pdb|2HWI|B Chain B, Hcv Ns5b Allosteric Inhibitor Complex
pdb|2IJN|A Chain A, Isothiazoles As Active-Site Inhibitors Of Hcv Ns5b
Polymerase
pdb|2IJN|B Chain B, Isothiazoles As Active-Site Inhibitors Of Hcv Ns5b
Polymerase
pdb|2O5D|A Chain A, Thiazolone-Acylsulfonamides As Novel Hcv Ns5b Polymerase
Allosteric Inhibitors: Convergence Of Structure-Based
Drug Design And X-Ray Crystallographic Study
pdb|2O5D|B Chain B, Thiazolone-Acylsulfonamides As Novel Hcv Ns5b Polymerase
Allosteric Inhibitors: Convergence Of Structure-Based
Drug Design And X-Ray Crystallographic Study
Length = 576
Score = 26.9 bits (58), Expect = 5.1, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 7/42 (16%)
Query: 1 MTPPLCAKGCGFYGTKEHKSMCSKCYN-------DFLEEQVT 35
+TPP AK YG K+ +++ SK N D LE+ VT
Sbjct: 97 LTPPHSAKSKFGYGAKDVRNLSSKAVNHIHSVWKDLLEDTVT 138
>pdb|2ZKU|A Chain A, Structure Of Hepatitis C Virus Ns5b Polymerase In A New
Crystal Form
pdb|2ZKU|B Chain B, Structure Of Hepatitis C Virus Ns5b Polymerase In A New
Crystal Form
pdb|2ZKU|C Chain C, Structure Of Hepatitis C Virus Ns5b Polymerase In A New
Crystal Form
pdb|2ZKU|D Chain D, Structure Of Hepatitis C Virus Ns5b Polymerase In A New
Crystal Form
pdb|3PHE|A Chain A, Hcv Ns5b With A Bound Quinolone Inhibitor
pdb|3PHE|B Chain B, Hcv Ns5b With A Bound Quinolone Inhibitor
pdb|3PHE|C Chain C, Hcv Ns5b With A Bound Quinolone Inhibitor
pdb|3PHE|D Chain D, Hcv Ns5b With A Bound Quinolone Inhibitor
pdb|3UDL|A Chain A, 3-Heterocyclyl Quinolone Bound To Hcv Ns5b
pdb|3UDL|B Chain B, 3-Heterocyclyl Quinolone Bound To Hcv Ns5b
pdb|3UDL|C Chain C, 3-Heterocyclyl Quinolone Bound To Hcv Ns5b
pdb|3UDL|D Chain D, 3-Heterocyclyl Quinolone Bound To Hcv Ns5b
Length = 576
Score = 26.9 bits (58), Expect = 5.2, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 7/42 (16%)
Query: 1 MTPPLCAKGCGFYGTKEHKSMCSKCYN-------DFLEEQVT 35
+TPP AK YG K+ +++ SK N D LE+ VT
Sbjct: 97 LTPPHSAKSKFGYGAKDVRNLSSKAVNHIHSVWKDLLEDTVT 138
>pdb|3BR9|A Chain A, Crystal Structure Of Hcv Ns5b Polymerase With A Novel
Pyridazinone Inhibitor
pdb|3BR9|B Chain B, Crystal Structure Of Hcv Ns5b Polymerase With A Novel
Pyridazinone Inhibitor
pdb|3BSA|A Chain A, Crystal Structure Of Hcv Ns5b Polymerase With A Novel
Pyridazinone Inhibitor
pdb|3BSA|B Chain B, Crystal Structure Of Hcv Ns5b Polymerase With A Novel
Pyridazinone Inhibitor
pdb|3BSC|A Chain A, Crystal Structure Of Hcv Ns5b Polymerase With A Novel
Pyridazinone Inhibitor
pdb|3BSC|B Chain B, Crystal Structure Of Hcv Ns5b Polymerase With A Novel
Pyridazinone Inhibitor
pdb|3CO9|A Chain A, Crystal Structure Of Hcv Ns5b Polymerase With A Novel
Pyridazinone Inhibitor
pdb|3CO9|B Chain B, Crystal Structure Of Hcv Ns5b Polymerase With A Novel
Pyridazinone Inhibitor
pdb|3CDE|A Chain A, Crystal Structure Of Hcv Ns5b Polymerase With A Novel
Pyridazinone Inhibitor
pdb|3CDE|B Chain B, Crystal Structure Of Hcv Ns5b Polymerase With A Novel
Pyridazinone Inhibitor
pdb|3CVK|A Chain A, Crystal Structure Of Hcv Ns5b Polymerase With A Novel
Pyridazinone Inhibitor
pdb|3CVK|B Chain B, Crystal Structure Of Hcv Ns5b Polymerase With A Novel
Pyridazinone Inhibitor
pdb|3CWJ|A Chain A, Crystal Structure Of Hcv Ns5b Polymerase With A Novel
Pyridazinone Inhibitor
pdb|3CWJ|B Chain B, Crystal Structure Of Hcv Ns5b Polymerase With A Novel
Pyridazinone Inhibitor
pdb|3D28|A Chain A, Crystal Structure Of Hcv Ns5b Polymerase With A Novel
Benzisothiazole Inhibitor
pdb|3D28|B Chain B, Crystal Structure Of Hcv Ns5b Polymerase With A Novel
Benzisothiazole Inhibitor
pdb|3D5M|A Chain A, Crystal Structure Of Hcv Ns5b Polymerase With A Novel
Pyridazinone Inhibitor
pdb|3D5M|B Chain B, Crystal Structure Of Hcv Ns5b Polymerase With A Novel
Pyridazinone Inhibitor
pdb|3E51|A Chain A, Crystal Structure Of Hcv Ns5b Polymerase With A Novel
Pyridazinone Inhibitor
pdb|3E51|B Chain B, Crystal Structure Of Hcv Ns5b Polymerase With A Novel
Pyridazinone Inhibitor
pdb|3GYN|A Chain A, Crystal Structure Of Hcv Ns5b Polymerase With A Novel
Monocyclic Dihydropyridinone Inhibitor
pdb|3GYN|B Chain B, Crystal Structure Of Hcv Ns5b Polymerase With A Novel
Monocyclic Dihydropyridinone Inhibitor
pdb|3H2L|A Chain A, Crystal Structure Of Hcv Ns5b Polymerase In Complex With A
Novel Bicyclic Dihydro-Pyridinone Inhibitor
pdb|3H2L|B Chain B, Crystal Structure Of Hcv Ns5b Polymerase In Complex With A
Novel Bicyclic Dihydro-Pyridinone Inhibitor
pdb|3IGV|A Chain A, Crystal Structure Of Hcv Ns5b Polymerase With A Novel
Monocyclic Dihydro-Pyridinone Inhibitor
pdb|3IGV|B Chain B, Crystal Structure Of Hcv Ns5b Polymerase With A Novel
Monocyclic Dihydro-Pyridinone Inhibitor
Length = 578
Score = 26.9 bits (58), Expect = 5.2, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 7/42 (16%)
Query: 1 MTPPLCAKGCGFYGTKEHKSMCSKCYN-------DFLEEQVT 35
+TPP AK YG K+ +++ SK N D LE+ VT
Sbjct: 91 LTPPHSAKSKFGYGAKDVRNLSSKAVNHIHSVWKDLLEDTVT 132
>pdb|3CIZ|A Chain A, Crystal Structure Of Hepatitis C Virus Rna-Dependent Rna
Polymerase Ns5b In Complex With Small Molecule Fragments
pdb|3CIZ|B Chain B, Crystal Structure Of Hepatitis C Virus Rna-Dependent Rna
Polymerase Ns5b In Complex With Small Molecule Fragments
pdb|3CJ0|A Chain A, Crystal Structure Of Hepatitis C Virus Rna-Dependent Rna
Polymerase Ns5b In Complex With Small Molecule Fragments
pdb|3CJ0|B Chain B, Crystal Structure Of Hepatitis C Virus Rna-Dependent Rna
Polymerase Ns5b In Complex With Small Molecule Fragments
pdb|3CJ2|A Chain A, Crystal Structure Of Hepatitis C Virus Rna-Dependent Rna
Polymerase Ns5b In Complex With Optimized Small Molecule
Fragments
pdb|3CJ2|B Chain B, Crystal Structure Of Hepatitis C Virus Rna-Dependent Rna
Polymerase Ns5b In Complex With Optimized Small Molecule
Fragments
pdb|3CJ3|A Chain A, Crystal Structure Of Hepatitis C Virus Rna-Dependent Rna
Polymerase Ns5b In Complex With Optimized Small Molecule
Fragments
pdb|3CJ3|B Chain B, Crystal Structure Of Hepatitis C Virus Rna-Dependent Rna
Polymerase Ns5b In Complex With Optimized Small Molecule
Fragments
pdb|3CJ4|A Chain A, Crystal Structure Of Hepatitis C Virus Rna-Dependent Rna
Polymerase Ns5b In Complex With Optimized Small Molecule
Fragments
pdb|3CJ4|B Chain B, Crystal Structure Of Hepatitis C Virus Rna-Dependent Rna
Polymerase Ns5b In Complex With Optimized Small Molecule
Fragments
pdb|3CJ5|A Chain A, Crystal Structure Of Hepatitis C Virus Rna-Dependent Rna
Polymerase Ns5b In Complex With Optimized Small Molecule
Fragments
pdb|3CJ5|B Chain B, Crystal Structure Of Hepatitis C Virus Rna-Dependent Rna
Polymerase Ns5b In Complex With Optimized Small Molecule
Fragments
pdb|3FQK|A Chain A, Hepatitis C Virus Polymerase Ns5b (Bk 1-570) With Hcv-796
Inhibitor
pdb|3FQK|B Chain B, Hepatitis C Virus Polymerase Ns5b (Bk 1-570) With Hcv-796
Inhibitor
pdb|3G86|A Chain A, Hepatitis C Virus Polymerase Ns5b (Bk 1-570) With Thiazine
Inhibitor
pdb|3G86|B Chain B, Hepatitis C Virus Polymerase Ns5b (Bk 1-570) With Thiazine
Inhibitor
pdb|3H59|A Chain A, Hepatitis C Virus Polymerase Ns5b With Thiazine Inhibitor
2
pdb|3H59|B Chain B, Hepatitis C Virus Polymerase Ns5b With Thiazine Inhibitor
2
pdb|3H5S|A Chain A, Hepatitis C Virus Polymerase Ns5b With Saccharin Inhibitor
pdb|3H5S|B Chain B, Hepatitis C Virus Polymerase Ns5b With Saccharin Inhibitor
pdb|3H5U|A Chain A, Hepatitis C Virus Polymerase Ns5b With Saccharin Inhibitor
1
pdb|3H5U|B Chain B, Hepatitis C Virus Polymerase Ns5b With Saccharin Inhibitor
1
pdb|3H98|A Chain A, Crystal Structure Of Hcv Ns5b 1b With (1,1-Dioxo-2h-[1,2,
4]benzothiadiazin-3-Yl) Azolo[1,5-A]pyrimidine
Derivative
pdb|3H98|B Chain B, Crystal Structure Of Hcv Ns5b 1b With (1,1-Dioxo-2h-[1,2,
4]benzothiadiazin-3-Yl) Azolo[1,5-A]pyrimidine
Derivative
Length = 576
Score = 26.9 bits (58), Expect = 5.2, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 7/42 (16%)
Query: 1 MTPPLCAKGCGFYGTKEHKSMCSKCYN-------DFLEEQVT 35
+TPP AK YG K+ +++ SK N D LE+ VT
Sbjct: 97 LTPPHSAKSKFGYGAKDVRNLSSKAVNHIHSVWKDLLEDTVT 138
>pdb|2JC0|A Chain A, Crystal Structure Of Hepatitis C Virus Polymerase In
Complex With Inhibitor Sb655264
pdb|2JC0|B Chain B, Crystal Structure Of Hepatitis C Virus Polymerase In
Complex With Inhibitor Sb655264
pdb|2JC1|A Chain A, Crystal Structure Of Hepatitis C Virus Polymerase In
Complex With Inhibitor Sb698223
pdb|2JC1|B Chain B, Crystal Structure Of Hepatitis C Virus Polymerase In
Complex With Inhibitor Sb698223
Length = 570
Score = 26.9 bits (58), Expect = 5.2, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 7/42 (16%)
Query: 1 MTPPLCAKGCGFYGTKEHKSMCSKCYN-------DFLEEQVT 35
+TPP AK YG K+ +++ SK N D LE+ VT
Sbjct: 91 LTPPHSAKSKFGYGAKDVRNLSSKAVNHIHSVWKDLLEDTVT 132
>pdb|2D3U|A Chain A, X-Ray Crystal Structure Of Hepatitis C Virus Rna Dependent
Rna Polymerase In Complex With Non-Nucleoside Analogue
Inhibitor
pdb|2D3U|B Chain B, X-Ray Crystal Structure Of Hepatitis C Virus Rna Dependent
Rna Polymerase In Complex With Non-Nucleoside Analogue
Inhibitor
pdb|2D3Z|A Chain A, X-Ray Crystal Structure Of Hepatitis C Virus Rna-Dependent
Rna Polymerase In Complex With Non-Nucleoside Analogue
Inhibitor
pdb|2D3Z|B Chain B, X-Ray Crystal Structure Of Hepatitis C Virus Rna-Dependent
Rna Polymerase In Complex With Non-Nucleoside Analogue
Inhibitor
pdb|2D41|A Chain A, X-Ray Crystal Structure Of Hepatitis C Virus Rna-Dependent
Rna Polymerase In Complex With Non-Nucleoside Inhibitor
pdb|2D41|B Chain B, X-Ray Crystal Structure Of Hepatitis C Virus Rna-Dependent
Rna Polymerase In Complex With Non-Nucleoside Inhibitor
Length = 570
Score = 26.9 bits (58), Expect = 5.2, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 7/42 (16%)
Query: 1 MTPPLCAKGCGFYGTKEHKSMCSKCYN-------DFLEEQVT 35
+TPP AK YG K+ +++ SK N D LE+ VT
Sbjct: 91 LTPPHSAKSKFGYGAKDVRNLSSKAVNHIHSVWKDLLEDTVT 132
>pdb|1NHU|A Chain A, Hepatitis C Virus Rna Polymerase In Complex With Non-
Nucleoside Analogue Inhibitor
pdb|1NHU|B Chain B, Hepatitis C Virus Rna Polymerase In Complex With Non-
Nucleoside Analogue Inhibitor
pdb|1NHV|A Chain A, Hepatitis C Virus Rna Polymerase In Complex With Non-
Nucleoside Analogue Inhibitor
pdb|1NHV|B Chain B, Hepatitis C Virus Rna Polymerase In Complex With Non-
Nucleoside Analogue Inhibitor
Length = 578
Score = 26.6 bits (57), Expect = 5.3, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 7/42 (16%)
Query: 1 MTPPLCAKGCGFYGTKEHKSMCSKCYN-------DFLEEQVT 35
+TPP AK YG K+ +++ SK N D LE+ VT
Sbjct: 99 LTPPHSAKSKFGYGAKDVRNLSSKAVNHIHSVWKDLLEDTVT 140
>pdb|1QUV|A Chain A, Crystal Structure Of The Rna Directed Rna Polymerase Of
Hepatitis C Virus
pdb|2GC8|A Chain A, Structure Of A Proline Sulfonamide Inhibitor Bound To Hcv
Ns5b Polymerase
pdb|2GC8|B Chain B, Structure Of A Proline Sulfonamide Inhibitor Bound To Hcv
Ns5b Polymerase
pdb|2QE2|A Chain A, Structure Of Hcv Ns5b Bound To An Anthranilic Acid
Inhibitor
pdb|2QE2|B Chain B, Structure Of Hcv Ns5b Bound To An Anthranilic Acid
Inhibitor
pdb|2QE5|A Chain A, Structure Of Hcv Ns5b Bound To An Anthranilic Acid
Inhibitor
pdb|2QE5|B Chain B, Structure Of Hcv Ns5b Bound To An Anthranilic Acid
Inhibitor
pdb|2QE5|C Chain C, Structure Of Hcv Ns5b Bound To An Anthranilic Acid
Inhibitor
pdb|2QE5|D Chain D, Structure Of Hcv Ns5b Bound To An Anthranilic Acid
Inhibitor
pdb|3VQS|A Chain A, Crystal Structure Of Hcv Ns5b Rna Polymerase With A Novel
Piperazine Inhibitor
pdb|3VQS|B Chain B, Crystal Structure Of Hcv Ns5b Rna Polymerase With A Novel
Piperazine Inhibitor
pdb|3VQS|C Chain C, Crystal Structure Of Hcv Ns5b Rna Polymerase With A Novel
Piperazine Inhibitor
pdb|3VQS|D Chain D, Crystal Structure Of Hcv Ns5b Rna Polymerase With A Novel
Piperazine Inhibitor
Length = 578
Score = 26.6 bits (57), Expect = 5.3, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 7/42 (16%)
Query: 1 MTPPLCAKGCGFYGTKEHKSMCSKCYN-------DFLEEQVT 35
+TPP AK YG K+ +++ SK N D LE+ VT
Sbjct: 91 LTPPHSAKSKFGYGAKDVRNLSSKAVNHIHSVWKDLLEDTVT 132
>pdb|3MF5|A Chain A, Hepatitis C Virus Polymerase Ns5b (Bk) With Amide
Bioisostere Thumb Site Inhibitor
pdb|3MF5|B Chain B, Hepatitis C Virus Polymerase Ns5b (Bk) With Amide
Bioisostere Thumb Site Inhibitor
Length = 570
Score = 26.6 bits (57), Expect = 5.3, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 7/42 (16%)
Query: 1 MTPPLCAKGCGFYGTKEHKSMCSKCYN-------DFLEEQVT 35
+TPP AK YG K+ +++ SK N D LE+ VT
Sbjct: 91 LTPPHSAKSKFGYGAKDVRNLSSKAVNHIHSVWKDLLEDTVT 132
>pdb|1C2P|A Chain A, Hepatitis C Virus Ns5b Rna-Dependent Rna Polymerase
pdb|1C2P|B Chain B, Hepatitis C Virus Ns5b Rna-Dependent Rna Polymerase
Length = 576
Score = 26.6 bits (57), Expect = 5.5, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 7/42 (16%)
Query: 1 MTPPLCAKGCGFYGTKEHKSMCSKCYN-------DFLEEQVT 35
+TPP AK YG K+ +++ SK N D LE+ VT
Sbjct: 97 LTPPHSAKSKFGYGAKDVRNLSSKAVNHIHSVWKDLLEDTVT 138
>pdb|2WCX|A Chain A, Crystal Structure Of Hepatitis C Virus Ns5b Polymerase In
Complex With Thienopyrrole-Based Finger-Loop Inhibitors
pdb|2XWY|A Chain A, Structure Of Mk-3281, A Potent Non-Nucleoside Finger-Loop
Inhibitor, In Complex With The Hepatitis C Virus Ns5b
Polymerase
Length = 537
Score = 26.6 bits (57), Expect = 5.7, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 7/42 (16%)
Query: 1 MTPPLCAKGCGFYGTKEHKSMCSKCYN-------DFLEEQVT 35
+TPP AK YG K+ +++ SK N D LE+ VT
Sbjct: 92 LTPPHSAKSKFGYGAKDVRNLSSKAVNHIHSVWKDLLEDTVT 133
>pdb|2DXS|A Chain A, Crystal Structure Of Hcv Ns5b Rna Polymerase Complexed
With A Tetracyclic Inhibitor
pdb|2DXS|B Chain B, Crystal Structure Of Hcv Ns5b Rna Polymerase Complexed
With A Tetracyclic Inhibitor
Length = 552
Score = 26.6 bits (57), Expect = 5.7, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 7/42 (16%)
Query: 1 MTPPLCAKGCGFYGTKEHKSMCSKCYN-------DFLEEQVT 35
+TPP AK YG K+ +++ SK N D LE+ VT
Sbjct: 91 LTPPHSAKSKFGYGAKDVRNLSSKAVNHIHSVWKDLLEDTVT 132
>pdb|2BRK|A Chain A, Crystal Structure Of Hepatitis C Virus Polymerase In
Complex With An Allosteric Inhibitor (Compound 1)
pdb|2BRL|A Chain A, Crystal Structure Of Hepatitis C Virus Polymerase In
Complex With An Allosteric Inhibitor (Compound 2)
pdb|2WHO|A Chain A, Crystal Structure Of Hepatitis C Virus Ns5b Polymerase
From 1b Genotype In Complex With A Non-Nucleoside
Inhibitor
pdb|2WHO|B Chain B, Crystal Structure Of Hepatitis C Virus Ns5b Polymerase
From 1b Genotype In Complex With A Non-Nucleoside
Inhibitor
pdb|2WRM|A Chain A, Identification Of Novel Allosteric Inhibitors Of Hepatitis
C Virus Ns5b Polymerase Thumb Domain (Site Ii) By
Structure-Based Design
Length = 536
Score = 26.6 bits (57), Expect = 5.9, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 7/42 (16%)
Query: 1 MTPPLCAKGCGFYGTKEHKSMCSKCYN-------DFLEEQVT 35
+TPP AK YG K+ +++ SK N D LE+ VT
Sbjct: 91 LTPPHSAKSKFGYGAKDVRNLSSKAVNHIHSVWKDLLEDTVT 132
>pdb|1GX6|A Chain A, Hepatitis C Virus Rna Polymerase In Complex With Utp And
Manganese
Length = 531
Score = 26.6 bits (57), Expect = 6.6, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 7/42 (16%)
Query: 1 MTPPLCAKGCGFYGTKEHKSMCSKCYN-------DFLEEQVT 35
+TPP AK YG K+ +++ SK N D LE+ VT
Sbjct: 91 LTPPHSAKSKFGYGAKDVRNLSSKAVNHIHSVWKDLLEDTVT 132
>pdb|1GX5|A Chain A, Hepatitis C Virus Rna Polymerase In Complex With Gtp And
Manganese
Length = 536
Score = 26.6 bits (57), Expect = 6.6, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 7/42 (16%)
Query: 1 MTPPLCAKGCGFYGTKEHKSMCSKCYN-------DFLEEQVT 35
+TPP AK YG K+ +++ SK N D LE+ VT
Sbjct: 91 LTPPHSAKSKFGYGAKDVRNLSSKAVNHIHSVWKDLLEDTVT 132
>pdb|1CSJ|A Chain A, Crystal Structure Of The Rna-dependent Rna Polymerase Of
Hepatitis C Virus
pdb|1CSJ|B Chain B, Crystal Structure Of The Rna-dependent Rna Polymerase Of
Hepatitis C Virus
Length = 531
Score = 26.6 bits (57), Expect = 6.6, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 7/42 (16%)
Query: 1 MTPPLCAKGCGFYGTKEHKSMCSKCYN-------DFLEEQVT 35
+TPP AK YG K+ +++ SK N D LE+ VT
Sbjct: 91 LTPPHSAKSKFGYGAKDVRNLSSKAVNHIHSVWKDLLEDTVT 132
>pdb|3OJ3|I Chain I, Crystal Structure Of The A20 Znf4 And Ubiquitin Complex
pdb|3OJ3|J Chain J, Crystal Structure Of The A20 Znf4 And Ubiquitin Complex
pdb|3OJ3|K Chain K, Crystal Structure Of The A20 Znf4 And Ubiquitin Complex
pdb|3OJ3|L Chain L, Crystal Structure Of The A20 Znf4 And Ubiquitin Complex
pdb|3OJ3|M Chain M, Crystal Structure Of The A20 Znf4 And Ubiquitin Complex
pdb|3OJ3|N Chain N, Crystal Structure Of The A20 Znf4 And Ubiquitin Complex
pdb|3OJ3|O Chain O, Crystal Structure Of The A20 Znf4 And Ubiquitin Complex
pdb|3OJ3|P Chain P, Crystal Structure Of The A20 Znf4 And Ubiquitin Complex
pdb|3OJ4|C Chain C, Crystal Structure Of The A20 Znf4, Ubiquitin And Ubch5a
Complex
pdb|3OJ4|F Chain F, Crystal Structure Of The A20 Znf4, Ubiquitin And Ubch5a
Complex
Length = 49
Score = 26.2 bits (56), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 9/25 (36%), Positives = 17/25 (68%)
Query: 9 GCGFYGTKEHKSMCSKCYNDFLEEQ 33
GC ++GT E+K C+ C+ ++ E +
Sbjct: 25 GCVYFGTPENKGFCTLCFIEYRENK 49
>pdb|2HAI|A Chain A, Crystal Structure Of Hcv Ns5b Rna Polymerase In Complex
With Novel Class Of Dihydropyrone-Containing Inhibitor
Length = 576
Score = 25.8 bits (55), Expect = 9.3, Method: Composition-based stats.
Identities = 15/42 (35%), Positives = 22/42 (52%), Gaps = 7/42 (16%)
Query: 1 MTPPLCAKGCGFYGTKEHKSMCSKCYN-------DFLEEQVT 35
+TPP AK YG K+ +++ S+ N D LE+ VT
Sbjct: 91 LTPPHSAKSKYGYGAKDVRNLSSRAVNHIHSVWKDLLEDTVT 132
>pdb|1OS5|A Chain A, Crystal Structure Of Hcv Ns5b Rna Polymerase Complexed
With A Novel Non-Competitive Inhibitor
Length = 576
Score = 25.8 bits (55), Expect = 9.9, Method: Composition-based stats.
Identities = 15/42 (35%), Positives = 22/42 (52%), Gaps = 7/42 (16%)
Query: 1 MTPPLCAKGCGFYGTKEHKSMCSKCYN-------DFLEEQVT 35
+TPP AK YG K+ +++ S+ N D LE+ VT
Sbjct: 91 LTPPHSAKSKYGYGAKDVRNLSSRAVNHIHSVWKDLLEDTVT 132
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 0.437
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,580,368
Number of Sequences: 62578
Number of extensions: 158433
Number of successful extensions: 337
Number of sequences better than 100.0: 39
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 26
Number of HSP's that attempted gapping in prelim test: 323
Number of HSP's gapped (non-prelim): 39
length of query: 153
length of database: 14,973,337
effective HSP length: 90
effective length of query: 63
effective length of database: 9,341,317
effective search space: 588502971
effective search space used: 588502971
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: 47 (22.7 bits)