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= psy4748
(136 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1QYP|A Chain A, Thermococcus Celer Rpb9, Nmr, 25 Structures
Length = 57
Score = 43.1 bits (100), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 17/38 (44%), Positives = 23/38 (60%)
Query: 99 PIVERKCKRCNNDTMSYATLQLRSADEGQTIFFTCTKC 136
P + C +C NDT + +Q R+ DE TIF+ CTKC
Sbjct: 12 PTTKITCPKCGNDTAYWWEMQTRAGDEPSTIFYKCTKC 49
>pdb|3QT1|I Chain I, Rna Polymerase Ii Variant Containing A Chimeric Rpb9-C11
Subunit
Length = 133
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 30/126 (23%), Positives = 54/126 (42%), Gaps = 27/126 (21%)
Query: 13 FCSKCGTIL-PLFDFKGDVKCYVCKT-SYGTQEQQPLLLGPDILFLKRFKGHFNLFLAVF 70
FC C +L P D + + + C+T SY + PL+ +++ + V
Sbjct: 26 FCRDCNNMLYPREDKENNRLLFECRTCSYVEEAGSPLVYRHELI------TNIGETAGVV 79
Query: 71 EEIKAEYTIHFNTVEKEKQKDKTEIADGPIVERKCKRCNNDTMSYATLQLRSADEGQTIF 130
++I ++ T+ P +R+C +C++ + LQ+RSADE T F
Sbjct: 80 QDIGSDPTL-------------------PRSDRECPKCHSRENVFFQLQIRSADEPMTTF 120
Query: 131 FTCTKC 136
+ C C
Sbjct: 121 YKCVNC 126
>pdb|1PQV|S Chain S, Rna Polymerase Ii-Tfiis Complex
Length = 309
Score = 35.4 bits (80), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 23/47 (48%), Gaps = 6/47 (12%)
Query: 96 ADGPIVERK------CKRCNNDTMSYATLQLRSADEGQTIFFTCTKC 136
A G +ER C +C +SY LQ RSADE T F TC C
Sbjct: 256 AQGATIERSVTDRFTCGKCKEKKVSYYQLQTRSADEPLTTFCTCEAC 302
>pdb|1Y1V|S Chain S, Refined Rna Polymerase Ii-tfiis Complex
pdb|1Y1Y|S Chain S, Rna Polymerase Ii-Tfiis-DnaRNA COMPLEX
Length = 179
Score = 35.4 bits (80), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 23/47 (48%), Gaps = 6/47 (12%)
Query: 96 ADGPIVERK------CKRCNNDTMSYATLQLRSADEGQTIFFTCTKC 136
A G +ER C +C +SY LQ RSADE T F TC C
Sbjct: 126 AQGATIERSVTDRFTCGKCKEKKVSYYQLQTRSADEPLTTFCTCEAC 172
>pdb|3GTM|S Chain S, Co-Complex Of Backtracked Rna Polymerase Ii With Tfiis
Length = 173
Score = 33.9 bits (76), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 22/47 (46%), Gaps = 6/47 (12%)
Query: 96 ADGPIVERK------CKRCNNDTMSYATLQLRSADEGQTIFFTCTKC 136
A G +ER C +C +SY LQ RSAD T F TC C
Sbjct: 120 AQGATIERSVTDRFTCGKCKEKKVSYYQLQTRSADHPLTTFCTCEAC 166
>pdb|1TFI|A Chain A, A Novel Zn Finger Motif In The Basal Transcriptional
Machinery: Three-Dimensional Nmr Studies Of The Nucleic-
Acid Binding Domain Of Transcriptional Elongation Factor
Tfiis
Length = 50
Score = 30.4 bits (67), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 17/32 (53%)
Query: 105 CKRCNNDTMSYATLQLRSADEGQTIFFTCTKC 136
C +C +Y +Q RSADE T F C +C
Sbjct: 12 CGKCKKKNCTYTQVQTRSADEPMTTFVVCNEC 43
>pdb|3PO3|S Chain S, Arrested Rna Polymerase Ii Reactivation Intermediate
Length = 178
Score = 30.4 bits (67), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 21/47 (44%), Gaps = 6/47 (12%)
Query: 96 ADGPIVERK------CKRCNNDTMSYATLQLRSADEGQTIFFTCTKC 136
A G +ER C +C +SY LQ RSA T F TC C
Sbjct: 125 AQGATIERSVTDRFTCGKCKEKKVSYYQLQTRSAAAPLTTFCTCEAC 171
>pdb|1I3Q|I Chain I, Rna Polymerase Ii Crystal Form I At 3.1 A Resolution
pdb|1I50|I Chain I, Rna Polymerase Ii Crystal Form Ii At 2.8 A Resolution
pdb|1I6H|I Chain I, Rna Polymerase Ii Elongation Complex
pdb|1K83|I Chain I, Crystal Structure Of Yeast Rna Polymerase Ii Complexed
With The Inhibitor Alpha Amanitin
pdb|1NIK|I Chain I, Wild Type Rna Polymerase Ii
pdb|1NT9|I Chain I, Complete 12-Subunit Rna Polymerase Ii
pdb|1PQV|I Chain I, Rna Polymerase Ii-Tfiis Complex
pdb|1R5U|I Chain I, Rna Polymerase Ii Tfiib Complex
pdb|1SFO|I Chain I, Rna Polymerase Ii Strand Separated Elongation Complex
pdb|1R9S|I Chain I, Rna Polymerase Ii Strand Separated Elongation Complex,
Matched Nucleotide
pdb|1R9T|I Chain I, Rna Polymerase Ii Strand Separated Elongation Complex,
Mismatched Nucleotide
pdb|1TWA|I Chain I, Rna Polymerase Ii Complexed With Atp
pdb|1TWC|I Chain I, Rna Polymerase Ii Complexed With Gtp
pdb|1TWF|I Chain I, Rna Polymerase Ii Complexed With Utp At 2.3 A Resolution
pdb|1TWG|I Chain I, Rna Polymerase Ii Complexed With Ctp
pdb|1TWH|I Chain I, Rna Polymerase Ii Complexed With 2'datp
pdb|1WCM|I Chain I, Complete 12-Subunit Rna Polymerase Ii At 3.8 Ang
pdb|1Y1W|I Chain I, Complete Rna Polymerase Ii Elongation Complex
pdb|1Y77|I Chain I, Complete Rna Polymerase Ii Elongation Complex With
Substrate Analogue Gmpcpp
pdb|1Y1V|I Chain I, Refined Rna Polymerase Ii-tfiis Complex
pdb|1Y1Y|I Chain I, Rna Polymerase Ii-Tfiis-DnaRNA COMPLEX
pdb|2B63|I Chain I, Complete Rna Polymerase Ii-Rna Inhibitor Complex
pdb|2B8K|I Chain I, 12-Subunit Rna Polymerase Ii
pdb|2E2H|I Chain I, Rna Polymerase Ii Elongation Complex At 5 Mm Mg2+ With Gtp
pdb|2E2I|I Chain I, Rna Polymerase Ii Elongation Complex In 5 Mm Mg+2 With 2'-
Dgtp
pdb|2E2J|I Chain I, Rna Polymerase Ii Elongation Complex In 5 Mm Mg+2 With
Gmpcpp
pdb|2NVQ|I Chain I, Rna Polymerase Ii Elongation Complex In 150 Mm Mg+2 With
2'dutp
pdb|2NVT|I Chain I, Rna Polymerase Ii Elongation Complex In 150 Mm Mg+2 With
Gmpcpp
pdb|2NVX|I Chain I, Rna Polymerase Ii Elongation Complex In 5 Mm Mg+2 With 2'-
Dutp
pdb|2NVY|I Chain I, Rna Polymerase Ii Form Ii In 150 Mm Mn+2
pdb|2NVZ|I Chain I, Rna Polymerase Ii Elongation Complex With Utp, Updated
112006
pdb|2JA5|I Chain I, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
A
pdb|2JA6|I Chain I, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
B
pdb|2JA7|I Chain I, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
C
pdb|2JA7|U Chain U, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
C
pdb|2JA8|I Chain I, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
D
pdb|2YU9|I Chain I, Rna Polymerase Ii Elongation Complex In 150 Mm Mg+2 With
Utp
pdb|2R7Z|I Chain I, Cisplatin Lesion Containing Rna Polymerase Ii Elongation
Complex
pdb|2R92|I Chain I, Elongation Complex Of Rna Polymerase Ii With Artificial
Rdrp Scaffold
pdb|2R93|I Chain I, Elongation Complex Of Rna Polymerase Ii With A Hepatitis
Delta Virus-Derived Rna Stem Loop
pdb|2VUM|I Chain I, Alpha-Amanitin Inhibited Complete Rna Polymerase Ii
Elongation Complex
pdb|3CQZ|I Chain I, Crystal Structure Of 10 Subunit Rna Polymerase Ii In
Complex With The Inhibitor Alpha-Amanitin
pdb|3FKI|I Chain I, 12-Subunit Rna Polymerase Ii Refined With Zn-Sad Data
pdb|3GTG|I Chain I, Backtracked Rna Polymerase Ii Complex With 12mer Rna
pdb|3GTJ|I Chain I, Backtracked Rna Polymerase Ii Complex With 13mer Rna
pdb|3GTK|I Chain I, Backtracked Rna Polymerase Ii Complex With 18mer Rna
pdb|3GTL|I Chain I, Backtracked Rna Polymerase Ii Complex With 13mer With G<>u
Mismatch
pdb|3GTM|I Chain I, Co-Complex Of Backtracked Rna Polymerase Ii With Tfiis
pdb|3GTO|I Chain I, Backtracked Rna Polymerase Ii Complex With 15mer Rna
pdb|3GTP|I Chain I, Backtracked Rna Polymerase Ii Complex With 24mer Rna
pdb|3GTQ|I Chain I, Backtracked Rna Polymerase Ii Complex Induced By Damage
pdb|3H3V|J Chain J, Yeast Rnap Ii Containing Poly(A)-Signal Sequence In The
Active Site
pdb|3HOU|I Chain I, Complete Rna Polymerase Ii Elongation Complex I With A T-U
Mismatch
pdb|3HOU|U Chain U, Complete Rna Polymerase Ii Elongation Complex I With A T-U
Mismatch
pdb|3HOV|I Chain I, Complete Rna Polymerase Ii Elongation Complex Ii
pdb|3HOW|I Chain I, Complete Rna Polymerase Ii Elongation Complex Iii With A
T-U Mismatch And A Frayed Rna 3'-Uridine
pdb|3HOX|I Chain I, Complete Rna Polymerase Ii Elongation Complex V
pdb|3HOY|I Chain I, Complete Rna Polymerase Ii Elongation Complex Vi
pdb|3HOZ|I Chain I, Complete Rna Polymerase Ii Elongation Complex Iv With A
T-U Mismatch And A Frayed Rna 3'-Guanine
pdb|3I4M|I Chain I, 8-oxoguanine Containing Rna Polymerase Ii Elongation
Complex D
pdb|3I4N|I Chain I, 8-oxoguanine Containing Rna Polymerase Ii Elongation
Complex E
pdb|3K1F|I Chain I, Crystal Structure Of Rna Polymerase Ii In Complex With
Tfiib
pdb|3K7A|I Chain I, Crystal Structure Of An Rna Polymerase Ii-Tfiib Complex
pdb|3M3Y|I Chain I, Rna Polymerase Ii Elongation Complex C
pdb|3M4O|I Chain I, Rna Polymerase Ii Elongation Complex B
pdb|3PO2|I Chain I, Arrested Rna Polymerase Ii Elongation Complex
pdb|3PO3|I Chain I, Arrested Rna Polymerase Ii Reactivation Intermediate
pdb|3RZD|I Chain I, Rna Polymerase Ii Initiation Complex With A 5-Nt Rna
pdb|3RZO|I Chain I, Rna Polymerase Ii Initiation Complex With A 4-Nt Rna
pdb|3S14|I Chain I, Rna Polymerase Ii Initiation Complex With A 6-Nt Rna
pdb|3S15|I Chain I, Rna Polymerase Ii Initiation Complex With A 7-Nt Rna
pdb|3S16|I Chain I, Rna Polymerase Ii Initiation Complex With An 8-Nt Rna
pdb|3S17|I Chain I, Rna Polymerase Ii Initiation Complex With A 9-Nt Rna
pdb|3S1M|I Chain I, Rna Polymerase Ii Initiation Complex With A 5-Nt Rna
(Variant 1)
pdb|3S1N|I Chain I, Rna Polymerase Ii Initiation Complex With A 5-Nt Rna
(Variant 2)
pdb|3S1Q|I Chain I, Rna Polymerase Ii Initiation Complex With A 5-Nt 3'-Deoxy
Rna Soaked With Atp
pdb|3S1R|I Chain I, Rna Polymerase Ii Initiation Complex With A 5-Nt 3'-Deoxy
Rna Soaked With Gtp
pdb|3S2D|I Chain I, Rna Polymerase Ii Initiation Complex With A 5-Nt Rna
Containing A 5br- U
pdb|3S2H|I Chain I, Rna Polymerase Ii Initiation Complex With A 6-Nt Rna
Containing A 2[prime]-Iodo Atp
pdb|3J0K|I Chain I, Orientation Of Rna Polymerase Ii Within The Human
Vp16-Mediator-Pol Ii-Tfiif Assembly
pdb|4A3C|I Chain I, Rna Polymerase Ii Initial Transcribing Complex With A 5nt
Dna-Rna Hybrid
pdb|4A3B|I Chain I, Rna Polymerase Ii Initial Transcribing Complex With A 4nt
Dna-Rna Hybrid
pdb|4A3D|I Chain I, Rna Polymerase Ii Initial Transcribing Complex With A 6nt
Dna-Rna Hybrid
pdb|4A3E|I Chain I, Rna Polymerase Ii Initial Transcribing Complex With A 5nt
Dna-Rna Hybrid And Soaked With Ampcpp
pdb|4A3F|I Chain I, Rna Polymerase Ii Initial Transcribing Complex With A 6nt
Dna-Rna Hybrid And Soaked With Ampcpp
pdb|4A3J|I Chain I, Rna Polymerase Ii Initial Transcribing Complex With A 2nt
Dna-Rna Hybrid And Soaked With Gmpcpp
pdb|4A3K|I Chain I, Rna Polymerase Ii Initial Transcribing Complex With A 7nt
Dna-Rna Hybrid
pdb|4A3L|I Chain I, Rna Polymerase Ii Initial Transcribing Complex With A 7nt
Dna-Rna Hybrid And Soaked With Ampcpp
pdb|4A3M|I Chain I, Rna Polymerase Ii Initial Transcribing Complex With A 4nt
Dna-Rna Hybrid And Soaked With Ampcpp
pdb|4A3G|I Chain I, Rna Polymerase Ii Initial Transcribing Complex With A 2nt
Dna-Rna Hybrid
pdb|4A3I|I Chain I, Rna Polymerase Ii Binary Complex With Dna
pdb|4A93|I Chain I, Rna Polymerase Ii Elongation Complex Containing A Cpd
Lesion
pdb|4BBR|I Chain I, Structure Of Rna Polymerase Ii-tfiib Complex
pdb|4BBS|I Chain I, Structure Of An Initially Transcribing Rna Polymerase Ii-
Tfiib Complex
Length = 122
Score = 28.1 bits (61), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 26/126 (20%), Positives = 49/126 (38%), Gaps = 27/126 (21%)
Query: 13 FCSKCGTIL-PLFDFKGDVKCYVCKT-SYGTQEQQPLLLGPDILFLKRFKGHFNLFLAVF 70
FC C +L P D + + + C+T SY + PL+ +++ + V
Sbjct: 6 FCRDCNNMLYPREDKENNRLLFECRTCSYVEEAGSPLVYRHELI------TNIGETAGVV 59
Query: 71 EEIKAEYTIHFNTVEKEKQKDKTEIADGPIVERKCKRCNNDTMSYATLQLRSADEGQTIF 130
++I ++ T+ P +R+C +C++ + Q R D +F
Sbjct: 60 QDIGSDPTL-------------------PRSDRECPKCHSRENVFFQSQQRRKDTSMVLF 100
Query: 131 FTCTKC 136
F C C
Sbjct: 101 FVCLSC 106
>pdb|3US8|A Chain A, Crystal Structure Of An Isocitrate Dehydrogenase From
Sinorhizobium Meliloti 1021
pdb|3US8|B Chain B, Crystal Structure Of An Isocitrate Dehydrogenase From
Sinorhizobium Meliloti 1021
Length = 427
Score = 26.6 bits (57), Expect = 5.0, Method: Composition-based stats.
Identities = 15/42 (35%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
Query: 38 SYGTQEQQPLLLGPDILFLKRFKGHF-NLFLAVF-EEIKAEY 77
+YG Q + P+ L LK + G F ++F VF EE A++
Sbjct: 219 NYGLQRKVPVYLSTKNTILKAYDGRFKDIFQKVFDEEFAAQF 260
>pdb|3H0G|I Chain I, Rna Polymerase Ii From Schizosaccharomyces Pombe
pdb|3H0G|U Chain U, Rna Polymerase Ii From Schizosaccharomyces Pombe
Length = 113
Score = 26.2 bits (56), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 14/73 (19%), Positives = 29/73 (39%), Gaps = 6/73 (8%)
Query: 70 FEEIKAEYTIHFNTVEKEKQKDKTEIADG------PIVERKCKRCNNDTMSYATLQLRSA 123
+ EI A ++ + ++ ++ T D P +++C RC+ + R
Sbjct: 34 YSEIAATSKVYRHELQSSNVENTTVSHDASTDPTLPRSDKECPRCHQHEAVFYQTHSRRG 93
Query: 124 DEGQTIFFTCTKC 136
D T+ + C C
Sbjct: 94 DTMMTLIYVCVHC 106
>pdb|2AXH|A Chain A, Crystal Structures Of T Cell Receptor Beta Chains Related
To Rheumatoid Arthritis
pdb|2AXH|B Chain B, Crystal Structures Of T Cell Receptor Beta Chains Related
To Rheumatoid Arthritis
Length = 242
Score = 25.8 bits (55), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 23/50 (46%)
Query: 27 KGDVKCYVCKTSYGTQEQQPLLLGPDILFLKRFKGHFNLFLAVFEEIKAE 76
K Y+C +S G +Q G + L+ K F +AVFE +AE
Sbjct: 83 KNPTAFYLCASSIGQXNEQYFGPGTRLTVLEDLKNVFPPEVAVFEPSEAE 132
>pdb|2XCI|A Chain A, Membrane-Embedded Monofunctional Glycosyltransferase
Waaa Of Aquifex Aeolicus, Substrate-Free Form
pdb|2XCI|B Chain B, Membrane-Embedded Monofunctional Glycosyltransferase
Waaa Of Aquifex Aeolicus, Substrate-Free Form
pdb|2XCI|C Chain C, Membrane-Embedded Monofunctional Glycosyltransferase
Waaa Of Aquifex Aeolicus, Substrate-Free Form
pdb|2XCI|D Chain D, Membrane-Embedded Monofunctional Glycosyltransferase
Waaa Of Aquifex Aeolicus, Substrate-Free Form
pdb|2XCU|A Chain A, Membrane-Embedded Monofunctional Glycosyltransferase
Waaa Of Aquifex Aeolicus, Comlex With Cmp
pdb|2XCU|B Chain B, Membrane-Embedded Monofunctional Glycosyltransferase
Waaa Of Aquifex Aeolicus, Comlex With Cmp
pdb|2XCU|C Chain C, Membrane-Embedded Monofunctional Glycosyltransferase
Waaa Of Aquifex Aeolicus, Comlex With Cmp
pdb|2XCU|D Chain D, Membrane-Embedded Monofunctional Glycosyltransferase
Waaa Of Aquifex Aeolicus, Comlex With Cmp
Length = 374
Score = 25.8 bits (55), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 23/40 (57%), Gaps = 3/40 (7%)
Query: 61 GHFNLFLAVFEEIKAEYTI---HFNTVEKEKQKDKTEIAD 97
G FN FL + +E+K E+ I +F+ +E K K++ D
Sbjct: 51 GEFNTFLPILKELKREHRILLTYFSPRAREYLKTKSDFYD 90
>pdb|3RS1|A Chain A, Mouse C-Type Lectin-Related Protein Clrg
pdb|3RS1|B Chain B, Mouse C-Type Lectin-Related Protein Clrg
Length = 122
Score = 25.8 bits (55), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 9/21 (42%), Positives = 16/21 (76%)
Query: 52 DILFLKRFKGHFNLFLAVFEE 72
+++FLKRFKG F+ ++ + E
Sbjct: 51 ELIFLKRFKGDFDSWIGLHRE 71
>pdb|2PCD|A Chain A, Structure Of Protocatechuate 3,4-Dioxygenase From
Pseudomonas Aeruginosa At 2.15 Angstroms Resolution
pdb|2PCD|B Chain B, Structure Of Protocatechuate 3,4-Dioxygenase From
Pseudomonas Aeruginosa At 2.15 Angstroms Resolution
pdb|2PCD|C Chain C, Structure Of Protocatechuate 3,4-Dioxygenase From
Pseudomonas Aeruginosa At 2.15 Angstroms Resolution
pdb|2PCD|D Chain D, Structure Of Protocatechuate 3,4-Dioxygenase From
Pseudomonas Aeruginosa At 2.15 Angstroms Resolution
pdb|2PCD|E Chain E, Structure Of Protocatechuate 3,4-Dioxygenase From
Pseudomonas Aeruginosa At 2.15 Angstroms Resolution
pdb|2PCD|F Chain F, Structure Of Protocatechuate 3,4-Dioxygenase From
Pseudomonas Aeruginosa At 2.15 Angstroms Resolution
pdb|3PCF|A Chain A, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3-Fluro-4- Hydroxybenzoate
pdb|3PCF|B Chain B, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3-Fluro-4- Hydroxybenzoate
pdb|3PCF|C Chain C, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3-Fluro-4- Hydroxybenzoate
pdb|3PCF|D Chain D, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3-Fluro-4- Hydroxybenzoate
pdb|3PCF|E Chain E, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3-Fluro-4- Hydroxybenzoate
pdb|3PCF|F Chain F, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3-Fluro-4- Hydroxybenzoate
pdb|3PCH|A Chain A, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3-Chloro- 4-Hydroxybenzoate
pdb|3PCH|B Chain B, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3-Chloro- 4-Hydroxybenzoate
pdb|3PCH|C Chain C, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3-Chloro- 4-Hydroxybenzoate
pdb|3PCH|D Chain D, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3-Chloro- 4-Hydroxybenzoate
pdb|3PCH|E Chain E, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3-Chloro- 4-Hydroxybenzoate
pdb|3PCH|F Chain F, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3-Chloro- 4-Hydroxybenzoate
pdb|3PCL|A Chain A, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 2- Hydroxyisonicotinic Acid N-Oxide And Cyanide
pdb|3PCL|B Chain B, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 2- Hydroxyisonicotinic Acid N-Oxide And Cyanide
pdb|3PCL|C Chain C, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 2- Hydroxyisonicotinic Acid N-Oxide And Cyanide
pdb|3PCL|D Chain D, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 2- Hydroxyisonicotinic Acid N-Oxide And Cyanide
pdb|3PCL|E Chain E, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 2- Hydroxyisonicotinic Acid N-Oxide And Cyanide
pdb|3PCL|F Chain F, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 2- Hydroxyisonicotinic Acid N-Oxide And Cyanide
pdb|3PCM|A Chain A, Structure Of Protocatechuate 3,4-dioxygenase Complexed
With 6- Hydroxynicotinic Acid N-oxide And Cyanide
pdb|3PCM|B Chain B, Structure Of Protocatechuate 3,4-dioxygenase Complexed
With 6- Hydroxynicotinic Acid N-oxide And Cyanide
pdb|3PCM|C Chain C, Structure Of Protocatechuate 3,4-dioxygenase Complexed
With 6- Hydroxynicotinic Acid N-oxide And Cyanide
pdb|3PCM|D Chain D, Structure Of Protocatechuate 3,4-dioxygenase Complexed
With 6- Hydroxynicotinic Acid N-oxide And Cyanide
pdb|3PCM|E Chain E, Structure Of Protocatechuate 3,4-dioxygenase Complexed
With 6- Hydroxynicotinic Acid N-oxide And Cyanide
pdb|3PCM|F Chain F, Structure Of Protocatechuate 3,4-dioxygenase Complexed
With 6- Hydroxynicotinic Acid N-oxide And Cyanide
pdb|3PCA|A Chain A, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3,4- Dihydroxybenzoate
pdb|3PCA|B Chain B, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3,4- Dihydroxybenzoate
pdb|3PCA|C Chain C, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3,4- Dihydroxybenzoate
pdb|3PCA|D Chain D, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3,4- Dihydroxybenzoate
pdb|3PCA|E Chain E, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3,4- Dihydroxybenzoate
pdb|3PCA|F Chain F, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3,4- Dihydroxybenzoate
pdb|3PCI|A Chain A, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3-Iodo-4- Hydroxybenzoate
pdb|3PCI|B Chain B, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3-Iodo-4- Hydroxybenzoate
pdb|3PCI|C Chain C, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3-Iodo-4- Hydroxybenzoate
pdb|3PCI|D Chain D, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3-Iodo-4- Hydroxybenzoate
pdb|3PCI|E Chain E, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3-Iodo-4- Hydroxybenzoate
pdb|3PCI|F Chain F, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3-Iodo-4- Hydroxybenzoate
pdb|3PCJ|A Chain A, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 2- Hydroxyisonicotinic Acid N-Oxide
pdb|3PCJ|B Chain B, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 2- Hydroxyisonicotinic Acid N-Oxide
pdb|3PCJ|C Chain C, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 2- Hydroxyisonicotinic Acid N-Oxide
pdb|3PCJ|D Chain D, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 2- Hydroxyisonicotinic Acid N-Oxide
pdb|3PCJ|E Chain E, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 2- Hydroxyisonicotinic Acid N-Oxide
pdb|3PCJ|F Chain F, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 2- Hydroxyisonicotinic Acid N-Oxide
pdb|3PCK|A Chain A, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 6- Hydroxynicotinic Acid N-Oxide
pdb|3PCK|B Chain B, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 6- Hydroxynicotinic Acid N-Oxide
pdb|3PCK|C Chain C, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 6- Hydroxynicotinic Acid N-Oxide
pdb|3PCK|D Chain D, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 6- Hydroxynicotinic Acid N-Oxide
pdb|3PCK|E Chain E, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 6- Hydroxynicotinic Acid N-Oxide
pdb|3PCK|F Chain F, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 6- Hydroxynicotinic Acid N-Oxide
pdb|3PCN|A Chain A, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3,4- Dihydroxyphenylacetate
pdb|3PCN|B Chain B, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3,4- Dihydroxyphenylacetate
pdb|3PCN|C Chain C, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3,4- Dihydroxyphenylacetate
pdb|3PCN|D Chain D, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3,4- Dihydroxyphenylacetate
pdb|3PCN|E Chain E, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3,4- Dihydroxyphenylacetate
pdb|3PCN|F Chain F, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3,4- Dihydroxyphenylacetate
pdb|3PCB|A Chain A, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3- Hydroxybenzoate
pdb|3PCB|B Chain B, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3- Hydroxybenzoate
pdb|3PCB|C Chain C, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3- Hydroxybenzoate
pdb|3PCB|D Chain D, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3- Hydroxybenzoate
pdb|3PCB|E Chain E, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3- Hydroxybenzoate
pdb|3PCB|F Chain F, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3- Hydroxybenzoate
pdb|3PCC|A Chain A, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 4- Hydroxybenzoate
pdb|3PCC|B Chain B, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 4- Hydroxybenzoate
pdb|3PCC|C Chain C, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 4- Hydroxybenzoate
pdb|3PCC|D Chain D, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 4- Hydroxybenzoate
pdb|3PCC|E Chain E, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 4- Hydroxybenzoate
pdb|3PCC|F Chain F, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 4- Hydroxybenzoate
pdb|3PCD|A Chain A, Protocatechuate 3,4-Dioxygenase Y447h Mutant
pdb|3PCD|B Chain B, Protocatechuate 3,4-Dioxygenase Y447h Mutant
pdb|3PCD|C Chain C, Protocatechuate 3,4-Dioxygenase Y447h Mutant
pdb|3PCD|D Chain D, Protocatechuate 3,4-Dioxygenase Y447h Mutant
pdb|3PCD|E Chain E, Protocatechuate 3,4-Dioxygenase Y447h Mutant
pdb|3PCD|F Chain F, Protocatechuate 3,4-Dioxygenase Y447h Mutant
pdb|3PCE|A Chain A, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3- Hydroxyphenylacetate
pdb|3PCE|B Chain B, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3- Hydroxyphenylacetate
pdb|3PCE|C Chain C, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3- Hydroxyphenylacetate
pdb|3PCE|D Chain D, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3- Hydroxyphenylacetate
pdb|3PCE|E Chain E, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3- Hydroxyphenylacetate
pdb|3PCE|F Chain F, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With 3- Hydroxyphenylacetate
pdb|3PCG|A Chain A, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With The Inhibitor 4-Hydroxyphenylacetate
pdb|3PCG|B Chain B, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With The Inhibitor 4-Hydroxyphenylacetate
pdb|3PCG|C Chain C, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With The Inhibitor 4-Hydroxyphenylacetate
pdb|3PCG|D Chain D, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With The Inhibitor 4-Hydroxyphenylacetate
pdb|3PCG|E Chain E, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With The Inhibitor 4-Hydroxyphenylacetate
pdb|3PCG|F Chain F, Structure Of Protocatechuate 3,4-Dioxygenase Complexed
With The Inhibitor 4-Hydroxyphenylacetate
pdb|1YKK|A Chain A, Protocatechuate 3,4-dioxygenase Y408c Mutant
pdb|1YKK|C Chain C, Protocatechuate 3,4-dioxygenase Y408c Mutant
pdb|1YKK|E Chain E, Protocatechuate 3,4-dioxygenase Y408c Mutant
pdb|1YKK|G Chain G, Protocatechuate 3,4-dioxygenase Y408c Mutant
pdb|1YKK|I Chain I, Protocatechuate 3,4-dioxygenase Y408c Mutant
pdb|1YKK|K Chain K, Protocatechuate 3,4-dioxygenase Y408c Mutant
pdb|1YKL|A Chain A, Protocatechuate 3,4-Dioxygenase Y408c Mutant Bound To Dhb
pdb|1YKL|C Chain C, Protocatechuate 3,4-Dioxygenase Y408c Mutant Bound To Dhb
pdb|1YKL|E Chain E, Protocatechuate 3,4-Dioxygenase Y408c Mutant Bound To Dhb
pdb|1YKL|G Chain G, Protocatechuate 3,4-Dioxygenase Y408c Mutant Bound To Dhb
pdb|1YKL|I Chain I, Protocatechuate 3,4-Dioxygenase Y408c Mutant Bound To Dhb
pdb|1YKL|K Chain K, Protocatechuate 3,4-Dioxygenase Y408c Mutant Bound To Dhb
pdb|1YKM|A Chain A, Protocatechuate 3,4-dioxygenase Y408e Mutant
pdb|1YKM|C Chain C, Protocatechuate 3,4-dioxygenase Y408e Mutant
pdb|1YKM|E Chain E, Protocatechuate 3,4-dioxygenase Y408e Mutant
pdb|1YKM|G Chain G, Protocatechuate 3,4-dioxygenase Y408e Mutant
pdb|1YKM|I Chain I, Protocatechuate 3,4-dioxygenase Y408e Mutant
pdb|1YKM|K Chain K, Protocatechuate 3,4-dioxygenase Y408e Mutant
pdb|1YKN|A Chain A, Protocatechuate 3,4-Dioxygenase Y408e Mutant Bound To Dhb
pdb|1YKN|C Chain C, Protocatechuate 3,4-Dioxygenase Y408e Mutant Bound To Dhb
pdb|1YKN|E Chain E, Protocatechuate 3,4-Dioxygenase Y408e Mutant Bound To Dhb
pdb|1YKN|G Chain G, Protocatechuate 3,4-Dioxygenase Y408e Mutant Bound To Dhb
pdb|1YKN|I Chain I, Protocatechuate 3,4-Dioxygenase Y408e Mutant Bound To Dhb
pdb|1YKN|K Chain K, Protocatechuate 3,4-Dioxygenase Y408e Mutant Bound To Dhb
pdb|1YKO|A Chain A, Protocatechuate 3,4-Dioxygenase Y408h Mutant
pdb|1YKO|C Chain C, Protocatechuate 3,4-Dioxygenase Y408h Mutant
pdb|1YKO|E Chain E, Protocatechuate 3,4-Dioxygenase Y408h Mutant
pdb|1YKO|G Chain G, Protocatechuate 3,4-Dioxygenase Y408h Mutant
pdb|1YKO|I Chain I, Protocatechuate 3,4-Dioxygenase Y408h Mutant
pdb|1YKO|K Chain K, Protocatechuate 3,4-Dioxygenase Y408h Mutant
pdb|1YKP|A Chain A, Protocatechuate 3,4-Dioxygenase Y408h Mutant Bound To Dhb
pdb|1YKP|C Chain C, Protocatechuate 3,4-Dioxygenase Y408h Mutant Bound To Dhb
pdb|1YKP|E Chain E, Protocatechuate 3,4-Dioxygenase Y408h Mutant Bound To Dhb
pdb|1YKP|G Chain G, Protocatechuate 3,4-Dioxygenase Y408h Mutant Bound To Dhb
pdb|1YKP|I Chain I, Protocatechuate 3,4-Dioxygenase Y408h Mutant Bound To Dhb
pdb|1YKP|K Chain K, Protocatechuate 3,4-Dioxygenase Y408h Mutant Bound To Dhb
pdb|3LMX|A Chain A, Tyrosine 447 Of Protocatechuate 34,-Dioxygenase Controls
Efficient Progress Through Catalysis
pdb|3LMX|B Chain B, Tyrosine 447 Of Protocatechuate 34,-Dioxygenase Controls
Efficient Progress Through Catalysis
pdb|3LMX|C Chain C, Tyrosine 447 Of Protocatechuate 34,-Dioxygenase Controls
Efficient Progress Through Catalysis
pdb|3LKT|A Chain A, Tyrosine 447 Of Protocatechuate 3,4-Dioxygenase Controls
Efficient Progress Through Catalysis
pdb|3LKT|B Chain B, Tyrosine 447 Of Protocatechuate 3,4-Dioxygenase Controls
Efficient Progress Through Catalysis
pdb|3LKT|C Chain C, Tyrosine 447 Of Protocatechuate 3,4-Dioxygenase Controls
Efficient Progress Through Catalysis
pdb|3LKT|D Chain D, Tyrosine 447 Of Protocatechuate 3,4-Dioxygenase Controls
Efficient Progress Through Catalysis
pdb|3LKT|E Chain E, Tyrosine 447 Of Protocatechuate 3,4-Dioxygenase Controls
Efficient Progress Through Catalysis
pdb|3LKT|F Chain F, Tyrosine 447 Of Protocatechuate 3,4-Dioxygenase Controls
Efficient Progress Through Catalysis
pdb|3LXV|A Chain A, Tyrosine 447 Of Protocatechuate 3,4-Dioxygenase Controls
Efficient Progress Through Catalysis
pdb|3LXV|B Chain B, Tyrosine 447 Of Protocatechuate 3,4-Dioxygenase Controls
Efficient Progress Through Catalysis
pdb|3LXV|C Chain C, Tyrosine 447 Of Protocatechuate 3,4-Dioxygenase Controls
Efficient Progress Through Catalysis
pdb|3MFL|A Chain A, Axial Ligand Swapping In Double Mutant Maintains
Intradiol-Cleavage Chemistry In Protocatechuate
3,4-Dioxygenase
pdb|3MFL|B Chain B, Axial Ligand Swapping In Double Mutant Maintains
Intradiol-Cleavage Chemistry In Protocatechuate
3,4-Dioxygenase
pdb|3MFL|C Chain C, Axial Ligand Swapping In Double Mutant Maintains
Intradiol-Cleavage Chemistry In Protocatechuate
3,4-Dioxygenase
pdb|3MI1|A Chain A, Axial Ligand Swapping In Double Mutant Maintains
Intradiol-Cleavage Chemistry In Protocatechuate
3,4-Dioxygenase
pdb|3MI1|B Chain B, Axial Ligand Swapping In Double Mutant Maintains
Intradiol-Cleavage Chemistry In Protocatechuate
3,4-Dioxygenase
pdb|3MI1|C Chain C, Axial Ligand Swapping In Double Mutant Maintains
Intradiol-Cleavage Chemistry In Protocatechuate
3,4-Dioxygenase
pdb|3MI5|A Chain A, Axial Ligand Swapping In Double Mutant Maintains
Intradiol-Cleavage Chemistry In Protocatechuate
3,4-Dioxygenase
pdb|3MI5|B Chain B, Axial Ligand Swapping In Double Mutant Maintains
Intradiol-Cleavage Chemistry In Protocatechuate
3,4-Dioxygenase
pdb|3MI5|C Chain C, Axial Ligand Swapping In Double Mutant Maintains
Intradiol-Cleavage Chemistry In Protocatechuate
3,4-Dioxygenase
pdb|3MI5|D Chain D, Axial Ligand Swapping In Double Mutant Maintains
Intradiol-Cleavage Chemistry In Protocatechuate
3,4-Dioxygenase
pdb|3MI5|E Chain E, Axial Ligand Swapping In Double Mutant Maintains
Intradiol-Cleavage Chemistry In Protocatechuate
3,4-Dioxygenase
pdb|3MI5|F Chain F, Axial Ligand Swapping In Double Mutant Maintains
Intradiol-Cleavage Chemistry In Protocatechuate
3,4-Dioxygenase
pdb|3MV4|A Chain A, Axial Ligand Swapping In Double Mutant Maintains
Intradiol-Cleavage Chemistry In Protocatechuate
3,4-Dioxygenase
pdb|3MV4|B Chain B, Axial Ligand Swapping In Double Mutant Maintains
Intradiol-Cleavage Chemistry In Protocatechuate
3,4-Dioxygenase
pdb|3MV4|C Chain C, Axial Ligand Swapping In Double Mutant Maintains
Intradiol-Cleavage Chemistry In Protocatechuate
3,4-Dioxygenase
pdb|3MV6|A Chain A, Axial Ligand Swapping In Double Mutant Maintains
Intradiol-Cleavage Chemistry In Protocatechuate
3,4-Dioxygenase
pdb|3MV6|B Chain B, Axial Ligand Swapping In Double Mutant Maintains
Intradiol-Cleavage Chemistry In Protocatechuate
3,4-Dioxygenase
pdb|3MV6|C Chain C, Axial Ligand Swapping In Double Mutant Maintains
Intradiol-Cleavage Chemistry In Protocatechuate
3,4-Dioxygenase
pdb|3T63|A Chain A, Axial Ligand Swapping In Double Mutant Maintains
Intradiol-Cleavage Chemistry In Protocatechuate
3,4-Dioxygenase
pdb|3T63|B Chain B, Axial Ligand Swapping In Double Mutant Maintains
Intradiol-Cleavage Chemistry In Protocatechuate
3,4-Dioxygenase
pdb|3T63|C Chain C, Axial Ligand Swapping In Double Mutant Maintains
Intradiol-Cleavage Chemistry In Protocatechuate
3,4-Dioxygenase
pdb|3T67|A Chain A, Axial Ligand Swapping In Double Mutant Maintains
Intradiol-Cleavage Chemistry In Protocatechuate
3,4-Dioxygenase
pdb|3T67|B Chain B, Axial Ligand Swapping In Double Mutant Maintains
Intradiol-Cleavage Chemistry In Protocatechuate
3,4-Dioxygenase
pdb|3T67|C Chain C, Axial Ligand Swapping In Double Mutant Maintains
Intradiol-Cleavage Chemistry In Protocatechuate
3,4-Dioxygenase
Length = 200
Score = 25.4 bits (54), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 31/128 (24%), Positives = 51/128 (39%), Gaps = 15/128 (11%)
Query: 7 FNVESEFCSKCGTILPLFDFKGDVKCYVCKTSYGTQEQQPLLLGPDI---LFLKRFKGHF 63
+N+E+ F S G FD G+ + K + + P I LF + H
Sbjct: 83 YNLENAFNS-FGRTATTFD-AGEWTLHTVKPGV-VNNAAGVPMAPHINISLFARGINIHL 139
Query: 64 NLFLAVFEEIKAEYTIHFNTVEKEKQKDKTEIADGPIVERKCKRCNNDTMSYATLQLRSA 123
+ L +E +A + ++ Q+ +T IA KRC D + +R
Sbjct: 140 HTRLYFDDEAQANAKCPVLNLIEQPQRRETLIA---------KRCEVDGKTAYRFDIRIQ 190
Query: 124 DEGQTIFF 131
EG+T+FF
Sbjct: 191 GEGETVFF 198
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
0.323 0.138 0.425
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,069,961
Number of Sequences: 62578
Number of extensions: 156523
Number of successful extensions: 253
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 242
Number of HSP's gapped (non-prelim): 15
length of query: 136
length of database: 14,973,337
effective HSP length: 88
effective length of query: 48
effective length of database: 9,466,473
effective search space: 454390704
effective search space used: 454390704
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: 46 (22.3 bits)