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= 030447
(177 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1DZF|A Chain A, Rpb5 From S.Cerevisiae
pdb|1I3Q|E Chain E, Rna Polymerase Ii Crystal Form I At 3.1 A Resolution
pdb|1I50|E Chain E, Rna Polymerase Ii Crystal Form Ii At 2.8 A Resolution
pdb|1I6H|E Chain E, Rna Polymerase Ii Elongation Complex
pdb|1K83|E Chain E, Crystal Structure Of Yeast Rna Polymerase Ii Complexed
With The Inhibitor Alpha Amanitin
pdb|1NIK|E Chain E, Wild Type Rna Polymerase Ii
pdb|1NT9|E Chain E, Complete 12-Subunit Rna Polymerase Ii
pdb|1PQV|E Chain E, Rna Polymerase Ii-Tfiis Complex
pdb|1R5U|E Chain E, Rna Polymerase Ii Tfiib Complex
pdb|1SFO|E Chain E, Rna Polymerase Ii Strand Separated Elongation Complex
pdb|1R9S|E Chain E, Rna Polymerase Ii Strand Separated Elongation Complex,
Matched Nucleotide
pdb|1R9T|E Chain E, Rna Polymerase Ii Strand Separated Elongation Complex,
Mismatched Nucleotide
pdb|1TWA|E Chain E, Rna Polymerase Ii Complexed With Atp
pdb|1TWC|E Chain E, Rna Polymerase Ii Complexed With Gtp
pdb|1TWF|E Chain E, Rna Polymerase Ii Complexed With Utp At 2.3 A Resolution
pdb|1TWG|E Chain E, Rna Polymerase Ii Complexed With Ctp
pdb|1TWH|E Chain E, Rna Polymerase Ii Complexed With 2'datp
pdb|1WCM|E Chain E, Complete 12-Subunit Rna Polymerase Ii At 3.8 Ang
pdb|1Y1W|E Chain E, Complete Rna Polymerase Ii Elongation Complex
pdb|1Y77|E Chain E, Complete Rna Polymerase Ii Elongation Complex With
Substrate Analogue Gmpcpp
pdb|1Y1V|E Chain E, Refined Rna Polymerase Ii-tfiis Complex
pdb|1Y1Y|E Chain E, Rna Polymerase Ii-Tfiis-DnaRNA COMPLEX
pdb|2B63|E Chain E, Complete Rna Polymerase Ii-Rna Inhibitor Complex
pdb|2B8K|E Chain E, 12-Subunit Rna Polymerase Ii
pdb|2E2H|E Chain E, Rna Polymerase Ii Elongation Complex At 5 Mm Mg2+ With Gtp
pdb|2E2I|E Chain E, Rna Polymerase Ii Elongation Complex In 5 Mm Mg+2 With 2'-
Dgtp
pdb|2E2J|E Chain E, Rna Polymerase Ii Elongation Complex In 5 Mm Mg+2 With
Gmpcpp
pdb|2NVQ|E Chain E, Rna Polymerase Ii Elongation Complex In 150 Mm Mg+2 With
2'dutp
pdb|2NVT|E Chain E, Rna Polymerase Ii Elongation Complex In 150 Mm Mg+2 With
Gmpcpp
pdb|2NVX|E Chain E, Rna Polymerase Ii Elongation Complex In 5 Mm Mg+2 With 2'-
Dutp
pdb|2NVY|E Chain E, Rna Polymerase Ii Form Ii In 150 Mm Mn+2
pdb|2NVZ|E Chain E, Rna Polymerase Ii Elongation Complex With Utp, Updated
112006
pdb|2JA5|E Chain E, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
A
pdb|2JA6|E Chain E, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
B
pdb|2JA7|E Chain E, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
C
pdb|2JA7|Q Chain Q, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
C
pdb|2JA8|E Chain E, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
D
pdb|2YU9|E Chain E, Rna Polymerase Ii Elongation Complex In 150 Mm Mg+2 With
Utp
pdb|2R7Z|E Chain E, Cisplatin Lesion Containing Rna Polymerase Ii Elongation
Complex
pdb|2R92|E Chain E, Elongation Complex Of Rna Polymerase Ii With Artificial
Rdrp Scaffold
pdb|2R93|E Chain E, Elongation Complex Of Rna Polymerase Ii With A Hepatitis
Delta Virus-Derived Rna Stem Loop
pdb|2VUM|E Chain E, Alpha-Amanitin Inhibited Complete Rna Polymerase Ii
Elongation Complex
pdb|3CQZ|E Chain E, Crystal Structure Of 10 Subunit Rna Polymerase Ii In
Complex With The Inhibitor Alpha-Amanitin
pdb|3FKI|E Chain E, 12-Subunit Rna Polymerase Ii Refined With Zn-Sad Data
pdb|3GTG|E Chain E, Backtracked Rna Polymerase Ii Complex With 12mer Rna
pdb|3GTJ|E Chain E, Backtracked Rna Polymerase Ii Complex With 13mer Rna
pdb|3GTK|E Chain E, Backtracked Rna Polymerase Ii Complex With 18mer Rna
pdb|3GTL|E Chain E, Backtracked Rna Polymerase Ii Complex With 13mer With G<>u
Mismatch
pdb|3GTM|E Chain E, Co-Complex Of Backtracked Rna Polymerase Ii With Tfiis
pdb|3GTO|E Chain E, Backtracked Rna Polymerase Ii Complex With 15mer Rna
pdb|3GTP|E Chain E, Backtracked Rna Polymerase Ii Complex With 24mer Rna
pdb|3GTQ|E Chain E, Backtracked Rna Polymerase Ii Complex Induced By Damage
pdb|3H3V|F Chain F, Yeast Rnap Ii Containing Poly(A)-Signal Sequence In The
Active Site
pdb|3HOU|E Chain E, Complete Rna Polymerase Ii Elongation Complex I With A T-U
Mismatch
pdb|3HOU|Q Chain Q, Complete Rna Polymerase Ii Elongation Complex I With A T-U
Mismatch
pdb|3HOV|E Chain E, Complete Rna Polymerase Ii Elongation Complex Ii
pdb|3HOW|E Chain E, Complete Rna Polymerase Ii Elongation Complex Iii With A
T-U Mismatch And A Frayed Rna 3'-Uridine
pdb|3HOX|E Chain E, Complete Rna Polymerase Ii Elongation Complex V
pdb|3HOY|E Chain E, Complete Rna Polymerase Ii Elongation Complex Vi
pdb|3HOZ|E Chain E, Complete Rna Polymerase Ii Elongation Complex Iv With A
T-U Mismatch And A Frayed Rna 3'-Guanine
pdb|3I4M|E Chain E, 8-oxoguanine Containing Rna Polymerase Ii Elongation
Complex D
pdb|3I4N|E Chain E, 8-oxoguanine Containing Rna Polymerase Ii Elongation
Complex E
pdb|3K1F|E Chain E, Crystal Structure Of Rna Polymerase Ii In Complex With
Tfiib
pdb|3K7A|E Chain E, Crystal Structure Of An Rna Polymerase Ii-Tfiib Complex
pdb|3M3Y|E Chain E, Rna Polymerase Ii Elongation Complex C
pdb|3M4O|E Chain E, Rna Polymerase Ii Elongation Complex B
pdb|3PO2|E Chain E, Arrested Rna Polymerase Ii Elongation Complex
pdb|3PO3|E Chain E, Arrested Rna Polymerase Ii Reactivation Intermediate
pdb|3QT1|E Chain E, Rna Polymerase Ii Variant Containing A Chimeric Rpb9-C11
Subunit
pdb|3RZD|E Chain E, Rna Polymerase Ii Initiation Complex With A 5-Nt Rna
pdb|3RZO|E Chain E, Rna Polymerase Ii Initiation Complex With A 4-Nt Rna
pdb|3S14|E Chain E, Rna Polymerase Ii Initiation Complex With A 6-Nt Rna
pdb|3S15|E Chain E, Rna Polymerase Ii Initiation Complex With A 7-Nt Rna
pdb|3S16|E Chain E, Rna Polymerase Ii Initiation Complex With An 8-Nt Rna
pdb|3S17|E Chain E, Rna Polymerase Ii Initiation Complex With A 9-Nt Rna
pdb|3S1M|E Chain E, Rna Polymerase Ii Initiation Complex With A 5-Nt Rna
(Variant 1)
pdb|3S1N|E Chain E, Rna Polymerase Ii Initiation Complex With A 5-Nt Rna
(Variant 2)
pdb|3S1Q|E Chain E, Rna Polymerase Ii Initiation Complex With A 5-Nt 3'-Deoxy
Rna Soaked With Atp
pdb|3S1R|E Chain E, Rna Polymerase Ii Initiation Complex With A 5-Nt 3'-Deoxy
Rna Soaked With Gtp
pdb|3S2D|E Chain E, Rna Polymerase Ii Initiation Complex With A 5-Nt Rna
Containing A 5br- U
pdb|3S2H|E Chain E, Rna Polymerase Ii Initiation Complex With A 6-Nt Rna
Containing A 2[prime]-Iodo Atp
pdb|3J0K|E Chain E, Orientation Of Rna Polymerase Ii Within The Human
Vp16-Mediator-Pol Ii-Tfiif Assembly
pdb|4A3C|E Chain E, Rna Polymerase Ii Initial Transcribing Complex With A 5nt
Dna-Rna Hybrid
pdb|4A3B|E Chain E, Rna Polymerase Ii Initial Transcribing Complex With A 4nt
Dna-Rna Hybrid
pdb|4A3D|E Chain E, Rna Polymerase Ii Initial Transcribing Complex With A 6nt
Dna-Rna Hybrid
pdb|4A3E|E Chain E, Rna Polymerase Ii Initial Transcribing Complex With A 5nt
Dna-Rna Hybrid And Soaked With Ampcpp
pdb|4A3F|E Chain E, Rna Polymerase Ii Initial Transcribing Complex With A 6nt
Dna-Rna Hybrid And Soaked With Ampcpp
pdb|4A3J|E Chain E, Rna Polymerase Ii Initial Transcribing Complex With A 2nt
Dna-Rna Hybrid And Soaked With Gmpcpp
pdb|4A3K|E Chain E, Rna Polymerase Ii Initial Transcribing Complex With A 7nt
Dna-Rna Hybrid
pdb|4A3L|E Chain E, Rna Polymerase Ii Initial Transcribing Complex With A 7nt
Dna-Rna Hybrid And Soaked With Ampcpp
pdb|4A3M|E Chain E, Rna Polymerase Ii Initial Transcribing Complex With A 4nt
Dna-Rna Hybrid And Soaked With Ampcpp
pdb|4A3G|E Chain E, Rna Polymerase Ii Initial Transcribing Complex With A 2nt
Dna-Rna Hybrid
pdb|4A3I|E Chain E, Rna Polymerase Ii Binary Complex With Dna
pdb|4A93|E Chain E, Rna Polymerase Ii Elongation Complex Containing A Cpd
Lesion
pdb|4BBR|E Chain E, Structure Of Rna Polymerase Ii-tfiib Complex
pdb|4BBS|E Chain E, Structure Of An Initially Transcribing Rna Polymerase Ii-
Tfiib Complex
Length = 215
Score = 79.7 bits (195), Expect = 8e-16, Method: Compositional matrix adjust.
Identities = 51/152 (33%), Positives = 74/152 (48%), Gaps = 3/152 (1%)
Query: 23 PTESCLSGFVDNGXXXXXXXXXXXXTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDV 82
PTE +S F D G V M + + + + E N F P
Sbjct: 64 PTEESISKFPDMGSLWVEFCDEPSVGVKTM---KTFVIHIQEKNFQTGIFVYQNNITPSA 120
Query: 83 DRLRISISHQSDPSKRITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQLPRMLK 142
+L SI + + L+VNIT H L PKH L+ EK +LLK+Y ++E QLPR+ +
Sbjct: 121 MKLVPSIPPATIETFNEAALVVNITHHELVPKHIRLSSDEKRELLKRYRLKESQLPRIQR 180
Query: 143 KDAIAQYYGLERGQVVKVTYSGEITESHVTYR 174
D +A Y GL+RG+VVK+ E + + +YR
Sbjct: 181 ADPVALYLGLKRGEVVKIIRKSETSGRYASYR 212
Score = 37.0 bits (84), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 31/50 (62%), Gaps = 1/50 (2%)
Query: 48 TVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSK 97
TV EM+KDRGY + E+ L ++DF+A Y D R +S Q++P++
Sbjct: 18 TVKEMVKDRGYFITQEEVELPLEDFKAKYC-DSMGRPQRKMMSFQANPTE 66
>pdb|3H0G|E Chain E, Rna Polymerase Ii From Schizosaccharomyces Pombe
pdb|3H0G|Q Chain Q, Rna Polymerase Ii From Schizosaccharomyces Pombe
Length = 210
Score = 73.9 bits (180), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 35/75 (46%), Positives = 52/75 (69%)
Query: 100 TDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQLPRMLKKDAIAQYYGLERGQVVK 159
+DL+VNIT H L PKH +L+ EK++LL +Y + E QLPR+ D +A+Y GL+RG+VVK
Sbjct: 133 SDLIVNITHHELVPKHILLSPDEKKELLDRYKLRETQLPRIQLADPVARYLGLKRGEVVK 192
Query: 160 VTYSGEITESHVTYR 174
+ E + + +YR
Sbjct: 193 IVRRSETSGRYNSYR 207
Score = 32.7 bits (73), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 29/43 (67%), Gaps = 1/43 (2%)
Query: 48 TVLEMLKDRGYAVALSEINLSVQDFRAIY-GQDPDVDRLRISI 89
T +++ DRGY V+ +E++L++ F+A++ G ++DR +S
Sbjct: 17 TAHQLVHDRGYGVSQAELDLTLDQFKAMHCGMGRNLDRTTLSF 59
>pdb|1HMJ|A Chain A, Solution Structure Of Rna Polymerase Subunit H
Length = 78
Score = 55.1 bits (131), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 45/73 (61%)
Query: 104 VNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQLPRMLKKDAIAQYYGLERGQVVKVTYS 163
+ +T H+L PKH+++ +E E++LK+Y+I+ +QLP++ + D + Q G + G VV+V
Sbjct: 1 MKVTDHILVPKHEIVPKEEVEEILKRYNIKIQQLPKIYEDDPVIQEIGAKEGDVVRVIRK 60
Query: 164 GEITESHVTYRCV 176
+ YR V
Sbjct: 61 SPTAGVSIAYRLV 73
>pdb|1EIK|A Chain A, Solution Structure Of Rna Polymerase Subunit Rpb5 From
Methanobacterium Thermoautotrophicum
Length = 77
Score = 53.5 bits (127), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 26/71 (36%), Positives = 41/71 (57%)
Query: 106 ITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQLPRMLKKDAIAQYYGLERGQVVKVTYSGE 165
I KH L P+H +L + E +++LK+ +QLP++ D +A+ G +RG +VK+
Sbjct: 5 ILKHQLVPEHVILNESEAKRVLKELDAHPEQLPKIKTTDPVAKAIGAKRGDIVKIIRKSP 64
Query: 166 ITESHVTYRCV 176
E VTYR V
Sbjct: 65 TAEEFVTYRLV 75
>pdb|2WAQ|H Chain H, The Complete Structure Of The Archaeal 13-Subunit Dna-
Directed Rna Polymerase
pdb|2WB1|H Chain H, The Complete Structure Of The Archaeal 13-Subunit Dna-
Directed Rna Polymerase
pdb|2WB1|Z Chain Z, The Complete Structure Of The Archaeal 13-Subunit Dna-
Directed Rna Polymerase
pdb|2Y0S|H Chain H, Crystal Structure Of Sulfolobus Shibatae Rna Polymerase In
P21 Space Group
pdb|2Y0S|Z Chain Z, Crystal Structure Of Sulfolobus Shibatae Rna Polymerase In
P21 Space Group
pdb|4AYB|H Chain H, Rnap At 3.2ang
pdb|4B1O|H Chain H, Archaeal Rnap-Dna Binary Complex At 4.32ang
pdb|4B1P|Z Chain Z, Archaeal Rnap-Dna Binary Complex At 4.32ang
Length = 84
Score = 44.7 bits (104), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 38/68 (55%)
Query: 109 HVLKPKHQVLTDQEKEKLLKKYSIEEKQLPRMLKKDAIAQYYGLERGQVVKVTYSGEITE 168
H L PKH+VL+ E K+LK+ I +QLP + D +A+ + G ++++ ++
Sbjct: 14 HYLVPKHEVLSIDEAYKILKELGIRPEQLPWIRASDPVARSINAKPGDIIRIIRKSQLYG 73
Query: 169 SHVTYRCV 176
V+YR V
Sbjct: 74 EVVSYRYV 81
>pdb|2PMZ|H Chain H, Archaeal Rna Polymerase From Sulfolobus Solfataricus
pdb|2PMZ|V Chain V, Archaeal Rna Polymerase From Sulfolobus Solfataricus
pdb|3HKZ|H Chain H, The X-Ray Crystal Structure Of Rna Polymerase From Archaea
pdb|3HKZ|T Chain T, The X-Ray Crystal Structure Of Rna Polymerase From Archaea
Length = 84
Score = 43.9 bits (102), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 37/68 (54%)
Query: 109 HVLKPKHQVLTDQEKEKLLKKYSIEEKQLPRMLKKDAIAQYYGLERGQVVKVTYSGEITE 168
H L PKH+VL E K+LK+ I +QLP + D +A+ + G ++++ ++
Sbjct: 14 HYLVPKHEVLNIDEAYKILKELGIRPEQLPWIRASDPVARSINAKPGDIIRIIRKSQLYG 73
Query: 169 SHVTYRCV 176
V+YR V
Sbjct: 74 EVVSYRYV 81
>pdb|2XGT|A Chain A, Asparaginyl-Trna Synthetase From Brugia Malayi Complexed
With The Sulphamoyl Analogue Of Asparaginyl-Adenylate
pdb|2XGT|B Chain B, Asparaginyl-Trna Synthetase From Brugia Malayi Complexed
With The Sulphamoyl Analogue Of Asparaginyl-Adenylate
Length = 435
Score = 29.3 bits (64), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 39/81 (48%), Gaps = 6/81 (7%)
Query: 95 PSKRITDLLVNITKHVLKPKHQVLTDQEKEKLLK----KYSIEEKQLPRMLKKDAIA--Q 148
P + DL+ I + V ++L D+E +KLL+ K+ E+ RM KDAI Q
Sbjct: 229 PFITLDDLMEKIEELVCDTVDRLLADEEAKKLLEHINPKFQPPERPFLRMEYKDAIKWLQ 288
Query: 149 YYGLERGQVVKVTYSGEITES 169
+ +E TY +I E+
Sbjct: 289 EHNVENEFGNTFTYGEDIAEA 309
>pdb|4G0H|A Chain A, Crystal Structure Of The N-Terminal Domain Of Helicobacter
Pylori Caga Protein
Length = 916
Score = 29.3 bits (64), Expect = 1.1, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 89 ISHQSDPSKRITDLLVNITKHVLKPKHQVLTDQEKEKLLK 128
+SHQ DPSK T + N +++++P + D+EK + LK
Sbjct: 129 VSHQKDPSKINTRSIRNFMENIIQPP--IPDDKEKAEFLK 166
>pdb|2XTI|A Chain A, Asparaginyl-Trna Synthetase From Brugia Malayi Complexed
With Atp:mg And L-Asp-Beta-Noh Adenylate:ppi:mg
pdb|2XTI|B Chain B, Asparaginyl-Trna Synthetase From Brugia Malayi Complexed
With Atp:mg And L-Asp-Beta-Noh Adenylate:ppi:mg
Length = 437
Score = 29.3 bits (64), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 39/81 (48%), Gaps = 6/81 (7%)
Query: 95 PSKRITDLLVNITKHVLKPKHQVLTDQEKEKLLK----KYSIEEKQLPRMLKKDAIA--Q 148
P + DL+ I + V ++L D+E +KLL+ K+ E+ RM KDAI Q
Sbjct: 231 PFITLDDLMEKIEELVCDTVDRLLADEEAKKLLEHINPKFQPPERPFLRMEYKDAIKWLQ 290
Query: 149 YYGLERGQVVKVTYSGEITES 169
+ +E TY +I E+
Sbjct: 291 EHNVENEFGNTFTYGEDIAEA 311
>pdb|2I0M|A Chain A, Crystal Structure Of The Phosphate Transport System
Regulatory Protein Phou From Streptococcus Pneumoniae
Length = 216
Score = 28.9 bits (63), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 44/85 (51%), Gaps = 3/85 (3%)
Query: 51 EMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPS--KRITDLLVNITK 108
E++ ++ +A+ + + + R + Q P V LR IS S S +R+ D + I K
Sbjct: 43 ELIINKDHAINQGQSAIELTCARLLALQQPQVSDLRFVISIMSSCSDLERMGDHMAGIAK 102
Query: 109 HVLKPK-HQVLTDQEKEKLLKKYSI 132
VL+ K +Q+ D+E+ + K S+
Sbjct: 103 AVLQLKENQLAPDEEQLHQMGKLSL 127
>pdb|2DFS|A Chain A, 3-D Structure Of Myosin-V Inhibited State
pdb|2DFS|M Chain M, 3-D Structure Of Myosin-V Inhibited State
Length = 1080
Score = 26.9 bits (58), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 34/64 (53%), Gaps = 2/64 (3%)
Query: 81 DVDRLRISISHQSDPSKRITDLLVNITKHVLKPKHQVLTDQEK-EKLLKKYSIEEKQLPR 139
DV+RLR+S + + R+ L I K + K HQ T+++ E+ KY E +QL
Sbjct: 968 DVERLRMSEEEAKNATNRVLSLQEEIAK-LRKELHQTQTEKKTIEEWADKYKHETEQLVS 1026
Query: 140 MLKK 143
LK+
Sbjct: 1027 ELKE 1030
>pdb|3GOD|A Chain A, Structural Basis For Dnase Activity Of A Conserved Protein
Implicated In Crispr-Mediated Antiviral Defense
pdb|3GOD|B Chain B, Structural Basis For Dnase Activity Of A Conserved Protein
Implicated In Crispr-Mediated Antiviral Defense
pdb|3GOD|C Chain C, Structural Basis For Dnase Activity Of A Conserved Protein
Implicated In Crispr-Mediated Antiviral Defense
pdb|3GOD|D Chain D, Structural Basis For Dnase Activity Of A Conserved Protein
Implicated In Crispr-Mediated Antiviral Defense
Length = 328
Score = 26.6 bits (57), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 15/58 (25%), Positives = 32/58 (55%), Gaps = 3/58 (5%)
Query: 52 MLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRITDLLVNITKH 109
+L+D G+AV + + ++V+D Q P+ + L ++ ++ SKR+ L T++
Sbjct: 157 VLRDAGFAVDATALAVAVEDSARALEQAPNHEHL---LTEEARLSKRLFKLAAQATRY 211
>pdb|3C6K|A Chain A, Crystal Structure Of Human Spermine Synthase In Complex
With Spermidine And 5-Methylthioadenosine
pdb|3C6K|B Chain B, Crystal Structure Of Human Spermine Synthase In Complex
With Spermidine And 5-Methylthioadenosine
pdb|3C6K|C Chain C, Crystal Structure Of Human Spermine Synthase In Complex
With Spermidine And 5-Methylthioadenosine
pdb|3C6K|D Chain D, Crystal Structure Of Human Spermine Synthase In Complex
With Spermidine And 5-Methylthioadenosine
pdb|3C6M|A Chain A, Crystal Structure Of Human Spermine Synthase In Complex
With Spermine And 5-Methylthioadenosine
pdb|3C6M|B Chain B, Crystal Structure Of Human Spermine Synthase In Complex
With Spermine And 5-Methylthioadenosine
pdb|3C6M|C Chain C, Crystal Structure Of Human Spermine Synthase In Complex
With Spermine And 5-Methylthioadenosine
pdb|3C6M|D Chain D, Crystal Structure Of Human Spermine Synthase In Complex
With Spermine And 5-Methylthioadenosine
Length = 381
Score = 26.6 bits (57), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 30/60 (50%)
Query: 81 DVDRLRISISHQSDPSKRITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQLPRM 140
D+ + IS S + D + L+++++ VLK + T L + S+ E+QL R+
Sbjct: 291 DLTAVPISTSPEEDSTWEFLRLILDLSMKVLKQDGKYFTQGNCVNLTEALSLYEEQLGRL 350
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
0.315 0.133 0.378
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,589,259
Number of Sequences: 62578
Number of extensions: 155877
Number of successful extensions: 467
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 453
Number of HSP's gapped (non-prelim): 24
length of query: 177
length of database: 14,973,337
effective HSP length: 92
effective length of query: 85
effective length of database: 9,216,161
effective search space: 783373685
effective search space used: 783373685
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 48 (23.1 bits)