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= 016812
(382 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2WAQ|D Chain D, The Complete Structure Of The Archaeal 13-Subunit Dna-
Directed Rna Polymerase
pdb|2WB1|D Chain D, The Complete Structure Of The Archaeal 13-Subunit Dna-
Directed Rna Polymerase
pdb|2WB1|S Chain S, The Complete Structure Of The Archaeal 13-Subunit Dna-
Directed Rna Polymerase
pdb|2Y0S|D Chain D, Crystal Structure Of Sulfolobus Shibatae Rna Polymerase In
P21 Space Group
pdb|2Y0S|S Chain S, Crystal Structure Of Sulfolobus Shibatae Rna Polymerase In
P21 Space Group
pdb|4AYB|D Chain D, Rnap At 3.2ang
pdb|4B1O|D Chain D, Archaeal Rnap-Dna Binary Complex At 4.32ang
pdb|4B1P|S Chain S, Archaeal Rnap-Dna Binary Complex At 4.32ang
Length = 265
Score = 102 bits (253), Expect = 4e-22, Method: Compositional matrix adjust.
Identities = 91/298 (30%), Positives = 127/298 (42%), Gaps = 50/298 (16%)
Query: 83 LTKDDMEFDLI--GIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRLGLI 140
L KDD DL+ G NA RR + +P M+I+ V N S + DE+LAHRL LI
Sbjct: 6 LHKDDKRIDLVFEGYPLEFVNAIRRAAMLYVPVMSIDDVYFIENNSPLYDEILAHRLALI 65
Query: 141 PIIVDPRLFEYMSENDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGSELPLETK 200
P + L Y + + CE+ ++ ++ L
Sbjct: 66 PFTSEEALDTYRWPEECIDCTEN--------CEKCYTKIYIEAEAL-------------- 103
Query: 201 PDSNPSSKPRT-YTSFSSSQDLLPEFSNNPIRPMLDITIARLGPGQEIELEAHAVKGIGK 259
++P+ Y+ S+D P S PI DI I LG Q+I LEA G GK
Sbjct: 104 ------NEPKMLYSKDIKSED--P--SIVPISG--DIPIVLLGANQKISLEARLRLGYGK 151
Query: 260 THAKWSPVATAWYRMLPXXXXXXXXXXXXXXXXXKTCPVNVFDIEDIGSGKKRATVAQPR 319
HAK+ PV+ A R P CP VF+++D + +V
Sbjct: 152 EHAKFIPVSLAIVRYYPKVEILGNCEKGAT-----VCPEGVFELKD-----GKLSVKNEL 201
Query: 320 ACTLCRECLRCGEEWEKRVSIRRVKDHFIFTIESTGALSPETLFTEAVKILEDKCERV 377
ACTLC ECLR + I V+D +I +ES G+L PE + EA K + K E +
Sbjct: 202 ACTLCEECLR---YCNGLIRISSVEDKYILELESVGSLKPERILLEAGKSIIRKIEEL 256
>pdb|2PA8|D Chain D, X-Ray Crystal Structure Of The DL SUBCOMPLEX OF THE
SULFOLOBUS Solfataricus Rna Polymerase
pdb|2PMZ|D Chain D, Archaeal Rna Polymerase From Sulfolobus Solfataricus
pdb|2PMZ|S Chain S, Archaeal Rna Polymerase From Sulfolobus Solfataricus
pdb|3HKZ|D Chain D, The X-Ray Crystal Structure Of Rna Polymerase From Archaea
pdb|3HKZ|O Chain O, The X-Ray Crystal Structure Of Rna Polymerase From Archaea
Length = 265
Score = 102 bits (253), Expect = 5e-22, Method: Compositional matrix adjust.
Identities = 94/299 (31%), Positives = 129/299 (43%), Gaps = 52/299 (17%)
Query: 83 LTKDDMEFDLI--GIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRLGLI 140
L KDD DL+ G NA RR + +P MA++ V N S + DE+LAHRL LI
Sbjct: 6 LHKDDTRIDLVFEGYPLEFVNAIRRASMLYVPIMAVDDVYFIENNSPLYDEILAHRLALI 65
Query: 141 PIIVDPRLFEYM-SENDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGSELPLET 199
P + + L Y E +N CE+ ++ ++ PN
Sbjct: 66 PFMSEEALDTYRWPEECIECTEN---------CEKCYTKIYIEAEA----PN-------- 104
Query: 200 KPDSNPSSKPRT-YTSFSSSQDLLPEFSNNPIRPMLDITIARLGPGQEIELEAHAVKGIG 258
+PR Y+ S+D P S PI DI I LG Q+I LEA G G
Sbjct: 105 --------EPRMIYSKDIKSED--P--SVVPISG--DIPIVLLGTNQKISLEARLRLGYG 150
Query: 259 KTHAKWSPVATAWYRMLPXXXXXXXXXXXXXXXXXKTCPVNVFDIEDIGSGKKRATVAQP 318
K HAK+ PV+ + R P CP VF+++D + +V
Sbjct: 151 KEHAKFIPVSLSVVRYYP-----KVEILANCEKAVNVCPEGVFELKD-----GKLSVKNE 200
Query: 319 RACTLCRECLRCGEEWEKRVSIRRVKDHFIFTIESTGALSPETLFTEAVKILEDKCERV 377
+CTLC ECLR + I V+D +I IES G+L PE + EA K + K E +
Sbjct: 201 LSCTLCEECLR---YCNGSIRISFVEDKYILEIESVGSLKPERILLEAGKSIIRKIEEL 256
>pdb|3J0K|C Chain C, Orientation Of Rna Polymerase Ii Within The Human
Vp16-Mediator-Pol Ii-Tfiif Assembly
Length = 268
Score = 90.9 bits (224), Expect = 9e-19, Method: Compositional matrix adjust.
Identities = 66/204 (32%), Positives = 104/204 (50%), Gaps = 32/204 (15%)
Query: 77 RVEVIRLTKDDMEFDLIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHR 136
+V++ +KD+++F L +D A+AN+ RR++IAE+PT+AI+ V + NT+V+ DE +AHR
Sbjct: 7 QVKIREASKDNVDFILSNVDLAMANSLRRVMIAEIPTLAIDSVEVETNTTVLADEFIAHR 66
Query: 137 LGLIPI-IVDPRLFEYMSENDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGSEL 195
LGLIP+ +D EY D E + C++ LT++
Sbjct: 67 LGLIPLQSMDIEQLEY--SRDCFCEDH---------CDKCSVVLTLQAFG---------- 105
Query: 196 PLETKPDSNPSSKPRTYTSFSSSQDLLPEFSNNPI---RPMLDITIARLGPGQEIELEAH 252
E++ +N SK S +L+ +PI + + I +L GQE++L
Sbjct: 106 --ESESTTNVYSKDLVIVS-----NLMGRNIGHPIIQDKEGNGVLICKLRKGQELKLTCV 158
Query: 253 AVKGIGKTHAKWSPVATAWYRMLP 276
A KGI K HAKW P A + P
Sbjct: 159 AKKGIAKEHAKWGPAAAIEFEYDP 182
>pdb|3HOW|C Chain C, Complete Rna Polymerase Ii Elongation Complex Iii With A
T-U Mismatch And A Frayed Rna 3'-Uridine
pdb|3HOX|C Chain C, Complete Rna Polymerase Ii Elongation Complex V
pdb|3HOY|C Chain C, Complete Rna Polymerase Ii Elongation Complex Vi
pdb|3HOZ|C Chain C, Complete Rna Polymerase Ii Elongation Complex Iv With A
T-U Mismatch And A Frayed Rna 3'-Guanine
Length = 347
Score = 90.9 bits (224), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 64/206 (31%), Positives = 102/206 (49%), Gaps = 36/206 (17%)
Query: 77 RVEVIRLTKDDMEFDLIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHR 136
+V++ +KD+++F L +D A+AN+ RR++IAE+PT+AI+ V + NT+V+ DE +AHR
Sbjct: 36 QVKIREASKDNVDFILSNVDLAMANSLRRVMIAEIPTLAIDSVEVETNTTVLADEFIAHR 95
Query: 137 LGLIPI-IVDPRLFEYMSE--NDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGS 193
LGLIP+ +D EY + + +K ++V L
Sbjct: 96 LGLIPLQSMDIEQLEYSRDCFCEDHCDKCSVVLTLQAFG--------------------- 134
Query: 194 ELPLETKPDSNPSSKPRTYTSFSSSQDLLPEFSNNPI---RPMLDITIARLGPGQEIELE 250
E++ +N SK S +L+ +PI + + I +L GQE++L
Sbjct: 135 ----ESESTTNVYSKDLVIVS-----NLMGRNIGHPIIQDKEGNGVLICKLRKGQELKLT 185
Query: 251 AHAVKGIGKTHAKWSPVATAWYRMLP 276
A KGI K HAKW P A + P
Sbjct: 186 CVAKKGIAKEHAKWGPAAAIEFEYDP 211
>pdb|1I3Q|C Chain C, Rna Polymerase Ii Crystal Form I At 3.1 A Resolution
pdb|1I50|C Chain C, Rna Polymerase Ii Crystal Form Ii At 2.8 A Resolution
pdb|1I6H|C Chain C, Rna Polymerase Ii Elongation Complex
pdb|1K83|C Chain C, Crystal Structure Of Yeast Rna Polymerase Ii Complexed
With The Inhibitor Alpha Amanitin
pdb|1NIK|C Chain C, Wild Type Rna Polymerase Ii
pdb|1NT9|C Chain C, Complete 12-Subunit Rna Polymerase Ii
pdb|1PQV|C Chain C, Rna Polymerase Ii-Tfiis Complex
pdb|1R5U|C Chain C, Rna Polymerase Ii Tfiib Complex
pdb|1SFO|C Chain C, Rna Polymerase Ii Strand Separated Elongation Complex
pdb|1R9S|C Chain C, Rna Polymerase Ii Strand Separated Elongation Complex,
Matched Nucleotide
pdb|1R9T|C Chain C, Rna Polymerase Ii Strand Separated Elongation Complex,
Mismatched Nucleotide
pdb|1TWA|C Chain C, Rna Polymerase Ii Complexed With Atp
pdb|1TWC|C Chain C, Rna Polymerase Ii Complexed With Gtp
pdb|1TWF|C Chain C, Rna Polymerase Ii Complexed With Utp At 2.3 A Resolution
pdb|1TWG|C Chain C, Rna Polymerase Ii Complexed With Ctp
pdb|1TWH|C Chain C, Rna Polymerase Ii Complexed With 2'datp
pdb|1WCM|C Chain C, Complete 12-Subunit Rna Polymerase Ii At 3.8 Ang
pdb|1Y1W|C Chain C, Complete Rna Polymerase Ii Elongation Complex
pdb|1Y77|C Chain C, Complete Rna Polymerase Ii Elongation Complex With
Substrate Analogue Gmpcpp
pdb|1Y1V|C Chain C, Refined Rna Polymerase Ii-tfiis Complex
pdb|1Y1Y|C Chain C, Rna Polymerase Ii-Tfiis-DnaRNA COMPLEX
pdb|2B63|C Chain C, Complete Rna Polymerase Ii-Rna Inhibitor Complex
pdb|2B8K|C Chain C, 12-Subunit Rna Polymerase Ii
pdb|2E2H|C Chain C, Rna Polymerase Ii Elongation Complex At 5 Mm Mg2+ With Gtp
pdb|2E2I|C Chain C, Rna Polymerase Ii Elongation Complex In 5 Mm Mg+2 With 2'-
Dgtp
pdb|2E2J|C Chain C, Rna Polymerase Ii Elongation Complex In 5 Mm Mg+2 With
Gmpcpp
pdb|2NVQ|C Chain C, Rna Polymerase Ii Elongation Complex In 150 Mm Mg+2 With
2'dutp
pdb|2NVT|C Chain C, Rna Polymerase Ii Elongation Complex In 150 Mm Mg+2 With
Gmpcpp
pdb|2NVX|C Chain C, Rna Polymerase Ii Elongation Complex In 5 Mm Mg+2 With 2'-
Dutp
pdb|2NVY|C Chain C, Rna Polymerase Ii Form Ii In 150 Mm Mn+2
pdb|2NVZ|C Chain C, Rna Polymerase Ii Elongation Complex With Utp, Updated
112006
pdb|2JA5|C Chain C, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
A
pdb|2JA6|C Chain C, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
B
pdb|2JA7|C Chain C, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
C
pdb|2JA7|O Chain O, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
C
pdb|2JA8|C Chain C, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
D
pdb|2YU9|C Chain C, Rna Polymerase Ii Elongation Complex In 150 Mm Mg+2 With
Utp
pdb|2R7Z|C Chain C, Cisplatin Lesion Containing Rna Polymerase Ii Elongation
Complex
pdb|2R92|C Chain C, Elongation Complex Of Rna Polymerase Ii With Artificial
Rdrp Scaffold
pdb|2R93|C Chain C, Elongation Complex Of Rna Polymerase Ii With A Hepatitis
Delta Virus-Derived Rna Stem Loop
pdb|2VUM|C Chain C, Alpha-Amanitin Inhibited Complete Rna Polymerase Ii
Elongation Complex
pdb|3CQZ|C Chain C, Crystal Structure Of 10 Subunit Rna Polymerase Ii In
Complex With The Inhibitor Alpha-Amanitin
pdb|3FKI|C Chain C, 12-Subunit Rna Polymerase Ii Refined With Zn-Sad Data
pdb|3GTG|C Chain C, Backtracked Rna Polymerase Ii Complex With 12mer Rna
pdb|3GTJ|C Chain C, Backtracked Rna Polymerase Ii Complex With 13mer Rna
pdb|3GTK|C Chain C, Backtracked Rna Polymerase Ii Complex With 18mer Rna
pdb|3GTL|C Chain C, Backtracked Rna Polymerase Ii Complex With 13mer With G<>u
Mismatch
pdb|3GTM|C Chain C, Co-Complex Of Backtracked Rna Polymerase Ii With Tfiis
pdb|3GTO|C Chain C, Backtracked Rna Polymerase Ii Complex With 15mer Rna
pdb|3GTP|C Chain C, Backtracked Rna Polymerase Ii Complex With 24mer Rna
pdb|3GTQ|C Chain C, Backtracked Rna Polymerase Ii Complex Induced By Damage
pdb|3H3V|D Chain D, Yeast Rnap Ii Containing Poly(A)-Signal Sequence In The
Active Site
pdb|3HOU|C Chain C, Complete Rna Polymerase Ii Elongation Complex I With A T-U
Mismatch
pdb|3HOU|O Chain O, Complete Rna Polymerase Ii Elongation Complex I With A T-U
Mismatch
pdb|3HOV|C Chain C, Complete Rna Polymerase Ii Elongation Complex Ii
pdb|3K1F|C Chain C, Crystal Structure Of Rna Polymerase Ii In Complex With
Tfiib
pdb|3K7A|C Chain C, Crystal Structure Of An Rna Polymerase Ii-Tfiib Complex
pdb|3M3Y|C Chain C, Rna Polymerase Ii Elongation Complex C
pdb|3M4O|C Chain C, Rna Polymerase Ii Elongation Complex B
pdb|3PO2|C Chain C, Arrested Rna Polymerase Ii Elongation Complex
pdb|3PO3|C Chain C, Arrested Rna Polymerase Ii Reactivation Intermediate
pdb|3QT1|C Chain C, Rna Polymerase Ii Variant Containing A Chimeric Rpb9-C11
Subunit
pdb|3RZD|C Chain C, Rna Polymerase Ii Initiation Complex With A 5-Nt Rna
pdb|3RZO|C Chain C, Rna Polymerase Ii Initiation Complex With A 4-Nt Rna
pdb|3S14|C Chain C, Rna Polymerase Ii Initiation Complex With A 6-Nt Rna
pdb|3S15|C Chain C, Rna Polymerase Ii Initiation Complex With A 7-Nt Rna
pdb|3S16|C Chain C, Rna Polymerase Ii Initiation Complex With An 8-Nt Rna
pdb|3S17|C Chain C, Rna Polymerase Ii Initiation Complex With A 9-Nt Rna
pdb|3S1M|C Chain C, Rna Polymerase Ii Initiation Complex With A 5-Nt Rna
(Variant 1)
pdb|3S1N|C Chain C, Rna Polymerase Ii Initiation Complex With A 5-Nt Rna
(Variant 2)
pdb|3S1Q|C Chain C, Rna Polymerase Ii Initiation Complex With A 5-Nt 3'-Deoxy
Rna Soaked With Atp
pdb|3S1R|C Chain C, Rna Polymerase Ii Initiation Complex With A 5-Nt 3'-Deoxy
Rna Soaked With Gtp
pdb|3S2D|C Chain C, Rna Polymerase Ii Initiation Complex With A 5-Nt Rna
Containing A 5br- U
pdb|3S2H|C Chain C, Rna Polymerase Ii Initiation Complex With A 6-Nt Rna
Containing A 2[prime]-Iodo Atp
pdb|4A3C|C Chain C, Rna Polymerase Ii Initial Transcribing Complex With A 5nt
Dna-Rna Hybrid
pdb|4A3B|C Chain C, Rna Polymerase Ii Initial Transcribing Complex With A 4nt
Dna-Rna Hybrid
pdb|4A3D|C Chain C, Rna Polymerase Ii Initial Transcribing Complex With A 6nt
Dna-Rna Hybrid
pdb|4A3E|C Chain C, Rna Polymerase Ii Initial Transcribing Complex With A 5nt
Dna-Rna Hybrid And Soaked With Ampcpp
pdb|4A3F|C Chain C, Rna Polymerase Ii Initial Transcribing Complex With A 6nt
Dna-Rna Hybrid And Soaked With Ampcpp
pdb|4A3J|C Chain C, Rna Polymerase Ii Initial Transcribing Complex With A 2nt
Dna-Rna Hybrid And Soaked With Gmpcpp
pdb|4A3K|C Chain C, Rna Polymerase Ii Initial Transcribing Complex With A 7nt
Dna-Rna Hybrid
pdb|4A3L|C Chain C, Rna Polymerase Ii Initial Transcribing Complex With A 7nt
Dna-Rna Hybrid And Soaked With Ampcpp
pdb|4A3M|C Chain C, Rna Polymerase Ii Initial Transcribing Complex With A 4nt
Dna-Rna Hybrid And Soaked With Ampcpp
pdb|4A3G|C Chain C, Rna Polymerase Ii Initial Transcribing Complex With A 2nt
Dna-Rna Hybrid
pdb|4A3I|C Chain C, Rna Polymerase Ii Binary Complex With Dna
pdb|4A93|C Chain C, Rna Polymerase Ii Elongation Complex Containing A Cpd
Lesion
pdb|4BBR|C Chain C, Structure Of Rna Polymerase Ii-tfiib Complex
pdb|4BBS|C Chain C, Structure Of An Initially Transcribing Rna Polymerase Ii-
Tfiib Complex
Length = 318
Score = 90.9 bits (224), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 64/206 (31%), Positives = 102/206 (49%), Gaps = 36/206 (17%)
Query: 77 RVEVIRLTKDDMEFDLIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHR 136
+V++ +KD+++F L +D A+AN+ RR++IAE+PT+AI+ V + NT+V+ DE +AHR
Sbjct: 7 QVKIREASKDNVDFILSNVDLAMANSLRRVMIAEIPTLAIDSVEVETNTTVLADEFIAHR 66
Query: 137 LGLIPI-IVDPRLFEYMSE--NDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGS 193
LGLIP+ +D EY + + +K ++V L
Sbjct: 67 LGLIPLQSMDIEQLEYSRDCFCEDHCDKCSVVLTLQAFG--------------------- 105
Query: 194 ELPLETKPDSNPSSKPRTYTSFSSSQDLLPEFSNNPI---RPMLDITIARLGPGQEIELE 250
E++ +N SK S +L+ +PI + + I +L GQE++L
Sbjct: 106 ----ESESTTNVYSKDLVIVS-----NLMGRNIGHPIIQDKEGNGVLICKLRKGQELKLT 156
Query: 251 AHAVKGIGKTHAKWSPVATAWYRMLP 276
A KGI K HAKW P A + P
Sbjct: 157 CVAKKGIAKEHAKWGPAAAIEFEYDP 182
>pdb|3I4M|C Chain C, 8-oxoguanine Containing Rna Polymerase Ii Elongation
Complex D
pdb|3I4N|C Chain C, 8-oxoguanine Containing Rna Polymerase Ii Elongation
Complex E
Length = 324
Score = 90.9 bits (224), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 64/206 (31%), Positives = 102/206 (49%), Gaps = 36/206 (17%)
Query: 77 RVEVIRLTKDDMEFDLIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHR 136
+V++ +KD+++F L +D A+AN+ RR++IAE+PT+AI+ V + NT+V+ DE +AHR
Sbjct: 13 QVKIREASKDNVDFILSNVDLAMANSLRRVMIAEIPTLAIDSVEVETNTTVLADEFIAHR 72
Query: 137 LGLIPI-IVDPRLFEYMSE--NDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGS 193
LGLIP+ +D EY + + +K ++V L
Sbjct: 73 LGLIPLQSMDIEQLEYSRDCFCEDHCDKCSVVLTLQAFG--------------------- 111
Query: 194 ELPLETKPDSNPSSKPRTYTSFSSSQDLLPEFSNNPI---RPMLDITIARLGPGQEIELE 250
E++ +N SK S +L+ +PI + + I +L GQE++L
Sbjct: 112 ----ESESTTNVYSKDLVIVS-----NLMGRNIGHPIIQDKEGNGVLICKLRKGQELKLT 162
Query: 251 AHAVKGIGKTHAKWSPVATAWYRMLP 276
A KGI K HAKW P A + P
Sbjct: 163 CVAKKGIAKEHAKWGPAAAIEFEYDP 188
>pdb|3H0G|C Chain C, Rna Polymerase Ii From Schizosaccharomyces Pombe
pdb|3H0G|O Chain O, Rna Polymerase Ii From Schizosaccharomyces Pombe
Length = 297
Score = 80.5 bits (197), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 82/311 (26%), Positives = 132/311 (42%), Gaps = 59/311 (18%)
Query: 77 RVEVIRLTKDDMEFDLIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHR 136
+ + ++K+ ++F L A+AN+ RR+++AE+PT+AI+ V I NTSV+ DE LAHR
Sbjct: 6 HITIRNISKNSVDFVLTNTSLAVANSLRRVVLAEIPTVAIDLVEINVNTSVMPDEFLAHR 65
Query: 137 LGLIPIIVDPRLFEYMSENDTSNEKN----TIVFKLHVLCERGGPRLTVKTNELKWLPNG 192
LG+IP+ D+SN + + + C++ P+ +V
Sbjct: 66 LGMIPL-------------DSSNIDEPPPVGLEYTRNCDCDQYCPKCSV----------- 101
Query: 193 SELPLETKPDSNPSSK--PRTYTSFSSSQDLLPEFSNNPIRPMLDITIARLGPGQEIELE 250
EL L K + + R S+S P ++ R L I +L QEI L
Sbjct: 102 -ELFLNAKCTGEGTMEIYARDLVVSSNSSLGHPILADPKSRGPL---ICKLRKEQEISLR 157
Query: 251 AHAVKGIGKTHAKWSPVATAWYRMLPXXXXXXXXXXXXXXXXXKTCPVNVFDIEDIGSGK 310
A KGI K HAKWSP + + P D +
Sbjct: 158 CIAKKGIAKEHAKWSPTSAVAFEYDPWNKLQHTDYWFEN------------DADAEWPKS 205
Query: 311 KRATVAQPRACTLCRECLRCGEEWEKRVSIRRVKDHFIFTIESTGALSPETLFTEAVKIL 370
K A +P R GE + + RR F +ES G++ P + + ++IL
Sbjct: 206 KNADWEEPP---------REGEPFNFQEEPRR----FYMDVESVGSIPPNEIMVQGLRIL 252
Query: 371 EDKCERVITEL 381
++K ++ +L
Sbjct: 253 QEKLAVLVRDL 263
>pdb|2I32|A Chain A, Structure Of A Human Asf1a-Hira Complex And Insights Into
Specificity Of Histone Chaperone Complex Assembly
pdb|2I32|B Chain B, Structure Of A Human Asf1a-Hira Complex And Insights Into
Specificity Of Histone Chaperone Complex Assembly
Length = 182
Score = 32.3 bits (72), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 38/66 (57%), Gaps = 7/66 (10%)
Query: 49 TENVMYSGAYASMGVDNSLQLDH---FCNNFRVEV----IRLTKDDMEFDLIGIDAAIAN 101
TEN+ + G+ A + V+N + LD+ F N F+ E+ I +D+E+ +I + +A +
Sbjct: 17 TENLYFQGSMAKVQVNNVVVLDNPSPFYNPFQFEITFECIEDLSEDLEWKIIYVGSAESE 76
Query: 102 AFRRIL 107
+ ++L
Sbjct: 77 EYDQVL 82
>pdb|3JVI|A Chain A, Product State Mimic Crystal Structure Of Protein Tyrosine
Phosphatase From Entamoeba Histolytica
Length = 161
Score = 28.5 bits (62), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 32/57 (56%), Gaps = 7/57 (12%)
Query: 329 RCGEEWEKRVSIRRVKDHFIFTIESTGALSP----ETLFTEAVKILEDKCERVITEL 381
RC E+++++ I ++ D F TI++T P E F + ILED CE +I +L
Sbjct: 101 RCPEQYKQK--IFKMVD-FCTTIKTTEVPDPYYGGEKGFHRVIDILEDACENLIIKL 154
>pdb|3IDO|A Chain A, Crystal Structure Of Protein Tyrosine Phosphatase From
Entamoeba Histolytica With A Phosphotyrosine Crude Mimic
Hepes Molecule In The Active Site
pdb|3IDO|B Chain B, Crystal Structure Of Protein Tyrosine Phosphatase From
Entamoeba Histolytica With A Phosphotyrosine Crude Mimic
Hepes Molecule In The Active Site
pdb|3ILY|A Chain A, Apo Crystal Structure Of Protein Tyrosine Phosphatase From
Entamoeba Histolytica Featuring A Disordered Active Site
pdb|3ILY|B Chain B, Apo Crystal Structure Of Protein Tyrosine Phosphatase From
Entamoeba Histolytica Featuring A Disordered Active Site
pdb|3JS5|A Chain A, Crystal Structure Of Protein Tyrosine Phosphatase From
Entamoeba Histolytica With Hepes In The Active Site.
High Resolution, Alternative Crystal Form With 1
Molecule In Asymmetric Unit
Length = 178
Score = 28.5 bits (62), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 32/57 (56%), Gaps = 7/57 (12%)
Query: 329 RCGEEWEKRVSIRRVKDHFIFTIESTGALSP----ETLFTEAVKILEDKCERVITEL 381
RC E+++++ I ++ D F TI++T P E F + ILED CE +I +L
Sbjct: 118 RCPEQYKQK--IFKMVD-FCTTIKTTEVPDPYYGGEKGFHRVIDILEDACENLIIKL 171
>pdb|3ZYY|X Chain X, Reductive Activator For Corrinoid,Iron-Sulfur Protein
pdb|3ZYY|Y Chain Y, Reductive Activator For Corrinoid,Iron-Sulfur Protein
Length = 631
Score = 28.5 bits (62), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 44/86 (51%), Gaps = 3/86 (3%)
Query: 81 IRLTKDDMEFDLIGIDAAIANAFRRIL-IAELPTMAIEKVLIANNTSVIQDEVLAHRLGL 139
I +T+ D++ +LI AAI R +L + +LP AI++V+IA + A +GL
Sbjct: 500 IVITEADIQ-NLIRAKAAIFAGVRTMLAMVDLPLEAIDRVIIAGGFGKYLNIKDAITIGL 558
Query: 140 IPIIVDPRLFEYMSENDTSNEKNTIV 165
+P I D F Y+ + + ++
Sbjct: 559 LPDI-DINKFSYVGNSSLKGARKALL 583
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
0.320 0.136 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,594,117
Number of Sequences: 62578
Number of extensions: 416363
Number of successful extensions: 956
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 938
Number of HSP's gapped (non-prelim): 18
length of query: 382
length of database: 14,973,337
effective HSP length: 101
effective length of query: 281
effective length of database: 8,652,959
effective search space: 2431481479
effective search space used: 2431481479
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 52 (24.6 bits)