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= 039469
(329 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2BGH|A Chain A, Crystal Structure Of Vinorine Synthase
pdb|2BGH|B Chain B, Crystal Structure Of Vinorine Synthase
Length = 421
Score = 166 bits (421), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 111/314 (35%), Positives = 162/314 (51%), Gaps = 25/314 (7%)
Query: 7 ISTEAIKPSSPTPKHLRTYELSMLDQMFSNLYMPFVFFYS--ANKHQDFRKNSDFLKQSL 64
+S E I PSSPTP+ L+ Y++S LDQ+ ++PF+ FY + + D + S LKQSL
Sbjct: 8 VSEELILPSSPTPQSLKCYKISHLDQLLLTCHIPFILFYPNPLDSNLDPAQTSQHLKQSL 67
Query: 65 AKTLTHYYPLAGRFVDSFSVECNDHGVTFIEAQVGCDMSKFLQPPNMGVMQQLIPPSPQX 124
+K LTH+YPLAGR + SV+CND GV F+EA+V +S+ +Q N+ +++L P
Sbjct: 68 SKVLTHFYPLAGRINVNSSVDCNDSGVPFVEARVQAQLSQAIQ--NVVELEKLDQYLPSA 125
Query: 125 X----XXXXXXXXXXXVQVNYFSTGDVAIGICIWHGLADGSAISNFMKLWAEINRGVNEN 180
V++++F G AIG+ + H +AD +++ F+ W RG E
Sbjct: 126 AYPGGKIEVNEDVPLAVKISFFECGGTAIGVNLSHKIADVLSLATFLNAWTATCRGETEI 185
Query: 181 ICNNVVLDCTSLFPPHSSLKDQHIKPQLTSKVVFKRLFFDGKKIVALKEKVNKEIMVGSF 240
+ N L FPP + + P VV KR FD +KI AL+ + + S
Sbjct: 186 VLPNFDL-AARHFPPVDNTPSPELVPD--ENVVMKRFVFDKEKIGALRAQAS------SA 236
Query: 241 DHELQASRFMVVSSLIWGAFIAVAQERKRAINNKLYSHAMYYTMNLRSKMNPPMIPQCMG 300
E SR +V + IW I V + + A N + A +NLRS+MNPP+ MG
Sbjct: 237 SEEKNFSRVQLVVAYIWKHVIDVTRAKYGAKNKFVVVQA----VNLRSRMNPPLPHYAMG 292
Query: 301 NI----FRFVRAEW 310
NI F V AEW
Sbjct: 293 NIATLLFAAVDAEW 306
>pdb|4G0B|A Chain A, Structure Of Native Hct From Coffea Canephora
pdb|4G0B|B Chain B, Structure Of Native Hct From Coffea Canephora
Length = 436
Score = 79.3 bits (194), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 76/337 (22%), Positives = 143/337 (42%), Gaps = 50/337 (14%)
Query: 4 VQIISTEAIKPSSPTPKHLRTYELSMLDQMFSNLYMPFVFFYSANKHQDFRKNSDFLKQS 63
+++ + ++P+ TP R S +D + N + P V+FY +F ++ LK +
Sbjct: 5 IEVKESTMVRPAQETPG--RNLWNSNVDLVVPNFHTPSVYFYRPTGSSNFF-DAKVLKDA 61
Query: 64 LAKTLTHYYPLAGRFV----DSFSVECNDHGVTFIEAQVGCDMSKFLQPPNMGVMQQLIP 119
L++ L +YP+AGR +ECN GV F+EA+ + F +++LIP
Sbjct: 62 LSRALVPFYPMAGRLKRDEDGRIEIECNGEGVLFVEAESDGVVDDFGDFAPTLELRRLIP 121
Query: 120 PSPQXXXXXXXXXXXXXVQVNYFSTGDVAIGICIWHGLADGSAISNFMKLWAEINRGVNE 179
+QV YF G V++G+ + H ADG + +F+ W+++ RG++
Sbjct: 122 AV--DYSQGISSYALLVLQVTYFKCGGVSLGVGMRHHAADGFSGLHFINSWSDMARGLDV 179
Query: 180 NI---CNNVVLDCTSLFPPHSSLKDQHIK----------PQL--------TSKVVFKRLF 218
+ + +L PP QHI+ PQ T+ +FK
Sbjct: 180 TLPPFIDRTLLRARD--PPQPQF--QHIEYQPPPALKVSPQTAKSDSVPETAVSIFK--- 232
Query: 219 FDGKKIVALKEKVNKEIMVGSFDHELQASRFMVVSSLIWGAFIAVAQERKRAINNKLYSH 278
++I ALK K ++ + + S + +++ +W + R ++
Sbjct: 233 LTREQISALKAKSKED------GNTISYSSYEMLAGHVW---RCACKARGLEVDQ---GT 280
Query: 279 AMYYTMNLRSKMNPPMIPQCMGNIFRFVRAEWPLVGD 315
+Y + R+++ P + P GN+ F + GD
Sbjct: 281 KLYIATDGRARLRPSLPPGYFGNVI-FTATPIAIAGD 316
>pdb|4G2M|A Chain A, Structure Of A Lys-Hct Mutant From Coffea Canephora
(Crystal Form 2)
Length = 439
Score = 79.3 bits (194), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 76/337 (22%), Positives = 143/337 (42%), Gaps = 50/337 (14%)
Query: 4 VQIISTEAIKPSSPTPKHLRTYELSMLDQMFSNLYMPFVFFYSANKHQDFRKNSDFLKQS 63
+++ + ++P+ TP R S +D + N + P V+FY +F ++ LK +
Sbjct: 8 IEVKESTMVRPAQETPG--RNLWNSNVDLVVPNFHTPSVYFYRPTGSSNFF-DAKVLKDA 64
Query: 64 LAKTLTHYYPLAGRFV----DSFSVECNDHGVTFIEAQVGCDMSKFLQPPNMGVMQQLIP 119
L++ L +YP+AGR +ECN GV F+EA+ + F +++LIP
Sbjct: 65 LSRALVPFYPMAGRLKRDEDGRIEIECNGEGVLFVEAESDGVVDDFGDFAPTLELRRLIP 124
Query: 120 PSPQXXXXXXXXXXXXXVQVNYFSTGDVAIGICIWHGLADGSAISNFMKLWAEINRGVNE 179
+QV YF G V++G+ + H ADG + +F+ W+++ RG++
Sbjct: 125 AV--DYSQGISSYALLVLQVTYFKCGGVSLGVGMRHHAADGFSGLHFINSWSDMARGLDV 182
Query: 180 NI---CNNVVLDCTSLFPPHSSLKDQHIK----------PQL--------TSKVVFKRLF 218
+ + +L PP QHI+ PQ T+ +FK
Sbjct: 183 TLPPFIDRTLLRARD--PPQPQF--QHIEYQPPPALAVSPQTAASDSVPETAVSIFK--- 235
Query: 219 FDGKKIVALKEKVNKEIMVGSFDHELQASRFMVVSSLIWGAFIAVAQERKRAINNKLYSH 278
++I ALK K ++ + + S + +++ +W + R ++
Sbjct: 236 LTREQISALKAKSKED------GNTISYSSYEMLAGHVW---RCACKARGLEVDQ---GT 283
Query: 279 AMYYTMNLRSKMNPPMIPQCMGNIFRFVRAEWPLVGD 315
+Y + R+++ P + P GN+ F + GD
Sbjct: 284 KLYIATDGRARLRPSLPPGYFGNVI-FTATPIAIAGD 319
>pdb|4G22|A Chain A, Structure Of A Lys-Hct Mutant From Coffea Canephora
(Crystal Form 1)
pdb|4G22|B Chain B, Structure Of A Lys-Hct Mutant From Coffea Canephora
(Crystal Form 1)
Length = 439
Score = 79.3 bits (194), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 76/337 (22%), Positives = 143/337 (42%), Gaps = 50/337 (14%)
Query: 4 VQIISTEAIKPSSPTPKHLRTYELSMLDQMFSNLYMPFVFFYSANKHQDFRKNSDFLKQS 63
+++ + ++P+ TP R S +D + N + P V+FY +F ++ LK +
Sbjct: 8 IEVKESTMVRPAQETPG--RNLWNSNVDLVVPNFHTPSVYFYRPTGSSNFF-DAKVLKDA 64
Query: 64 LAKTLTHYYPLAGRFV----DSFSVECNDHGVTFIEAQVGCDMSKFLQPPNMGVMQQLIP 119
L++ L +YP+AGR +ECN GV F+EA+ + F +++LIP
Sbjct: 65 LSRALVPFYPMAGRLKRDEDGRIEIECNGEGVLFVEAESDGVVDDFGDFAPTLELRRLIP 124
Query: 120 PSPQXXXXXXXXXXXXXVQVNYFSTGDVAIGICIWHGLADGSAISNFMKLWAEINRGVNE 179
+QV YF G V++G+ + H ADG + +F+ W+++ RG++
Sbjct: 125 AV--DYSQGISSYALLVLQVTYFKXGGVSLGVGMRHHAADGFSGLHFINSWSDMARGLDV 182
Query: 180 NI---CNNVVLDCTSLFPPHSSLKDQHIK----------PQL--------TSKVVFKRLF 218
+ + +L PP QHI+ PQ T+ +FK
Sbjct: 183 TLPPFIDRTLLRARD--PPQPQF--QHIEYQPPPALAVSPQTAASDSVPETAVSIFK--- 235
Query: 219 FDGKKIVALKEKVNKEIMVGSFDHELQASRFMVVSSLIWGAFIAVAQERKRAINNKLYSH 278
++I ALK K ++ + + S + +++ +W + R ++
Sbjct: 236 LTREQISALKAKSKED------GNTISYSSYEMLAGHVW---RCACKARGLEVDQ---GT 283
Query: 279 AMYYTMNLRSKMNPPMIPQCMGNIFRFVRAEWPLVGD 315
+Y + R+++ P + P GN+ F + GD
Sbjct: 284 KLYIATDGRARLRPSLPPGYFGNVI-FTATPIAIAGD 319
>pdb|2E1T|A Chain A, Crystal Structure Of Dendranthema Morifolium Dmat
Complexed With Malonyl-coa
pdb|2E1T|B Chain B, Crystal Structure Of Dendranthema Morifolium Dmat
Complexed With Malonyl-coa
pdb|2E1U|A Chain A, Crystal Structure Of Dendranthema Morifolium Dmat
pdb|2E1U|B Chain B, Crystal Structure Of Dendranthema Morifolium Dmat
Length = 454
Score = 52.0 bits (123), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 76/322 (23%), Positives = 112/322 (34%), Gaps = 77/322 (23%)
Query: 16 SPTPKHLRTYELSMLDQMFSNLYMPFVFFYSANKHQDFRKNSDFLKQSLAKTLTHYYPLA 75
SP +L YEL + F+ +P + K SL+ TL H+YP
Sbjct: 39 SPPINNLFFYELPITRSQFTETVVPNI------------------KHSLSITLKHFYPFV 80
Query: 76 GRFV---------DSFSVECNDHGVTFIEAQVGCDMSKFLQPPNMGVMQQLIPPSPQXXX 126
G+ V + VE + VTF E + + P N L+P +
Sbjct: 81 GKLVVYPAPTKKPEICYVEGDSVAVTFAECNLDLNELTGNHPRNCDKFYDLVPILGESTR 140
Query: 127 XXXXXXX-XXXVQVNYFSTGDVAIGICIWHGLADGSAISNFMKLWAEINRGVNENICNNV 185
VQV F +AIGI H L D S F+K W I R N
Sbjct: 141 LSDCIKIPLFSVQVTLFPNQGIAIGITNHHCLGDASTRFCFLKAWTSIARSGNN------ 194
Query: 186 VLDCTSLFPPHSSLKDQHIKPQLTSKVVFKRLFFDGKKIVALKEKVNKEIMVGSFDHELQ 245
D + L L D+ IK + + KR K+ + E + + G D +L+
Sbjct: 195 --DESFLANGTRPLYDRIIKYPMLDEAYLKR-----AKVESFNEDYVTQSLAGPSD-KLR 246
Query: 246 A--------------------------SRFMVVSSLIWGAFIAVAQERKRAINNKLYSHA 279
A S F V + IW +A+ R N+KL
Sbjct: 247 ATFILTRAVINQLKDRVLAQLPTLEYVSSFTVACAYIWS---CIAKSR----NDKL--QL 297
Query: 280 MYYTMNLRSKMNPPMIPQCMGN 301
+ ++ R++M PP+ GN
Sbjct: 298 FGFPIDRRARMKPPIPTAYFGN 319
>pdb|2E1V|A Chain A, Crystal Structure Of Dendranthema Morifolium Dmat, Seleno-
Methionine Derivative
pdb|2E1V|B Chain B, Crystal Structure Of Dendranthema Morifolium Dmat, Seleno-
Methionine Derivative
Length = 454
Score = 48.9 bits (115), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 46/175 (26%), Positives = 62/175 (35%), Gaps = 28/175 (16%)
Query: 16 SPTPKHLRTYELSMLDQMFSNLYMPFVFFYSANKHQDFRKNSDFLKQSLAKTLTHYYPLA 75
SP +L YEL + F+ +P + K SL+ TL H+YP
Sbjct: 39 SPPINNLFFYELPITRSQFTETVVPNI------------------KHSLSITLKHFYPFV 80
Query: 76 GRFV---------DSFSVECNDHGVTFIEAQVGCDMSKFLQPPNMGVMQQLIPP-SPQXX 125
G+ V + VE + VTF E + + P N L+P
Sbjct: 81 GKLVVYPAPTKKPEICYVEGDSVAVTFAECNLDLNELTGNHPRNCDKFYDLVPILGESTR 140
Query: 126 XXXXXXXXXXXVQVNYFSTGDVAIGICIWHGLADGSAISNFMKLWAEINRGVNEN 180
VQV F +AIGI H L D S F+K W I R N +
Sbjct: 141 LSDCIKIPLFSVQVTLFPNQGIAIGITNHHCLGDASTRFCFLKAWTSIARSGNND 195
>pdb|2XR7|A Chain A, Crystal Structure Of Nicotiana Tabacum Malonyltransferase
(Ntmat1) Complexed With Malonyl-Coa
Length = 453
Score = 42.0 bits (97), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 57/270 (21%), Positives = 95/270 (35%), Gaps = 36/270 (13%)
Query: 60 LKQSLAKTLTHYYPLAGR---------FVDSFSVECNDHGVTFIEAQVGCDMSKFLQPPN 110
LK SL+ TL +Y PLAG + + V N V F E+ + P N
Sbjct: 60 LKDSLSLTLKYYLPLAGNVACPQDWSGYPELRYVTGNSVSVIFSESDXDFNYLIGYHPRN 119
Query: 111 MGVMQQLIPP-SPQXXXXXXXXXXXXXVQVNYFSTGDVAIGICIWHGLADGSAISNFMKL 169
+P + +QV F ++IG H DG+ I F++
Sbjct: 120 TKDFYHFVPQLAEPKDAPGVQLAPVLAIQVTLFPNHGISIGFTNHHVAGDGATIVKFVRA 179
Query: 170 WAEINR-GVNENICNNVVLDCTSLFPPHSSLKDQH-IKPQLTSKVVFKRLFFDGKKIVAL 227
WA +N+ G +E N + F S +KD + + + ++ + +V
Sbjct: 180 WALLNKFGGDEQFLANEFIP----FYDRSVIKDPNGVGXSIWNEXKKYKHXXKXSDVVTP 235
Query: 228 KEKVNKEIMVGSFD-------------HELQASRFMVVSSLIWGAFI---AVAQERKRAI 271
+KV ++ D + F V + +W I A E
Sbjct: 236 PDKVRGTFIITRHDIGKLKNLVLTRRPKLTHVTSFTVTCAYVWTCIIKSEAATGEEIDEN 295
Query: 272 NNKLYSHAMYYTMNLRSKMNPPMIPQCMGN 301
+ + A + R++ NPP+ P GN
Sbjct: 296 GXEFFGCA----ADCRAQFNPPLPPSYFGN 321
>pdb|2PER|A Chain A, Crystal Structure Of Human Chloride Intracellular Channel
Protein 2
Length = 267
Score = 28.9 bits (63), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 2/48 (4%)
Query: 40 PFVFFYSANKHQDFRKNSDFLKQSLAKTLTHYYPLAGRFVDSFSVECN 87
P Y+ DF K +FL+Q+LA Y L+ ++ +SF V CN
Sbjct: 90 PPFLVYNKELKTDFIKIEEFLEQTLAP--PRYPHLSPKYKESFDVGCN 135
>pdb|2R4V|A Chain A, Structure Of Human Clic2, Crystal Form A
pdb|2R5G|A Chain A, Structure Of Human Clic2, Crystal Form B
Length = 247
Score = 28.9 bits (63), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 2/48 (4%)
Query: 40 PFVFFYSANKHQDFRKNSDFLKQSLAKTLTHYYPLAGRFVDSFSVECN 87
P Y+ DF K +FL+Q+LA Y L+ ++ +SF V CN
Sbjct: 70 PPFLVYNKELKTDFIKIEEFLEQTLAP--PRYPHLSPKYKESFDVGCN 115
>pdb|4A26|A Chain A, The Crystal Structure Of Leishmania Major N5,N10-
Methylenetetrahydrofolate DehydrogenaseCYCLOHYDROLASE
pdb|4A26|B Chain B, The Crystal Structure Of Leishmania Major N5,N10-
Methylenetetrahydrofolate DehydrogenaseCYCLOHYDROLASE
Length = 300
Score = 28.9 bits (63), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 23/39 (58%), Gaps = 2/39 (5%)
Query: 206 PQLTSKVVFKRLFFDGKKIVALKEKVNKEIMVGSFDHEL 244
P L S +V +R+ D KK V LK K E+ + SF+ EL
Sbjct: 38 PGLASIIVGQRM--DSKKYVQLKHKAAAEVGMASFNVEL 74
>pdb|2B8K|G Chain G, 12-Subunit Rna Polymerase Ii
Length = 215
Score = 28.5 bits (62), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 25/56 (44%), Gaps = 6/56 (10%)
Query: 71 YYPLAGRFVDSFSVECNDHGVTFIEAQVG---CDMSKFLQPPNMGVMQQLIPPSPQ 123
+ P G VD V C+ HG E QVG ++K L P ++ PPS Q
Sbjct: 79 FKPFKGEVVDGTVVSCSQHG---FEVQVGPMKVFVTKHLMPQDLTFNAGSNPPSYQ 131
>pdb|1NT9|G Chain G, Complete 12-Subunit Rna Polymerase Ii
pdb|1PQV|G Chain G, Rna Polymerase Ii-Tfiis Complex
pdb|1WCM|G Chain G, Complete 12-Subunit Rna Polymerase Ii At 3.8 Ang
pdb|1Y1W|G Chain G, Complete Rna Polymerase Ii Elongation Complex
pdb|1Y77|G Chain G, Complete Rna Polymerase Ii Elongation Complex With
Substrate Analogue Gmpcpp
pdb|1Y1V|G Chain G, Refined Rna Polymerase Ii-tfiis Complex
pdb|1Y1Y|G Chain G, Rna Polymerase Ii-Tfiis-DnaRNA COMPLEX
pdb|1Y14|B Chain B, Crystal Structure Of Yeast Subcomplex Of Rpb4 And Rpb7
pdb|1Y14|D Chain D, Crystal Structure Of Yeast Subcomplex Of Rpb4 And Rpb7
pdb|2B63|G Chain G, Complete Rna Polymerase Ii-Rna Inhibitor Complex
pdb|2JA5|G Chain G, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
A
pdb|2JA6|G Chain G, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
B
pdb|2JA7|G Chain G, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
C
pdb|2JA7|S Chain S, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
C
pdb|2JA8|G Chain G, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
D
pdb|2R7Z|G Chain G, Cisplatin Lesion Containing Rna Polymerase Ii Elongation
Complex
pdb|2R92|G Chain G, Elongation Complex Of Rna Polymerase Ii With Artificial
Rdrp Scaffold
pdb|2R93|G Chain G, Elongation Complex Of Rna Polymerase Ii With A Hepatitis
Delta Virus-Derived Rna Stem Loop
pdb|2VUM|G Chain G, Alpha-Amanitin Inhibited Complete Rna Polymerase Ii
Elongation Complex
pdb|3FKI|G Chain G, 12-Subunit Rna Polymerase Ii Refined With Zn-Sad Data
pdb|3H3V|H Chain H, Yeast Rnap Ii Containing Poly(A)-Signal Sequence In The
Active Site
pdb|3HOU|G Chain G, Complete Rna Polymerase Ii Elongation Complex I With A T-U
Mismatch
pdb|3HOU|S Chain S, Complete Rna Polymerase Ii Elongation Complex I With A T-U
Mismatch
pdb|3HOV|G Chain G, Complete Rna Polymerase Ii Elongation Complex Ii
pdb|3HOW|G Chain G, Complete Rna Polymerase Ii Elongation Complex Iii With A
T-U Mismatch And A Frayed Rna 3'-Uridine
pdb|3HOX|G Chain G, Complete Rna Polymerase Ii Elongation Complex V
pdb|3HOY|G Chain G, Complete Rna Polymerase Ii Elongation Complex Vi
pdb|3HOZ|G Chain G, Complete Rna Polymerase Ii Elongation Complex Iv With A
T-U Mismatch And A Frayed Rna 3'-Guanine
pdb|3I4M|G Chain G, 8-oxoguanine Containing Rna Polymerase Ii Elongation
Complex D
pdb|3I4N|G Chain G, 8-oxoguanine Containing Rna Polymerase Ii Elongation
Complex E
pdb|3K1F|G Chain G, Crystal Structure Of Rna Polymerase Ii In Complex With
Tfiib
pdb|3PO2|G Chain G, Arrested Rna Polymerase Ii Elongation Complex
pdb|3PO3|G Chain G, Arrested Rna Polymerase Ii Reactivation Intermediate
pdb|3QT1|G Chain G, Rna Polymerase Ii Variant Containing A Chimeric Rpb9-C11
Subunit
pdb|3J0K|G Chain G, Orientation Of Rna Polymerase Ii Within The Human
Vp16-Mediator-Pol Ii-Tfiif Assembly
pdb|4A3C|G Chain G, Rna Polymerase Ii Initial Transcribing Complex With A 5nt
Dna-Rna Hybrid
pdb|4A3B|G Chain G, Rna Polymerase Ii Initial Transcribing Complex With A 4nt
Dna-Rna Hybrid
pdb|4A3D|G Chain G, Rna Polymerase Ii Initial Transcribing Complex With A 6nt
Dna-Rna Hybrid
pdb|4A3E|G Chain G, Rna Polymerase Ii Initial Transcribing Complex With A 5nt
Dna-Rna Hybrid And Soaked With Ampcpp
pdb|4A3F|G Chain G, Rna Polymerase Ii Initial Transcribing Complex With A 6nt
Dna-Rna Hybrid And Soaked With Ampcpp
pdb|4A3J|G Chain G, Rna Polymerase Ii Initial Transcribing Complex With A 2nt
Dna-Rna Hybrid And Soaked With Gmpcpp
pdb|4A3K|G Chain G, Rna Polymerase Ii Initial Transcribing Complex With A 7nt
Dna-Rna Hybrid
pdb|4A3L|G Chain G, Rna Polymerase Ii Initial Transcribing Complex With A 7nt
Dna-Rna Hybrid And Soaked With Ampcpp
pdb|4A3M|G Chain G, Rna Polymerase Ii Initial Transcribing Complex With A 4nt
Dna-Rna Hybrid And Soaked With Ampcpp
pdb|4A3G|G Chain G, Rna Polymerase Ii Initial Transcribing Complex With A 2nt
Dna-Rna Hybrid
pdb|4A3I|G Chain G, Rna Polymerase Ii Binary Complex With Dna
pdb|4A93|G Chain G, Rna Polymerase Ii Elongation Complex Containing A Cpd
Lesion
pdb|4BBR|G Chain G, Structure Of Rna Polymerase Ii-tfiib Complex
pdb|4BBS|G Chain G, Structure Of An Initially Transcribing Rna Polymerase Ii-
Tfiib Complex
Length = 171
Score = 27.7 bits (60), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 25/56 (44%), Gaps = 6/56 (10%)
Query: 71 YYPLAGRFVDSFSVECNDHGVTFIEAQVG---CDMSKFLQPPNMGVMQQLIPPSPQ 123
+ P G VD V C+ HG E QVG ++K L P ++ PPS Q
Sbjct: 79 FKPFKGEVVDGTVVSCSQHG---FEVQVGPMKVFVTKHLMPQDLTFNAGSNPPSYQ 131
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 0.136 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,025,016
Number of Sequences: 62578
Number of extensions: 324254
Number of successful extensions: 480
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 460
Number of HSP's gapped (non-prelim): 12
length of query: 329
length of database: 14,973,337
effective HSP length: 99
effective length of query: 230
effective length of database: 8,778,115
effective search space: 2018966450
effective search space used: 2018966450
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 52 (24.6 bits)