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= 000457
(1484 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1B43|A Chain A, Fen-1 From P. Furiosus
pdb|1B43|B Chain B, Fen-1 From P. Furiosus
Length = 340
Score = 88.6 bits (218), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 57/154 (37%), Positives = 88/154 (57%), Gaps = 15/154 (9%)
Query: 875 DEQKKLERNAESVSSEMFAECQELLQMFGLPYIIAPMEAEAQCAYMELANLVDGVVTDDS 934
+E +K + A V+ + + ++LL++ G+P + AP E EAQ AYM V + D
Sbjct: 115 EEARKYAQRATRVNEMLIEDAKKLLELMGIPIVQAPSEGEAQAAYMAAKGSVYASASQDY 174
Query: 935 DVFLFGARSVYKN--IFDDRK------YVET----YFMQDIEKDLGLTREKLIRMALLLG 982
D LFGA + +N I RK YVE ++++ K+L LTREKLI +A+L+G
Sbjct: 175 DSLLFGAPRLVRNLTITGKRKLPGKNVYVEIKPELIILEEVLKELKLTREKLIELAILVG 234
Query: 983 SDYTE-GISGIGIVNAIEVVNAFPEEDGLSKFRE 1015
+DY GI GIG+ A+E+V +D L+KF++
Sbjct: 235 TDYNPGGIKGIGLKKALEIVRH--SKDPLAKFQK 266
>pdb|1MC8|A Chain A, Crystal Structure Of Flap Endonuclease-1 R42e Mutant From
Pyrococcus Horikoshii
pdb|1MC8|B Chain B, Crystal Structure Of Flap Endonuclease-1 R42e Mutant From
Pyrococcus Horikoshii
Length = 343
Score = 85.5 bits (210), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 57/153 (37%), Positives = 84/153 (54%), Gaps = 15/153 (9%)
Query: 875 DEQKKLERNAESVSSEMFAECQELLQMFGLPYIIAPMEAEAQCAYMELANLVDGVVTDDS 934
+E +K + A V+ + + ++LLQ+ G+P I AP E EAQ AYM V + D
Sbjct: 115 EEARKYAQRATKVNEMLIEDAKKLLQLMGIPIIQAPSEGEAQAAYMASKGDVYASASQDY 174
Query: 935 DVFLFGARSVYKN--IFDDRK------YVET----YFMQDIEKDLGLTREKLIRMALLLG 982
D LFGA + +N I RK YVE + ++ K+L +TREKLI +A+L+G
Sbjct: 175 DSLLFGAPRLIRNLTITGKRKMPGKDVYVEIKPELVVLDEVLKELKITREKLIELAILVG 234
Query: 983 SDYTE-GISGIGIVNAIEVVNAFPEEDGLSKFR 1014
+DY G+ GIG A+E+V D L+KF+
Sbjct: 235 TDYNPGGVKGIGPKKALEIVRY--SRDPLAKFQ 265
>pdb|1A76|A Chain A, Flap Endonuclease-1 From Methanococcus Jannaschii
pdb|1A77|A Chain A, Flap Endonuclease-1 From Methanococcus Jannaschii
Length = 326
Score = 82.4 bits (202), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 46/139 (33%), Positives = 77/139 (55%), Gaps = 1/139 (0%)
Query: 875 DEQKKLERNAESVSSEMFAECQELLQMFGLPYIIAPMEAEAQCAYMELANLVDGVVTDDS 934
+E K + ++ +M C+ LL + G+PY+ AP E EAQ +YM V VV+ D
Sbjct: 115 EEAAKYAKRVSYLTPKMVENCKYLLSLMGIPYVEAPSEGEAQASYMAKKGDVWAVVSQDY 174
Query: 935 DVFLFGARSVYKNIFDDRKYVETYFMQDIEKDLGLTREKLIRMALLLGSDYTE-GISGIG 993
D L+GA V +N+ ++ E + ++ +DL ++ + LI +A+ +G+DY G+ GIG
Sbjct: 175 DALLYGAPRVVRNLTTTKEMPELIELNEVLEDLRISLDDLIDIAIFMGTDYNPGGVKGIG 234
Query: 994 IVNAIEVVNAFPEEDGLSK 1012
A E+V + +D L K
Sbjct: 235 FKRAYELVRSGVAKDVLKK 253
>pdb|1UL1|X Chain X, Crystal Structure Of The Human Fen1-Pcna Complex
pdb|1UL1|Y Chain Y, Crystal Structure Of The Human Fen1-Pcna Complex
pdb|1UL1|Z Chain Z, Crystal Structure Of The Human Fen1-Pcna Complex
Length = 379
Score = 82.4 bits (202), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 42/127 (33%), Positives = 73/127 (57%), Gaps = 3/127 (2%)
Query: 879 KLERNAESVSSEMFAECQELLQMFGLPYIIAPMEAEAQCAYMELANLVDGVVTDDSDVFL 938
K + V+ + EC+ LL + G+PY+ AP EAEA CA + A V T+D D
Sbjct: 124 KFTKRLVKVTKQHNDECKHLLSLMGIPYLDAPSEAEASCAALVKAGKVYAAATEDMDCLT 183
Query: 939 FGARSVYKNIF--DDRKY-VETYFMQDIEKDLGLTREKLIRMALLLGSDYTEGISGIGIV 995
FG+ + +++ + +K ++ + + I ++LGL +E+ + + +LLGSDY E I GIG
Sbjct: 184 FGSPVLMRHLTASEAKKLPIQEFHLSRILQELGLNQEQFVDLCILLGSDYCESIRGIGPK 243
Query: 996 NAIEVVN 1002
A++++
Sbjct: 244 RAVDLIQ 250
>pdb|3Q8K|A Chain A, Crystal Structure Of Human Flap Endonuclease Fen1 (Wt) In
Complex With Product 5'-Flap Dna, Sm3+, And K+
pdb|3Q8L|A Chain A, Crystal Structure Of Human Flap Endonuclease Fen1 (Wt) In
Complex With Substrate 5'-Flap Dna, Sm3+, And K+
Length = 341
Score = 80.5 bits (197), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 40/112 (35%), Positives = 68/112 (60%), Gaps = 3/112 (2%)
Query: 894 ECQELLQMFGLPYIIAPMEAEAQCAYMELANLVDGVVTDDSDVFLFGARSVYKNIF--DD 951
EC+ LL + G+PY+ AP EAEA CA + A V T+D D FG+ + +++ +
Sbjct: 139 ECKHLLSLMGIPYLDAPSEAEASCAALVKAGKVYAAATEDMDCLTFGSPVLMRHLTASEA 198
Query: 952 RKY-VETYFMQDIEKDLGLTREKLIRMALLLGSDYTEGISGIGIVNAIEVVN 1002
+K ++ + + I ++LGL +E+ + + +LLGSDY E I GIG A++++
Sbjct: 199 KKLPIQEFHLSRILQELGLNQEQFVDLCILLGSDYCESIRGIGPKRAVDLIQ 250
>pdb|3Q8M|A Chain A, Crystal Structure Of Human Flap Endonuclease Fen1 (D181a) In
Complex With Substrate 5'-Flap Dna And K+
pdb|3Q8M|B Chain B, Crystal Structure Of Human Flap Endonuclease Fen1 (D181a) In
Complex With Substrate 5'-Flap Dna And K+
Length = 341
Score = 77.8 bits (190), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 39/112 (34%), Positives = 67/112 (59%), Gaps = 3/112 (2%)
Query: 894 ECQELLQMFGLPYIIAPMEAEAQCAYMELANLVDGVVTDDSDVFLFGARSVYKNIF--DD 951
EC+ LL + G+PY+ AP EAEA CA + A V T+D FG+ + +++ +
Sbjct: 139 ECKHLLSLMGIPYLDAPSEAEASCAALVKAGKVYAAATEDMACLTFGSPVLMRHLTASEA 198
Query: 952 RKY-VETYFMQDIEKDLGLTREKLIRMALLLGSDYTEGISGIGIVNAIEVVN 1002
+K ++ + + I ++LGL +E+ + + +LLGSDY E I GIG A++++
Sbjct: 199 KKLPIQEFHLSRILQELGLNQEQFVDLCILLGSDYCESIRGIGPKRAVDLIQ 250
>pdb|1RXV|A Chain A, Crystal Structure Of A. Fulgidus Fen-1 Bound To Dna
pdb|1RXV|B Chain B, Crystal Structure Of A. Fulgidus Fen-1 Bound To Dna
pdb|1RXW|A Chain A, Crystal Structure Of A. Fulgidus Fen-1 Bound To Dna
Length = 336
Score = 77.0 bits (188), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 49/140 (35%), Positives = 74/140 (52%), Gaps = 14/140 (10%)
Query: 878 KKLERNAESVSSEMFAECQELLQMFGLPYIIAPMEAEAQCAYMELANLVDGVVTDDSDVF 937
KK + A V + + LL G+P++ AP E EAQ AYM V+ + D D
Sbjct: 117 KKYAQAAGRVDEYIVDSAKTLLSYMGIPFVDAPSEGEAQAAYMAAKGDVEYTGSQDYDSL 176
Query: 938 LFG----ARSVY---------KNIFDDRKYVETYFMQDIEKDLGLTREKLIRMALLLGSD 984
LFG AR++ KN++ D K E ++ K LGLTRE+LI +A+L+G+D
Sbjct: 177 LFGSPRLARNLAITGKRKLPGKNVYVDVK-PEIIILESNLKRLGLTREQLIDIAILVGTD 235
Query: 985 YTEGISGIGIVNAIEVVNAF 1004
Y EG+ G+G+ A+ + +
Sbjct: 236 YNEGVKGVGVKKALNYIKTY 255
>pdb|2IZO|A Chain A, Structure Of An Archaeal Pcna1-Pcna2-Fen1 Complex
Length = 346
Score = 74.7 bits (182), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 48/143 (33%), Positives = 78/143 (54%), Gaps = 13/143 (9%)
Query: 875 DEQKKLERNAESVSSEMFAECQELLQMFGLPYIIAPMEAEAQCAYMELANLVDGVVTDDS 934
+E +K + +S+ M E ++LL+ G+P + AP E EA+ AY+ L + D
Sbjct: 112 EELRKYSQAILRLSNIMVEESKKLLRAMGIPIVQAPSEGEAEAAYLNKLGLSWAAASQDY 171
Query: 935 DVFLFGARSVYKN--IFDDRK------YVET----YFMQDIEKDLGLTREKLIRMALLLG 982
D LFGA+ + +N I RK YVE + + K LG+TRE+LI + +L+G
Sbjct: 172 DAILFGAKRLVRNLTITGKRKLPNKDVYVEIKPELIETEILLKKLGITREQLIDIGILIG 231
Query: 983 SDYT-EGISGIGIVNAIEVVNAF 1004
+DY +GI GIG A++++ +
Sbjct: 232 TDYNPDGIRGIGPERALKIIKKY 254
>pdb|3ORY|A Chain A, Crystal Structure Of Flap Endonuclease 1 From
Hyperthermophilic Archaeon Desulfurococcus Amylolyticus
Length = 363
Score = 63.2 bits (152), Expect = 1e-09, Method: Composition-based stats.
Identities = 54/166 (32%), Positives = 80/166 (48%), Gaps = 21/166 (12%)
Query: 853 EATEKILEEEMQILDHEYMYLGDEQKKLERNAESVSSEMFAECQELLQMFGLPYIIAPME 912
E K EE +Q D E ++ + ++ EM + + LL G+P++ AP E
Sbjct: 113 EEAAKKYEEAVQSGDLEL------ARRYAMMSAKLTEEMVRDAKSLLDAMGIPWVQAPAE 166
Query: 913 AEAQCAYMELANLVDGVVTDDSDVFLFGARSVYKN--IFDDRK------YVETYFMQDIE 964
EAQ AY+ + D D LFG+ + +N I RK YVE + IE
Sbjct: 167 GEAQAAYIVKKGDAYASASQDYDSLLFGSPKLVRNLTISGRRKLPRKNEYVEVK-PELIE 225
Query: 965 KD-----LGLTREKLIRMALLLGSDYT-EGISGIGIVNAIEVVNAF 1004
D LG+T E LI + +LLG+DY +G GIG A+++V A+
Sbjct: 226 LDKLLVQLGITLENLIDIGILLGTDYNPDGFEGIGPKKALQLVKAY 271
>pdb|3QEA|Z Chain Z, Crystal Structure Of Human Exonuclease 1 Exo1 (Wt) In
Complex With Dna (Complex Ii)
pdb|3QEB|Z Chain Z, Crystal Structure Of Human Exonuclease 1 Exo1 (Wt) In
Complex With Dna And Mn2+ (Complex Iii)
Length = 352
Score = 57.0 bits (136), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 37/110 (33%), Positives = 57/110 (51%), Gaps = 19/110 (17%)
Query: 903 GLPYIIAPMEAEAQCAYMELANLVDGVVTDDSDVFLFGARSVYKNIFDDRKYVETYFMQD 962
G+ ++AP EA+AQ AY+ A +V ++T+DSD+ FG + V + D+ F
Sbjct: 141 GVDCLVAPYEADAQLAYLNKAGIVQAIITEDSDLLAFGCKKVILKM--DQ------FGNG 192
Query: 963 IEKD---LGLTR--------EKLIRMALLLGSDYTEGISGIGIVNAIEVV 1001
+E D LG+ R EK M +L G DY + GIG+ A +V+
Sbjct: 193 LEIDQARLGMCRQLGDVFTEEKFRYMCILSGCDYLSSLRGIGLAKACKVL 242
>pdb|3QE9|Y Chain Y, Crystal Structure Of Human Exonuclease 1 Exo1 (D173a) In
Complex With Dna (Complex I)
pdb|3QE9|Z Chain Z, Crystal Structure Of Human Exonuclease 1 Exo1 (D173a) In
Complex With Dna (Complex I)
Length = 352
Score = 53.9 bits (128), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 36/110 (32%), Positives = 56/110 (50%), Gaps = 19/110 (17%)
Query: 903 GLPYIIAPMEAEAQCAYMELANLVDGVVTDDSDVFLFGARSVYKNIFDDRKYVETYFMQD 962
G+ ++AP EA+AQ AY+ A +V ++T+DS + FG + V + D+ F
Sbjct: 141 GVDCLVAPYEADAQLAYLNKAGIVQAIITEDSALLAFGCKKVILKM--DQ------FGNG 192
Query: 963 IEKD---LGLTR--------EKLIRMALLLGSDYTEGISGIGIVNAIEVV 1001
+E D LG+ R EK M +L G DY + GIG+ A +V+
Sbjct: 193 LEIDQARLGMCRQLGDVFTEEKFRYMCILSGCDYLSSLRGIGLAKACKVL 242
>pdb|3JZ4|C Chain C, Crystal Structure Of E. Coli Nadp Dependent Enzyme
Length = 481
Score = 35.0 bits (79), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 42/82 (51%), Gaps = 6/82 (7%)
Query: 330 ANNGASIDKSNFSSTDQSNSVTKLGPEESRKSFADDVETYLDERGRVRLSKVRAMGIRMT 389
ANNG +ID +N ++ D+ SV K+G +E+R + D R +K RA +R
Sbjct: 21 ANNGEAIDVTNPANGDKLGSVPKMGADETRAAI--DAANRALPAWRALTAKERATILRNW 78
Query: 390 RDL----QRNLEMMKEIEQERP 407
+L Q +L + +EQ +P
Sbjct: 79 FNLMMEHQDDLARLMTLEQGKP 100
>pdb|3JZ4|A Chain A, Crystal Structure Of E. Coli Nadp Dependent Enzyme
pdb|3JZ4|B Chain B, Crystal Structure Of E. Coli Nadp Dependent Enzyme
pdb|3JZ4|D Chain D, Crystal Structure Of E. Coli Nadp Dependent Enzyme
Length = 481
Score = 35.0 bits (79), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 42/82 (51%), Gaps = 6/82 (7%)
Query: 330 ANNGASIDKSNFSSTDQSNSVTKLGPEESRKSFADDVETYLDERGRVRLSKVRAMGIRMT 389
ANNG +ID +N ++ D+ SV K+G +E+R + D R +K RA +R
Sbjct: 21 ANNGEAIDVTNPANGDKLGSVPKMGADETRAAI--DAANRALPAWRALTAKERATILRNW 78
Query: 390 RDL----QRNLEMMKEIEQERP 407
+L Q +L + +EQ +P
Sbjct: 79 FNLMMEHQDDLARLMTLEQGKP 100
>pdb|2BE1|A Chain A, Structure Of The Compact Lumenal Domain Of Yeast Ire1
pdb|2BE1|B Chain B, Structure Of The Compact Lumenal Domain Of Yeast Ire1
Length = 339
Score = 34.7 bits (78), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 34/149 (22%), Positives = 57/149 (38%), Gaps = 30/149 (20%)
Query: 651 DGLGKLDTVGGIN-----NSEVIGSLGRE-----LKLYEPRNSDEKEMLINKPFEKDNSY 700
D L D GG++ N +I S+ E +++ EP + E LI +PF N Y
Sbjct: 11 DILIAADVEGGLHAVDRRNGHIIWSIEPENFQPLIEIQEPSRLETYETLIIEPFGDGNIY 70
Query: 701 FEQSRQGANDGANDGRSLCSDAPCE--------DSGTTME------------LTEVQLVK 740
+ + QG R L S +P DSG +E + + ++
Sbjct: 71 YFNAHQGLQKLPLSIRQLVSTSPLHLKTNIVVNDSGKIVEDEKVYTGSMRTIMYTINMLN 130
Query: 741 GRCLSASAKGDEHLTHEDKKNNCEAETSV 769
G +SA G ++ + +C E +
Sbjct: 131 GEIISAFGPGSKNGYFGSQSVDCSPEEKI 159
>pdb|2E0Z|A Chain A, Crystal Structure Of Virus-Like Particle From Pyrococcus
Furiosus
pdb|2E0Z|B Chain B, Crystal Structure Of Virus-Like Particle From Pyrococcus
Furiosus
pdb|2E0Z|C Chain C, Crystal Structure Of Virus-Like Particle From Pyrococcus
Furiosus
Length = 345
Score = 33.9 bits (76), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 17/34 (50%)
Query: 691 NKPFEKDNSYFEQSRQGANDGANDGRSLCSDAPC 724
NK E + YFE+ R DG N GRSL P
Sbjct: 103 NKKEESNVEYFEKLRSALLDGVNKGRSLLKHLPV 136
>pdb|2P9B|A Chain A, Crystal Structure Of Putative Prolidase From
Bifidobacterium Longum
Length = 458
Score = 31.2 bits (69), Expect = 4.4, Method: Composition-based stats.
Identities = 19/77 (24%), Positives = 35/77 (45%)
Query: 516 GTTERKGSSLSDDANAGINPPLNLEEGGISDESEVEWEEGPSCAPKSSLSFPAESEKTVS 575
GT E ++++ + AG+N GG++D E+ P + + + E+ +
Sbjct: 182 GTPEEARTAVAQNLKAGVNAIKIAATGGVTDAQEIGEAGSPQXSVEQXRAICDEAHQYGV 241
Query: 576 NIEEEANLQEAIRRSLL 592
+ A E +RRSLL
Sbjct: 242 IVGAHAQSPEGVRRSLL 258
>pdb|2X8Y|A Chain A, Crystal Structure Of Ance
pdb|2X8Z|A Chain A, Crystal Structure Of Ance-Captopril Complex
pdb|2X90|A Chain A, Crystal Structure Of Ance-Enalaprilat Complex
pdb|2X91|A Chain A, Crystal Structure Of Ance-Lisinopril Complex
pdb|2X96|A Chain A, Crystal Structure Of Ance-Rxpa380 Complex
pdb|2X97|A Chain A, Crystal Structure Of Ance-Rxp407 Complex
pdb|2XHM|A Chain A, Crystal Structure Of Ance-K26 Complex
pdb|3ZQZ|A Chain A, Crystal Structure Of Ance In Complex With A Selenium
Analogue Of Captopril
pdb|4AA1|A Chain A, Crystal Structure Of Ance In Complex With Angiotensin-Ii
pdb|4AA2|A Chain A, Crystal Structure Of Ance In Complex With Bradykinin
Potentiating Peptide B
pdb|4ASQ|A Chain A, Crystal Structure Of Ance In Complex With Bradykinin
pdb|4ASR|A Chain A, Crystal Structure Of Ance In Complex With Thr6-Bradykinin
Length = 598
Score = 31.2 bits (69), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 33/59 (55%), Gaps = 6/59 (10%)
Query: 102 FAALPPSMQHQLL-----VRNNDAKGKNVLSDDLGQADTVGISPESHDVVSKSRDHKKL 155
+AALP +LL + +N AK K D + D + + PE +V+SKSRDH++L
Sbjct: 89 YAALPEDDYAELLDTLSAMESNFAKVKVCDYKDSTKCD-LALDPEIEEVISKSRDHEEL 146
>pdb|2X92|A Chain A, Crystal Structure Of Ance-Ramiprilat Complex
pdb|2X93|A Chain A, Crystal Structure Of Ance-Trandolaprilat Complex
pdb|2X94|A Chain A, Crystal Structure Of Ance-Perindoprilat Complex
pdb|2X95|A Chain A, Crystal Structure Of Ance-Lisinopril-Tryptophan Analogue,
Lisw-S Complex
Length = 599
Score = 30.8 bits (68), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 33/59 (55%), Gaps = 6/59 (10%)
Query: 102 FAALPPSMQHQLL-----VRNNDAKGKNVLSDDLGQADTVGISPESHDVVSKSRDHKKL 155
+AALP +LL + +N AK K D + D + + PE +V+SKSRDH++L
Sbjct: 89 YAALPEDDYAELLDTLSAMESNFAKVKVCDYKDSTKCD-LALDPEIEEVISKSRDHEEL 146
>pdb|1J36|A Chain A, Crystal Structure Of Drosophila Ance
pdb|1J36|B Chain B, Crystal Structure Of Drosophila Ance
pdb|1J37|A Chain A, Crystal Structure Of Drosophila Ance
pdb|1J37|B Chain B, Crystal Structure Of Drosophila Ance
pdb|1J38|A Chain A, Crystal Structure Of Drosophila Ance
pdb|1J38|B Chain B, Crystal Structure Of Drosophila Ance
Length = 607
Score = 30.8 bits (68), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 33/59 (55%), Gaps = 6/59 (10%)
Query: 102 FAALPPSMQHQLL-----VRNNDAKGKNVLSDDLGQADTVGISPESHDVVSKSRDHKKL 155
+AALP +LL + +N AK K D + D + + PE +V+SKSRDH++L
Sbjct: 92 YAALPEDDYAELLDTLSAMESNFAKVKVCDYKDSTKCD-LALDPEIEEVISKSRDHEEL 149
>pdb|3IYD|D Chain D, Three-Dimensional Em Structure Of An Intact
Activator-Dependent Transcription Initiation Complex
Length = 1413
Score = 30.4 bits (67), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 28/47 (59%), Gaps = 3/47 (6%)
Query: 270 AAAGRGVAGVQTSRIASEANREFIFSSSFTGDKQVLTSSRVEGKKDE 316
A R + G+ + +A+E+ FI ++SF +VLT + V GK+DE
Sbjct: 1300 ATYSRDLLGITKASLATES---FISAASFQETTRVLTEAAVAGKRDE 1343
>pdb|3LU0|D Chain D, Molecular Model Of Escherichia Coli Core Rna Polymerase
pdb|4IGC|D Chain D, X-ray Crystal Structure Of Escherichia Coli Sigma70
Holoenzyme
pdb|4IGC|I Chain I, X-ray Crystal Structure Of Escherichia Coli Sigma70
Holoenzyme
Length = 1407
Score = 30.4 bits (67), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 28/47 (59%), Gaps = 3/47 (6%)
Query: 270 AAAGRGVAGVQTSRIASEANREFIFSSSFTGDKQVLTSSRVEGKKDE 316
A R + G+ + +A+E+ FI ++SF +VLT + V GK+DE
Sbjct: 1300 ATYSRDLLGITKASLATES---FISAASFQETTRVLTEAAVAGKRDE 1343
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
0.309 0.127 0.351
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 39,354,356
Number of Sequences: 62578
Number of extensions: 1574657
Number of successful extensions: 3163
Number of sequences better than 100.0: 28
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 3135
Number of HSP's gapped (non-prelim): 29
length of query: 1484
length of database: 14,973,337
effective HSP length: 111
effective length of query: 1373
effective length of database: 8,027,179
effective search space: 11021316767
effective search space used: 11021316767
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 58 (26.9 bits)