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= 016232
(393 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3EM5|A Chain A, Crystal Structure Of A Native Endo Beta-1,3-Glucanase (Hev
B 2), A Major Allergen From Hevea Brasiliensis
pdb|3EM5|B Chain B, Crystal Structure Of A Native Endo Beta-1,3-Glucanase (Hev
B 2), A Major Allergen From Hevea Brasiliensis
pdb|3EM5|C Chain C, Crystal Structure Of A Native Endo Beta-1,3-Glucanase (Hev
B 2), A Major Allergen From Hevea Brasiliensis
pdb|3EM5|D Chain D, Crystal Structure Of A Native Endo Beta-1,3-Glucanase (Hev
B 2), A Major Allergen From Hevea Brasiliensis
pdb|3F55|A Chain A, Crystal Structure Of The Native Endo Beta-1,3-Glucanase
(Hev B 2), A Major Allergen From Hevea Brasiliensis
(Space Group P41)
pdb|3F55|B Chain B, Crystal Structure Of The Native Endo Beta-1,3-Glucanase
(Hev B 2), A Major Allergen From Hevea Brasiliensis
(Space Group P41)
pdb|3F55|C Chain C, Crystal Structure Of The Native Endo Beta-1,3-Glucanase
(Hev B 2), A Major Allergen From Hevea Brasiliensis
(Space Group P41)
pdb|3F55|D Chain D, Crystal Structure Of The Native Endo Beta-1,3-Glucanase
(Hev B 2), A Major Allergen From Hevea Brasiliensis
(Space Group P41)
Length = 316
Score = 231 bits (590), Expect = 4e-61, Method: Compositional matrix adjust.
Identities = 123/319 (38%), Positives = 194/319 (60%), Gaps = 10/319 (3%)
Query: 37 GINYGRIADNIPSPDEVAVLLRASKIKNVRIYDADHSVLKAFSGTGLELVVGLPNGLVKE 96
G+ YG +N+P EV L + S I +RIYD + +VL+A G+ +EL++G+PN ++
Sbjct: 3 GVCYGMQGNNLPPVSEVIALYKKSNITRMRIYDPNQAVLEALRGSNIELILGVPNSDLQS 62
Query: 97 MSANESHAMDWVKENVQNFLPKTKICGIAVGNEVLGGADSELWGA--LLGAVKNVYNSIK 154
++ N S+A WV++NV+ F + IAVGNE+ W A +L A++N++++I+
Sbjct: 63 LT-NPSNAKSWVQKNVRGFWSSVRFRYIAVGNEISPVNRGTAWLAQFVLPAMRNIHDAIR 121
Query: 155 KLHLDDVVQITTAHSQAVFANSYPPSSCIFKEGVDQFMKPLLDFFSQIGSPFCLNVYPFL 214
L D ++++TA + NSYPPS+ F++ V ++ P++ F S I SP N+YP+
Sbjct: 122 SAGLQDQIKVSTAIDLTLVGNSYPPSAGAFRDDVRSYLNPIIRFLSSIRSPLLANIYPYF 181
Query: 215 AYMSDPENIDINYALFQSTQGIDDSKTKLHYDNMLDAQIDAAYAALEDAGFKKMEVIVTE 274
Y +P +I + YALF S + + Y N+ DA +DA Y+ALE A +EV+V+E
Sbjct: 182 TYAGNPRDISLPYALFTSPSVVVWDGQR-GYKNLFDATLDALYSALERASGGSLEVVVSE 240
Query: 275 TGWASRGDSNEAAATVDNARTYNYNLRKRLAKKKGTPLRPKNVVKAYVFAIFNENQKPGP 334
+GW S G AAT DN RTY NL + + K+GTP RPK ++ Y+FA+F+EN+K P
Sbjct: 241 SGWPSAG---AFAATFDNGRTYLSNLIQHV--KRGTPKRPKRAIETYLFAMFDENKK-QP 294
Query: 335 TSERNFGLFKPDGSIAYDI 353
E++FGLF P+ Y++
Sbjct: 295 EVEKHFGLFFPNKWQKYNL 313
>pdb|3UR7|A Chain A, Higher-density Crystal Structure Of Potato
Endo-1,3-beta-glucanase
pdb|3UR7|B Chain B, Higher-density Crystal Structure Of Potato
Endo-1,3-beta-glucanase
pdb|3UR8|A Chain A, Lower-density Crystal Structure Of Potato
Endo-1,3-beta-glucanase
pdb|3UR8|B Chain B, Lower-density Crystal Structure Of Potato
Endo-1,3-beta-glucanase
Length = 323
Score = 228 bits (581), Expect = 4e-60, Method: Compositional matrix adjust.
Identities = 115/318 (36%), Positives = 189/318 (59%), Gaps = 10/318 (3%)
Query: 37 GINYGRIADNIPSPDEVAVLLRASKIKNVRIYDADHSVLKAFSGTGLELVVGLPNGLVKE 96
G+ YG+IA+N+PS +V L A+ IK +RIY +V A G+ +E+++ +PN ++
Sbjct: 4 GVCYGKIANNLPSDQDVIKLYNANNIKKMRIYYPHTNVFNALKGSNIEIILDVPNQDLEA 63
Query: 97 MSANESHAMDWVKENVQNFLPKTKICGIAVGNEVLGGADSELWGALLG-AVKNVYNSIKK 155
+ AN S+A WV++N++N P K IAVGNEV G +S + +G A++N+YN++
Sbjct: 64 L-ANPSNANGWVQDNIRNHFPDVKFKYIAVGNEVDPGRESGKYARFVGPAMENIYNALSS 122
Query: 156 LHLDDVVQITTAHSQAVFANSYPPSSCIFKEGVDQFMKPLLDFFSQIGSPFCLNVYPFLA 215
L + ++++T+ + N+YPP IF+E F+ P++ F ++ P N+YP+
Sbjct: 123 AGLQNQIKVSTSTYSGLLTNTYPPRDSIFREEYKSFINPIIGFLARHNLPLLANIYPYFG 182
Query: 216 YMSDPENIDINYALFQSTQGIDDSKTKLHYDNMLDAQIDAAYAALEDAGFKKMEVIVTET 275
++ + + ++YALF + D Y N+ DA +D+ Y A E G + +E+IV+E+
Sbjct: 183 HIDNTNAVPLSYALFNQQRRNDTG-----YQNLFDALVDSMYFATEKLGGQNIEIIVSES 237
Query: 276 GWASRGDSNEAAATVDNARTYNYNLRKRLAKKKGTPLRPKNVVKAYVFAIFNENQKPGPT 335
GW S G AAT+ NARTY NL + + GTP +P ++ Y+FA+F+EN+K G
Sbjct: 238 GWPSEG---HPAATLKNARTYYTNLINHVKRGAGTPKKPGKTIETYLFAMFDENEKKGEA 294
Query: 336 SERNFGLFKPDGSIAYDI 353
SE++FGLF PD Y +
Sbjct: 295 SEKHFGLFNPDQRPKYQL 312
>pdb|2CYG|A Chain A, Crystal Structure At 1.45- Resolution Of The Major
Allergen Endo-Beta-1,3-Glucanase Of Banana As A
Molecular Basis For The Latex-Fruit Syndrome
Length = 312
Score = 226 bits (575), Expect = 2e-59, Method: Compositional matrix adjust.
Identities = 116/317 (36%), Positives = 190/317 (59%), Gaps = 8/317 (2%)
Query: 37 GINYGRIADNIPSPDEVAVLLRASKIKNVRIYDADHSVLKAFSGTGLELVVGLPNGLVKE 96
G+ YG + +N+P P EV L +++ I +R+YD + + L+A + +++++ +P V+
Sbjct: 2 GVCYGMLGNNLPPPSEVVSLYKSNNIARMRLYDPNQAALQALRNSNIQVLLDVPRSDVQS 61
Query: 97 MSANESHAMDWVKENVQNFLPKTKICGIAVGNEVLGGADSELWGALLGAVKNVYNSIKKL 156
+++N S A DW++ NV + P IAVGNE++ G+D L +L A++N+YN++
Sbjct: 62 LASNPSAAGDWIRRNVVAYWPSVSFRYIAVGNELIPGSD--LAQYILPAMRNIYNALSSA 119
Query: 157 HLDDVVQITTAHSQAVFANSYPPSSCIFKEGVDQFMKPLLDFFSQIGSPFCLNVYPFLAY 216
L + ++++TA V SYPPS+ F ++ P++ F + G+P +NVYP+ +Y
Sbjct: 120 GLQNQIKVSTAVDTGVLGTSYPPSAGAFSSAAQAYLSPIVQFLASNGAPLLVNVYPYFSY 179
Query: 217 MSDPENIDINYALFQSTQGIDDSKTKLHYDNMLDAQIDAAYAALEDAGFKKMEVIVTETG 276
+P I + YALF ++ G+ + Y N+ DA +DA +AALE G + V+V+E+G
Sbjct: 180 TGNPGQISLPYALFTAS-GVVVQDGRFSYQNLFDAIVDAVFAALERVGGANVAVVVSESG 238
Query: 277 WASRGDSNEAAATVDNARTYNYNLRKRLAKKKGTPLRPKNVVKAYVFAIFNENQKPGPTS 336
W S G EA+ + NA+TYN NL + + GTP RP ++AY+F +FNENQK G
Sbjct: 239 WPSAGGGAEASTS--NAQTYNQNLIRHVG--GGTPRRPGKEIEAYIFEMFNENQKAGGI- 293
Query: 337 ERNFGLFKPDGSIAYDI 353
E+NFGLF P+ Y I
Sbjct: 294 EQNFGLFYPNKQPVYQI 310
>pdb|4GZI|A Chain A, Active-site Mutant Of Potato Endo-1,3-beta-glucanase In
Complex With Laminaratriose
pdb|4GZJ|A Chain A, Active-site Mutant Of Potato Endo-1,3-beta-glucanase In
Complex With Laminaratriose And Laminaratetrose
Length = 323
Score = 225 bits (574), Expect = 3e-59, Method: Compositional matrix adjust.
Identities = 114/318 (35%), Positives = 188/318 (59%), Gaps = 10/318 (3%)
Query: 37 GINYGRIADNIPSPDEVAVLLRASKIKNVRIYDADHSVLKAFSGTGLELVVGLPNGLVKE 96
G+ YG+IA+N+PS +V L A+ IK +RIY +V A G+ +E+++ +PN ++
Sbjct: 4 GVCYGKIANNLPSDQDVIKLYNANNIKKMRIYYPHTNVFNALKGSNIEIILDVPNQDLEA 63
Query: 97 MSANESHAMDWVKENVQNFLPKTKICGIAVGNEVLGGADSELWGALLG-AVKNVYNSIKK 155
+ AN S+A WV++N++N P K IAVGNEV G +S + +G A++N+YN++
Sbjct: 64 L-ANPSNANGWVQDNIRNHFPDVKFKYIAVGNEVDPGRESGKYARFVGPAMENIYNALSS 122
Query: 156 LHLDDVVQITTAHSQAVFANSYPPSSCIFKEGVDQFMKPLLDFFSQIGSPFCLNVYPFLA 215
L + ++++T+ + N+YPP IF+E F+ P++ F ++ P N+YP+
Sbjct: 123 AGLQNQIKVSTSTYSGLLTNTYPPRDSIFREEYKSFINPIIGFLARHNLPLLANIYPYFG 182
Query: 216 YMSDPENIDINYALFQSTQGIDDSKTKLHYDNMLDAQIDAAYAALEDAGFKKMEVIVTET 275
++ + + ++YALF + D Y N+ DA +D+ Y A E G + +E+IV+ +
Sbjct: 183 HIDNTNAVPLSYALFNQQRRNDTG-----YQNLFDALVDSMYFATEKLGGQNIEIIVSAS 237
Query: 276 GWASRGDSNEAAATVDNARTYNYNLRKRLAKKKGTPLRPKNVVKAYVFAIFNENQKPGPT 335
GW S G AAT+ NARTY NL + + GTP +P ++ Y+FA+F+EN+K G
Sbjct: 238 GWPSEG---HPAATLKNARTYYTNLINHVKRGAGTPKKPGKTIETYLFAMFDENEKKGEA 294
Query: 336 SERNFGLFKPDGSIAYDI 353
SE++FGLF PD Y +
Sbjct: 295 SEKHFGLFNPDQRPKYQL 312
>pdb|1GHS|A Chain A, The Three-Dimensional Structures Of Two Plant Beta-Glucan
Endohydrolases With Distinct Substrate Specificities
pdb|1GHS|B Chain B, The Three-Dimensional Structures Of Two Plant Beta-Glucan
Endohydrolases With Distinct Substrate Specificities
Length = 306
Score = 220 bits (560), Expect = 1e-57, Method: Compositional matrix adjust.
Identities = 123/317 (38%), Positives = 185/317 (58%), Gaps = 14/317 (4%)
Query: 37 GINYGRIADNIPSPDEVAVLLRASKIKNVRIYDADHSVLKAFSGTGLELVVGLPNGLVKE 96
G+ YG I +N+PS +V L R+ I +RIY AD L A +G+ L++ + N +
Sbjct: 2 GVCYGVIGNNLPSRSDVVQLYRSKGINGMRIYFADGQALSALRNSGIGLILDIGNDQLAN 61
Query: 97 MSANESHAMDWVKENVQNFLPKTKICGIAVGNEVLGGADSELWGALLGAVKNVYNSIKKL 156
++A+ S+A WV+ NV+ + P I IA GNEV GGA ++L A++N+ N+
Sbjct: 62 IAASTSNAASWVQNNVRPYYPAVNIKYIAAGNEVQGGATQ----SILPAMRNL-NAALSA 116
Query: 157 HLDDVVQITTAHSQAVFANSYPPSSCIFKEGVDQFMKPLLDFFSQIGSPFCLNVYPFLAY 216
++++T+ ANS+PPS+ +FK + +M + + G+P NVYP+ AY
Sbjct: 117 AGLGAIKVSTSIRFDEVANSFPPSAGVFK---NAYMTDVARLLASTGAPLLANVYPYFAY 173
Query: 217 MSDPENIDINYALFQSTQGIDDSKTKLHYDNMLDAQIDAAYAALEDAGFKKMEVIVTETG 276
+P +I +NYA FQ + D L Y ++ DA +DA YAALE AG ++V+V+E+G
Sbjct: 174 RDNPGSISLNYATFQPGTTVRDQNNGLTYTSLFDAMVDAVYAALEKAGAPAVKVVVSESG 233
Query: 277 WASRGDSNEAAATVDNARTYNYNLRKRLAKKKGTPLRPKNVVKAYVFAIFNENQKPGPTS 336
W S G AA+ NARTYN L + GTP + + ++ Y+FA+FNENQK G +
Sbjct: 234 WPSAGG---FAASAGNARTYNQGLINHVG--GGTP-KKREALETYIFAMFNENQKTGDAT 287
Query: 337 ERNFGLFKPDGSIAYDI 353
ER+FGLF PD S AY+I
Sbjct: 288 ERSFGLFNPDKSPAYNI 304
>pdb|1AQ0|A Chain A, Barley 1,3-1,4-Beta-Glucanase In Monoclinic Space Group
pdb|1AQ0|B Chain B, Barley 1,3-1,4-Beta-Glucanase In Monoclinic Space Group
pdb|1GHR|A Chain A, The Three-Dimensional Structures Of Two Plant Beta-Glucan
Endohydrolases With Distinct Substrate Specificities
Length = 306
Score = 198 bits (504), Expect = 4e-51, Method: Compositional matrix adjust.
Identities = 114/317 (35%), Positives = 183/317 (57%), Gaps = 14/317 (4%)
Query: 37 GINYGRIADNIPSPDEVAVLLRASKIKNVRIYDADHSVLKAFSGTGLELVVGLPNGLVKE 96
G+ YG A+N+P+ V + +++ IK++R+Y + + L+A GTG+ +VVG PN ++
Sbjct: 2 GVCYGMSANNLPAASTVVSMFKSNGIKSMRLYAPNQAALQAVGGTGINVVVGAPNDVLSN 61
Query: 97 MSANESHAMDWVKENVQNFLPKTKICGIAVGNEVLGGADSELWGALLGAVKNVYNSIKKL 156
++A+ + A WVK N+Q + PK + VGNEV GGA L+ A+KNV+ ++
Sbjct: 62 LAASPAAAASWVKSNIQAY-PKVSFRYVCVGNEVAGGATRN----LVPAMKNVHGALVAA 116
Query: 157 HLDDVVQITTAHSQAVFANSYPPSSCIFKEGVDQFMKPLLDFFSQIGSPFCLNVYPFLAY 216
L +++TT+ SQA+ PPS+ F FM P++ F ++ +P N+YP+LA+
Sbjct: 117 GLGH-IKVTTSVSQAILGVFSPPSAGSFTGEAAAFMGPVVQFLARTNAPLMANIYPYLAW 175
Query: 217 MSDPENIDINYALFQSTQGIDDSKTKLHYDNMLDAQIDAAYAALEDAGFKKMEVIVTETG 276
+P +D+ YALF ++ G Y N+ D +DA Y A+ G ++++V+E+G
Sbjct: 176 AYNPSAMDMGYALFNAS-GTVVRDGAYGYQNLFDTTVDAFYTAMGKHGGSSVKLVVSESG 234
Query: 277 WASRGDSNEAAATVDNARTYNYNLRKRLAKKKGTPLRPKNVVKAYVFAIFNENQKPGPTS 336
W S G + AAT NAR YN +L + +GTP P ++ Y+FA+FNENQK
Sbjct: 235 WPSGGGT---AATPANARFYNQHLINHVG--RGTPRHP-GAIETYIFAMFNENQKDSGV- 287
Query: 337 ERNFGLFKPDGSIAYDI 353
E+N+GLF P+ Y I
Sbjct: 288 EQNWGLFYPNMQHVYPI 304
>pdb|2WOK|A Chain A, Clavulanic Acid Biosynthesis Oligopeptide Binding Protein
2 Complexed With Bradykinin
pdb|2WOL|A Chain A, Clavulanic Acid Biosynthesis Oligopeptide Binding Protein
2
pdb|2WOP|A Chain A, Clavulanic Acid Biosynthesis Oligopeptide Binding Protein
2 Complexed With Arginine
Length = 562
Score = 30.0 bits (66), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 291 DNARTYNYNLRKRLAKKKGTPLRPKNVVKAYVFAIFNENQKPG 333
D RT+ Y LR+ L GTP+ +V A V +F ++ PG
Sbjct: 94 DGGRTWTYRLRRGLRYDDGTPITSDDVRHA-VQRVFAQDVLPG 135
>pdb|1IW7|C Chain C, Crystal Structure Of The Rna Polymerase Holoenzyme From
Thermus Thermophilus At 2.6a Resolution
pdb|1IW7|M Chain M, Crystal Structure Of The Rna Polymerase Holoenzyme From
Thermus Thermophilus At 2.6a Resolution
pdb|1SMY|C Chain C, Structural Basis For Transcription Regulation By Alarmone
Ppgpp
pdb|1SMY|M Chain M, Structural Basis For Transcription Regulation By Alarmone
Ppgpp
pdb|1ZYR|C Chain C, Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme In Complex With The Antibiotic Streptolydigin
pdb|1ZYR|M Chain M, Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme In Complex With The Antibiotic Streptolydigin
pdb|2A68|C Chain C, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Rifabutin
pdb|2A68|M Chain M, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Rifabutin
pdb|2A69|C Chain C, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Rifapentin
pdb|2A69|M Chain M, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Rifapentin
pdb|2A6E|C Chain C, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme
pdb|2A6E|M Chain M, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme
pdb|2A6H|C Chain C, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Sterptolydigin
pdb|2A6H|M Chain M, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Sterptolydigin
pdb|2CW0|C Chain C, Crystal Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme At 3.3 Angstroms Resolution
pdb|2CW0|M Chain M, Crystal Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme At 3.3 Angstroms Resolution
pdb|2BE5|C Chain C, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Inhibitor Tagetitoxin
pdb|2BE5|M Chain M, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Inhibitor Tagetitoxin
pdb|2O5I|C Chain C, Crystal Structure Of The T. Thermophilus Rna Polymerase
Elongation Complex
pdb|2O5I|M Chain M, Crystal Structure Of The T. Thermophilus Rna Polymerase
Elongation Complex
pdb|2O5J|C Chain C, Crystal Structure Of The T. Thermophilus Rnap Polymerase
Elongation Complex With The Ntp Substrate Analog
pdb|2O5J|M Chain M, Crystal Structure Of The T. Thermophilus Rnap Polymerase
Elongation Complex With The Ntp Substrate Analog
pdb|2PPB|C Chain C, Crystal Structure Of The T. Thermophilus Rnap Polymerase
Elongation Complex With The Ntp Substrate Analog And
Antibiotic Streptolydigin
pdb|2PPB|M Chain M, Crystal Structure Of The T. Thermophilus Rnap Polymerase
Elongation Complex With The Ntp Substrate Analog And
Antibiotic Streptolydigin
pdb|3DXJ|C Chain C, Crystal Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme In Complex With The Antibiotic Myxopyronin
pdb|3DXJ|M Chain M, Crystal Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme In Complex With The Antibiotic Myxopyronin
pdb|3EQL|C Chain C, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Myxopyronin
pdb|3EQL|M Chain M, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Myxopyronin
pdb|3AOH|C Chain C, Rna Polymerase-Gfh1 Complex (Crystal Type 1)
pdb|3AOH|H Chain H, Rna Polymerase-Gfh1 Complex (Crystal Type 1)
pdb|3AOH|M Chain M, Rna Polymerase-Gfh1 Complex (Crystal Type 1)
pdb|3AOI|C Chain C, Rna Polymerase-Gfh1 Complex (Crystal Type 2)
pdb|3AOI|H Chain H, Rna Polymerase-Gfh1 Complex (Crystal Type 2)
pdb|3AOI|M Chain M, Rna Polymerase-Gfh1 Complex (Crystal Type 2)
pdb|4G7H|C Chain C, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex
pdb|4G7H|M Chain M, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex
pdb|4G7O|C Chain C, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex Containing 2 Nt Of Rna
pdb|4G7O|M Chain M, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex Containing 2 Nt Of Rna
pdb|4G7Z|C Chain C, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex Containing 5-Bru At Template-Strand
Position +1
pdb|4G7Z|M Chain M, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex Containing 5-Bru At Template-Strand
Position +1
pdb|4GZY|C Chain C, Crystal Structures Of Bacterial Rna Polymerase Paused
Elongation Complexes
pdb|4GZZ|C Chain C, Crystal Structures Of Bacterial Rna Polymerase Paused
Elongation Complexes
Length = 1119
Score = 29.3 bits (64), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 37/139 (26%), Positives = 53/139 (38%), Gaps = 25/139 (17%)
Query: 209 NVYPFLAYMSDPENIDINYALFQS---TQGIDDSKTKLHYDNMLDAQIDAAYAALEDAGF 265
N+ PFL E+ D N AL S TQ + ++ AQ LE+
Sbjct: 545 NLIPFL------EHDDANRALMGSNMQTQAVP----------LIRAQAPVVMTGLEERVV 588
Query: 266 KK--MEVIVTETGWASRGDSNEAAATVDNARTYNYNLRKRLAKKKGTPL--RPKNVVKAY 321
+ + E G ++ D N ++ R Y LR+ +GT L RP+ VV
Sbjct: 589 RDSLAALYAEEDGEVAKVDGNRIVVRYEDGRLVEYPLRRFYRSNQGTALDQRPRVVVGQR 648
Query: 322 VFAIFNENQKPGPTSERNF 340
V + GP SE F
Sbjct: 649 VRK--GDLLADGPASENGF 665
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
0.317 0.134 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,402,030
Number of Sequences: 62578
Number of extensions: 430415
Number of successful extensions: 1120
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1087
Number of HSP's gapped (non-prelim): 12
length of query: 393
length of database: 14,973,337
effective HSP length: 101
effective length of query: 292
effective length of database: 8,652,959
effective search space: 2526664028
effective search space used: 2526664028
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 52 (24.6 bits)