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= 002216
(952 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SPA|A Chain A, Crystal Structure Of Human Mitochondrial Rna Polymerase
Length = 1134
Score = 408 bits (1049), Expect = e-114, Method: Compositional matrix adjust.
Identities = 246/711 (34%), Positives = 385/711 (54%), Gaps = 46/711 (6%)
Query: 249 PHIELLPADKVAVIVMHKMMGLVMAGHEDRCVQVVQAAVHIGMAIEQEIRIHSFLEKTKN 308
P + LL +V +++ + L G + +A + Q R+ ++ +N
Sbjct: 373 PFLCLLDEREVVRMLLQVLQALPAQGESFTTLARELSARTFSRHVVQRQRVSGQVQALQN 432
Query: 309 YKRKKIIADTEEVLSKEKELLRKRVNSLIKSKRVMEAQKLLKNEETKPWGRDTQAKLGSR 368
+ RK + + E L R+ +L + + E +PW Q +LG
Sbjct: 433 HYRKYLCLLASDAEVPEPCLPRQYWEALGAPEALRE----------QPWPLPVQMELGKL 482
Query: 369 LVELLIETAYVQHPVNPADYSPPDVRPAFRHRFKTILKHPGQ-KTTKRYGVVECDPLVLE 427
L E+L++ + ++ +P R +L H + ++ G+++ P ++
Sbjct: 483 LAEMLVQATQMPCSLD---------KPHRSSRLVPVLYHVYSFRNVQQIGILKPHPAYVQ 533
Query: 428 GLDRSAKHMLI---PYVPMLVPPKKWKGYNKGGYLFLPSYVMRT-HGSRKQQEALKSVTG 483
L+++A+ L VPML PP W + G +L P+ +MRT G+ + QE L++
Sbjct: 534 LLEKAAEPTLTFEAVDVPMLCPPLPWTSPHSGAFLLSPTKLMRTVEGATQHQELLETCPP 593
Query: 484 NCMKKVFEALDTLGSTKWRVNKQVLSVLESIWVSGGNIAGLVDRNDVLIPEKP---LSED 540
+ +AL LG+ WRVN +VL ++ ++ + G V P+ P L
Sbjct: 594 TALHGALDALTQLGNCAWRVNGRVLDLVLQLFQAKGCPQLGVPAPPSEAPQPPEAHLPHS 653
Query: 541 MTEVQK--WKWSVRKAKKINQERHSQRCDTELKLSVARRMKDEEGFYYPHNLDFRGRAYP 598
+K + + +K+ +E HS R + +LS+A+ ++D F+ PHN+DFRGR YP
Sbjct: 654 AAPARKAELRRELAHCQKVAREMHSLRAEALYRLSLAQHLRDRV-FWLPHNMDFRGRTYP 712
Query: 599 MHPHLNHLSSDVCRGVLEFAEGRPLGKSGLRWLKIHLANLFSGGVEKLSHDGRLAFVENH 658
PH NHL SDV R +LEFA+GRPLG GL WLKIHL NL +G ++ RLAF E
Sbjct: 713 CPPHFNHLGSDVARALLEFAQGRPLGPHGLDWLKIHLVNL-TGLKKREPLRKRLAFAEEV 771
Query: 659 LYEIFDSAENPINGSRWWLTAEDPFQCLAACINLSEALKSSSPHSVISHLPIHQDGSCNG 718
+ +I DSA+ P+ G +WW+ AE+P+Q LA C+ ++ A+++S P + +SHLP+HQDGSCNG
Sbjct: 772 MDDILDSADQPLTGRKWWMGAEEPWQTLACCMEVANAVRASDPAAYVSHLPVHQDGSCNG 831
Query: 719 LQHYAALGRNTLEAAAVNLVAGEKPADVYSEIAVRVHEIMKRDSNKDPSKHPQALLAKIL 778
LQHYAALGR+++ AA+VNL + P DVYS +A +V ++D+ + +A++L
Sbjct: 832 LQHYAALGRDSVGAASVNLEPSDVPQDVYSGVAAQVEVFRRQDAQRG------MRVAQVL 885
Query: 779 IDQVDRKLVKQTVMTSVYGVTFVGAREQIKRRLEEKGHITDDRQLFA--AACYAAKVTLT 836
+ RK+VKQTVMT VYGVT G R QI++RL E ++D Q F A+ Y +
Sbjct: 886 EGFITRKVVKQTVMTVVYGVTRYGGRLQIEKRLRE---LSDFPQEFVWEASHYLVRQVFK 942
Query: 837 ALGEIFEAARSIMGWLGDCAKVIASENQPVRWTTPLGLPVVQPY-CKNERHLIRTSLQVL 895
+L E+F R+I WL + A++I+ V W TPLG+PV+QPY ++ I +Q +
Sbjct: 943 SLQEMFSGTRAIQHWLTESARLISHMGSVVEWVTPLGVPVIQPYRLDSKVKQIGGGIQSI 1002
Query: 896 ALQREGNLVK---IRKQRTAFPPNFVHSLDGSHMMMTAVACRDAGLHFAGL 943
G++ + RKQ+ FPPNF+HSLD SHMM+TA+ C GL F +
Sbjct: 1003 TYTHNGDISRKPNTRKQKNGFPPNFIHSLDSSHMMLTALHCYRKGLTFVSV 1053
>pdb|1ARO|P Chain P, T7 Rna Polymerase Complexed With T7 Lysozyme
Length = 883
Score = 238 bits (608), Expect = 8e-63, Method: Compositional matrix adjust.
Identities = 227/823 (27%), Positives = 364/823 (44%), Gaps = 127/823 (15%)
Query: 178 LRRRQVKQETEAWERMVDEYKELEAKMIEKRL--------APNLPHIKGLFLGWFGPLSE 229
L R Q+ E E++E ++ KM E++L A P I L +++
Sbjct: 32 LAREQLALEHESYEMGEARFR----KMFERQLKAGEVADNAAAKPLITTLLPKMIARIND 87
Query: 230 AIEREQKMQRTKKQKAAYAPHIELLPADKVAVIVMHKMMGLVMAGHEDRCVQVVQAAVHI 289
E E K +R K+ A ++ + + VA I + + + + ++ VQ V +A I
Sbjct: 88 WFE-EVKAKRGKRPTAF--QFLQEIKPEAVAYITIKTTLACLTSA-DNTTVQAVASA--I 141
Query: 290 GMAIEQEIRIHSFLEKTKNYKRKKIIADTEEVLSKEKELLRKRVNSLIKSK--RVMEA-- 345
G AIE E R + + +K + +E L KRV + K +V+EA
Sbjct: 142 GRAIEDEARFGRIRDLEAKHFKKNV-----------EEQLNKRVGHVYKKAFMQVVEADM 190
Query: 346 --QKLLKNEETKPWGRDTQAKLGSRLVELLIETAYVQHPVNPADYSPPDVRPAFRHRFKT 403
+ LL E W ++ +G R +E+LIE+ + HR
Sbjct: 191 LSKGLLGGEAWSSWHKEDSIHVGVRCIEMLIESTGM----------------VSLHRQNA 234
Query: 404 ILKHPGQKTTKRYGVVECDPLVLEGLDRSAKHM--LIP-YVPMLVPPKKWKGYNKGGYLF 460
+ +T +E P E + A + + P + P +VPPK W G GGY
Sbjct: 235 GVVGQDSET------IELAPEYAEAIATRAGALAGISPMFQPCVVPPKPWTGITGGGYWA 288
Query: 461 ---LPSYVMRTHGSRKQQEALKSVTGNCMKKVFEALDTLGSTKWRVNKQVLSVLESI--W 515
P ++RTH + AL M +V++A++ +T W++NK+VL+V I W
Sbjct: 289 NGRRPLALVRTHSKK----ALMRYEDVYMPEVYKAINIAQNTAWKINKKVLAVANVITKW 344
Query: 516 V-SGGNIAGLVDRNDVLIPEKPLSEDMT--EVQKWKWSVRKAKKINQERHSQRCDTELKL 572
S ++R + +P KP DM + WK + + ++ R S+R E L
Sbjct: 345 KHSPVEDIPAIEREE--LPMKPEDIDMNPEALTAWKRAAAAVYRKDKARKSRRISLEFML 402
Query: 573 SVARRMKDEEGFYYPHNLDFRGRAYPMHPHLNHLSSDVCRGVLEFAEGRPLGKSGLRWLK 632
A + + + ++P+N+D+RGR Y + N +D+ +G+L A+G+P+GK G WLK
Sbjct: 403 EQANKFANHKAIWFPYNMDWRGRVYAVS-MFNPQGNDMTKGLLTLAKGKPIGKEGYYWLK 461
Query: 633 IHLANLFSGGVEKLSHDGRLAFVENHLYEIFDSAENPINGSRWWLTAEDPFQCLAACINL 692
IH AN GV+K+ R+ F+E + I A++P+ + WW + PF LA C
Sbjct: 462 IHGAN--CAGVDKVPFPERIKFIEENHENIMACAKSPLENT-WWAEQDSPFCFLAFCFEY 518
Query: 693 SEALKSSSPHSVISH---LPIHQDGSCNGLQHYAALGRNTLEAAAVNLVAGEKPADVYSE 749
+ H +S+ LP+ DGSC+G+QH++A+ R+ + AVNL+ E D+Y
Sbjct: 519 A-----GVQHHGLSYNCSLPLAFDGSCSGIQHFSAMLRDEVGGRAVNLLPSETVQDIYGI 573
Query: 750 IAVRVHEIMKRDSNKDPSKH-------------------PQALLAKILIDQVDRKLVKQT 790
+A +V+EI++ D+ +AL + L V R + K++
Sbjct: 574 VAKKVNEILQADAINGTDNEVVTVTDENTGEISEKVKLGTKALAGQWLAYGVTRSVTKRS 633
Query: 791 VMTSVYGVTFVGAREQIKRRLEEKGHITDDRQLFA----AACYAAKVTLTALGEIFEAAR 846
VMT YG G R+Q+ + + +F AA Y AK+ ++ AA
Sbjct: 634 VMTLAYGSKEFGFRQQVLEDTIQPAIDSGKGLMFTQPNQAAGYMAKLIWESVSVTVVAAV 693
Query: 847 SIMGWLGDCAKVIASE------------NQPVRWTTPLGLPVVQPYCK------NERHLI 888
M WL AK++A+E V W TP G PV Q Y K N L
Sbjct: 694 EAMNWLKSAAKLLAAEVKDKKTGEILRKRSAVHWVTPDGFPVWQEYKKPIQTRLNLMFLG 753
Query: 889 RTSLQVLALQREGNLVKIRKQRTAFPPNFVHSLDGSHMMMTAV 931
+ LQ + + + KQ + PNFVHS DGSH+ T V
Sbjct: 754 QFRLQPTINTNKDSEIDAHKQESGIAPNFVHSQDGSHLRKTVV 796
>pdb|3E2E|A Chain A, Crystal Structure Of An Intermediate Complex Of T7 Rnap
And 7nt Of Rna
pdb|3E3J|C Chain C, Crystal Structure Of An Intermediate Complex Of T7 Rnap
And 8nt Of Rna
pdb|3E3J|B Chain B, Crystal Structure Of An Intermediate Complex Of T7 Rnap
And 8nt Of Rna
Length = 889
Score = 238 bits (607), Expect = 1e-62, Method: Compositional matrix adjust.
Identities = 229/827 (27%), Positives = 365/827 (44%), Gaps = 135/827 (16%)
Query: 178 LRRRQVKQETEAWERMVDEYKELEAKMIEKRL--------APNLPHIKGLFLGWFGPLSE 229
L R Q+ E E++E ++ KM E++L A P I L +++
Sbjct: 38 LAREQLALEHESYEMGEARFR----KMFERQLKAGEVADNAAAKPLITTLLPKMIARIND 93
Query: 230 AIEREQKMQRTKKQKAAYAPHIELLPADKVAVIVMHKMMGLVMAGHEDRCVQVVQAAVHI 289
E E K +R K+ A ++ + + VA I + + + + ++ VQ V +A I
Sbjct: 94 WFE-EVKAKRGKRPTAF--QFLQEIKPEAVAYITIKTTLACLTSA-DNTTVQAVASA--I 147
Query: 290 GMAIEQEIRIHSFLEKTKNYKRKKIIADTEEVLSKEKELLRKRVNSLIKSK--RVMEA-- 345
G AIE E R + + +K + +E L KRV + K +V+EA
Sbjct: 148 GRAIEDEARFGRIRDLEAKHFKKNV-----------EEQLNKRVGHVYKKAFMQVVEADM 196
Query: 346 --QKLLKNEETKPWGRDTQAKLGSRLVELLIE-TAYVQ-HPVNPA----DYSPPDVRPAF 397
+ LL E W ++ +G R +E+LIE T V H N D ++ P +
Sbjct: 197 LSKGLLGGEAWSSWHKEDSIHVGVRCIEMLIESTGMVSLHRQNAGVVGQDSETIELAPEY 256
Query: 398 RHRFKTILKHPGQKTTKRYGVVECDPLVLEGLDRSAKHMLIPYVPMLVPPKKWKGYNKGG 457
T R G + L+ + P +VPPK W G GG
Sbjct: 257 AEAIAT-----------RAGALAGISLMFQ--------------PCVVPPKPWTGITGGG 291
Query: 458 YLF---LPSYVMRTHGSRKQQEALKSVTGNCMKKVFEALDTLGSTKWRVNKQVLSVLESI 514
Y P ++RTH + AL M +V++A++ +T W++NK+VL+V I
Sbjct: 292 YWANGRRPLALVRTHSKK----ALMRYEDVYMPEVYKAINIAQNTAWKINKKVLAVANVI 347
Query: 515 --W--VSGGNIAGLVDRNDVLIPEKPLSEDMT--EVQKWKWSVRKAKKINQERHSQRCDT 568
W +I ++R + +P KP DM + WK + + ++ R S+R
Sbjct: 348 TKWKHCPVEDIPA-IEREE--LPMKPEDIDMNPEALTAWKRAAAAVYRKDKARKSRRISL 404
Query: 569 ELKLSVARRMKDEEGFYYPHNLDFRGRAYPMHPHLNHLSSDVCRGVLEFAEGRPLGKSGL 628
E L A + + + ++P+N+D+RGR Y + N +D+ +G+L A+G+P+GK G
Sbjct: 405 EFMLEQANKFANHKAIWFPYNMDWRGRVYAVS-MFNPQGNDMTKGLLTLAKGKPIGKEGY 463
Query: 629 RWLKIHLANLFSGGVEKLSHDGRLAFVENHLYEIFDSAENPINGSRWWLTAEDPFQCLAA 688
WLKIH AN GV+K+ R+ F+E + I A++P+ + WW + PF LA
Sbjct: 464 YWLKIHGAN--CAGVDKVPFPERIKFIEENHENIMACAKSPLENT-WWAEQDSPFCFLAF 520
Query: 689 CINLSEALKSSSPHSVISH---LPIHQDGSCNGLQHYAALGRNTLEAAAVNLVAGEKPAD 745
C + H +S+ LP+ DGSC+G+QH++A+ R+ + AVNL+ E D
Sbjct: 521 CFEYA-----GVQHHGLSYNCSLPLAFDGSCSGIQHFSAMLRDEVGGRAVNLLPSETVQD 575
Query: 746 VYSEIAVRVHEIMKRDSNKDPSKH-------------------PQALLAKILIDQVDRKL 786
+Y +A +V+EI++ D+ +AL + L V R +
Sbjct: 576 IYGIVAKKVNEILQADAINGTDNEVVTVTDENTGEISEKVKLGTKALAGQWLAYGVTRSV 635
Query: 787 VKQTVMTSVYGVTFVGAREQIKRRLEEKGHITDDRQLFA----AACYAAKVTLTALGEIF 842
K++VMT YG G R+Q+ + + +F AA Y AK+ ++
Sbjct: 636 TKRSVMTLAYGSKEFGFRQQVLEDTIQPAIDSGKGLMFTQPNQAAGYMAKLIWESVSVTV 695
Query: 843 EAARSIMGWLGDCAKVIASENQ------------PVRWTTPLGLPVVQPYCK------NE 884
AA M WL AK++A+E + V W TP G PV Q Y K N
Sbjct: 696 VAAVEAMNWLKSAAKLLAAEVKDKKTGEILRKRCAVHWVTPDGFPVWQEYKKPIQTRLNL 755
Query: 885 RHLIRTSLQVLALQREGNLVKIRKQRTAFPPNFVHSLDGSHMMMTAV 931
L + LQ + + + KQ + PNFVHS DGSH+ T V
Sbjct: 756 MFLGQFRLQPTINTNKDSEIDAHKQESGIAPNFVHSQDGSHLRKTVV 802
>pdb|4RNP|A Chain A, Bacteriophage T7 Rna Polymerase, High Salt Crystal Form,
Low Temperature Data, Alpha-Carbons Only
pdb|4RNP|B Chain B, Bacteriophage T7 Rna Polymerase, High Salt Crystal Form,
Low Temperature Data, Alpha-Carbons Only
pdb|4RNP|C Chain C, Bacteriophage T7 Rna Polymerase, High Salt Crystal Form,
Low Temperature Data, Alpha-Carbons Only
pdb|1CEZ|A Chain A, Crystal Structure Of A T7 Rna Polymerase-T7 Promoter
Complex
pdb|1QLN|A Chain A, Structure Of A Transcribing T7 Rna Polymerase Initiation
Complex
pdb|1H38|A Chain A, Structure Of A T7 Rna Polymerase Elongation Complex At
2.9a Resolution
pdb|1H38|B Chain B, Structure Of A T7 Rna Polymerase Elongation Complex At
2.9a Resolution
pdb|1H38|C Chain C, Structure Of A T7 Rna Polymerase Elongation Complex At
2.9a Resolution
pdb|1H38|D Chain D, Structure Of A T7 Rna Polymerase Elongation Complex At
2.9a Resolution
pdb|1MSW|D Chain D, Structural Basis For The Transition From Initiation To
Elongation Transcription In T7 Rna Polymerase
pdb|1S0V|A Chain A, Structural Basis For Substrate Selection By T7 Rna
Polymerase
pdb|1S0V|B Chain B, Structural Basis For Substrate Selection By T7 Rna
Polymerase
pdb|1S0V|C Chain C, Structural Basis For Substrate Selection By T7 Rna
Polymerase
pdb|1S0V|D Chain D, Structural Basis For Substrate Selection By T7 Rna
Polymerase
pdb|1S76|D Chain D, T7 Rna Polymerase Alpha Beta Methylene Atp Elongation
Complex
pdb|1S77|D Chain D, T7 Rnap Product Pyrophosphate Elongation Complex
Length = 883
Score = 237 bits (605), Expect = 2e-62, Method: Compositional matrix adjust.
Identities = 227/824 (27%), Positives = 366/824 (44%), Gaps = 129/824 (15%)
Query: 178 LRRRQVKQETEAWERMVDEYKELEAKMIEKRL--------APNLPHIKGLFLGWFGPLSE 229
L R Q+ E E++E ++ KM E++L A P I L +++
Sbjct: 32 LAREQLALEHESYEMGEARFR----KMFERQLKAGEVADNAAAKPLITTLLPKMIARIND 87
Query: 230 AIEREQKMQRTKKQKAAYAPHIELLPADKVAVIVMHKMMGLVMAGHEDRCVQVVQAAVHI 289
E E K +R K+ A ++ + + VA I + + + + ++ VQ V +A I
Sbjct: 88 WFE-EVKAKRGKRPTAF--QFLQEIKPEAVAYITIKTTLACLTSA-DNTTVQAVASA--I 141
Query: 290 GMAIEQEIRIHSFLEKTKNYKRKKIIADTEEVLSKEKELLRKRVNSLIKSK--RVMEA-- 345
G AIE E R + + +K + +E L KRV + K +V+EA
Sbjct: 142 GRAIEDEARFGRIRDLEAKHFKKNV-----------EEQLNKRVGHVYKKAFMQVVEADM 190
Query: 346 --QKLLKNEETKPWGRDTQAKLGSRLVELLIETAYVQHPVNPADYSPPDVRPAFRHRFKT 403
+ LL E W ++ +G R +E+LIE+ + HR
Sbjct: 191 LSKGLLGGEAWSSWHKEDSIHVGVRCIEMLIESTGM----------------VSLHRQNA 234
Query: 404 ILKHPGQKTTKRYGVVECDPLVLEGLDRSAKHM--LIP-YVPMLVPPKKWKGYNKGGYLF 460
+ +T +E P E + A + + P + P +VPPK W G GGY
Sbjct: 235 GVVGQDSET------IELAPEYAEAIATRAGALAGISPMFQPCVVPPKPWTGITGGGYWA 288
Query: 461 ---LPSYVMRTHGSRKQQEALKSVTGNCMKKVFEALDTLGSTKWRVNKQVLSVLESI--W 515
P ++RTH + AL M +V++A++ +T W++NK+VL+V I W
Sbjct: 289 NGRRPLALVRTHSKK----ALMRYEDVYMPEVYKAINIAQNTAWKINKKVLAVANVITKW 344
Query: 516 --VSGGNIAGLVDRNDVLIPEKPLSEDMT--EVQKWKWSVRKAKKINQERHSQRCDTELK 571
+I ++R + +P KP DM + WK + + ++ R S+R E
Sbjct: 345 KHCPVEDIPA-IEREE--LPMKPEDIDMNPEALTAWKRAAAAVYRKDKARKSRRISLEFM 401
Query: 572 LSVARRMKDEEGFYYPHNLDFRGRAYPMHPHLNHLSSDVCRGVLEFAEGRPLGKSGLRWL 631
L A + + + ++P+N+D+RGR Y + N +D+ +G+L A+G+P+GK G WL
Sbjct: 402 LEQANKFANHKAIWFPYNMDWRGRVYAVS-MFNPQGNDMTKGLLTLAKGKPIGKEGYYWL 460
Query: 632 KIHLANLFSGGVEKLSHDGRLAFVENHLYEIFDSAENPINGSRWWLTAEDPFQCLAACIN 691
KIH AN GV+K+ R+ F+E + I A++P+ + WW + PF LA C
Sbjct: 461 KIHGAN--CAGVDKVPFPERIKFIEENHENIMACAKSPLENT-WWAEQDSPFCFLAFCFE 517
Query: 692 LSEALKSSSPHSVISH---LPIHQDGSCNGLQHYAALGRNTLEAAAVNLVAGEKPADVYS 748
+ H +S+ LP+ DGSC+G+QH++A+ R+ + AVNL+ E D+Y
Sbjct: 518 YA-----GVQHHGLSYNCSLPLAFDGSCSGIQHFSAMLRDEVGGRAVNLLPSETVQDIYG 572
Query: 749 EIAVRVHEIMKRDSNKDPSKH-------------------PQALLAKILIDQVDRKLVKQ 789
+A +V+EI++ D+ +AL + L V R + K+
Sbjct: 573 IVAKKVNEILQADAINGTDNEVVTVTDENTGEISEKVKLGTKALAGQWLAYGVTRSVTKR 632
Query: 790 TVMTSVYGVTFVGAREQIKRRLEEKGHITDDRQLFA----AACYAAKVTLTALGEIFEAA 845
+VMT YG G R+Q+ + + +F AA Y AK+ ++ AA
Sbjct: 633 SVMTLAYGSKEFGFRQQVLEDTIQPAIDSGKGLMFTQPNQAAGYMAKLIWESVSVTVVAA 692
Query: 846 RSIMGWLGDCAKVIASENQ------------PVRWTTPLGLPVVQPYCK------NERHL 887
M WL AK++A+E + V W TP G PV Q Y K N L
Sbjct: 693 VEAMNWLKSAAKLLAAEVKDKKTGEILRKRCAVHWVTPDGFPVWQEYKKPIQTRLNLMFL 752
Query: 888 IRTSLQVLALQREGNLVKIRKQRTAFPPNFVHSLDGSHMMMTAV 931
+ LQ + + + KQ + PNFVHS DGSH+ T V
Sbjct: 753 GQFRLQPTINTNKDSEIDAHKQESGIAPNFVHSQDGSHLRKTVV 796
>pdb|2PI4|A Chain A, T7rnap Complexed With A Phi10 Protein And Initiating Gtps.
pdb|2PI5|A Chain A, T7 Rna Polymerase Complexed With A Phi10 Promoter
Length = 878
Score = 237 bits (604), Expect = 3e-62, Method: Compositional matrix adjust.
Identities = 227/824 (27%), Positives = 366/824 (44%), Gaps = 129/824 (15%)
Query: 178 LRRRQVKQETEAWERMVDEYKELEAKMIEKRL--------APNLPHIKGLFLGWFGPLSE 229
L R Q+ E E++E ++ KM E++L A P I L +++
Sbjct: 27 LAREQLALEHESYEMGEARFR----KMFERQLKAGEVADNAAAKPLITTLLPKMIARIND 82
Query: 230 AIEREQKMQRTKKQKAAYAPHIELLPADKVAVIVMHKMMGLVMAGHEDRCVQVVQAAVHI 289
E E K +R K+ A ++ + + VA I + + + + ++ VQ V +A I
Sbjct: 83 WFE-EVKAKRGKRPTAF--QFLQEIKPEAVAYITIKTTLACLTSA-DNTTVQAVASA--I 136
Query: 290 GMAIEQEIRIHSFLEKTKNYKRKKIIADTEEVLSKEKELLRKRVNSLIKSK--RVMEA-- 345
G AIE E R + + +K + +E L KRV + K +V+EA
Sbjct: 137 GRAIEDEARFGRIRDLEAKHFKKNV-----------EEQLNKRVGHVYKKAFMQVVEADM 185
Query: 346 --QKLLKNEETKPWGRDTQAKLGSRLVELLIETAYVQHPVNPADYSPPDVRPAFRHRFKT 403
+ LL E W ++ +G R +E+LIE+ + HR
Sbjct: 186 LSKGLLGGEAWSSWHKEDSIHVGVRCIEMLIESTGM----------------VSLHRQNA 229
Query: 404 ILKHPGQKTTKRYGVVECDPLVLEGLDRSAKHM--LIP-YVPMLVPPKKWKGYNKGGYLF 460
+ +T +E P E + A + + P + P +VPPK W G GGY
Sbjct: 230 GVVGQDSET------IELAPEYAEAIATRAGALAGISPMFQPCVVPPKPWTGITGGGYWA 283
Query: 461 ---LPSYVMRTHGSRKQQEALKSVTGNCMKKVFEALDTLGSTKWRVNKQVLSVLESI--W 515
P ++RTH + AL M +V++A++ +T W++NK+VL+V I W
Sbjct: 284 NGRRPLALVRTHSKK----ALMRYEDVYMPEVYKAINIAQNTAWKINKKVLAVANVITKW 339
Query: 516 --VSGGNIAGLVDRNDVLIPEKPLSEDMT--EVQKWKWSVRKAKKINQERHSQRCDTELK 571
+I ++R + +P KP DM + WK + + ++ R S+R E
Sbjct: 340 KHCPVEDIPA-IEREE--LPMKPEDIDMNPEALTAWKRAAAAVYRKDKARKSRRISLEFM 396
Query: 572 LSVARRMKDEEGFYYPHNLDFRGRAYPMHPHLNHLSSDVCRGVLEFAEGRPLGKSGLRWL 631
L A + + + ++P+N+D+RGR Y + N +D+ +G+L A+G+P+GK G WL
Sbjct: 397 LEQANKFANHKAIWFPYNMDWRGRVYAVS-MFNPQGNDMTKGLLTLAKGKPIGKEGYYWL 455
Query: 632 KIHLANLFSGGVEKLSHDGRLAFVENHLYEIFDSAENPINGSRWWLTAEDPFQCLAACIN 691
KIH AN GV+K+ R+ F+E + I A++P+ + WW + PF LA C
Sbjct: 456 KIHGAN--CAGVDKVPFPERIKFIEENHENIMACAKSPLENT-WWAEQDSPFCFLAFCFE 512
Query: 692 LSEALKSSSPHSVISH---LPIHQDGSCNGLQHYAALGRNTLEAAAVNLVAGEKPADVYS 748
+ H +S+ LP+ DGSC+G+QH++A+ R+ + AVNL+ E D+Y
Sbjct: 513 YA-----GVQHHGLSYNCSLPLAFDGSCSGIQHFSAMLRDEVGGRAVNLLPSETVQDIYG 567
Query: 749 EIAVRVHEIMKRDSNKDPSKH-------------------PQALLAKILIDQVDRKLVKQ 789
+A +V+EI++ D+ +AL + L V R + K+
Sbjct: 568 IVAKKVNEILQADAINGTDNEVVTVTDENTGEISEKVKLGTKALAGQWLAYGVTRSVTKR 627
Query: 790 TVMTSVYGVTFVGAREQIKRRLEEKGHITDDRQLFA----AACYAAKVTLTALGEIFEAA 845
+VMT YG G R+Q+ + + +F AA Y AK+ ++ AA
Sbjct: 628 SVMTLAYGSKEFGFRQQVLEDTIQPAIDSGKGLMFTQPNQAAGYMAKLIWESVSVTVVAA 687
Query: 846 RSIMGWLGDCAKVIASENQ------------PVRWTTPLGLPVVQPYCK------NERHL 887
M WL AK++A+E + V W TP G PV Q Y K N L
Sbjct: 688 VEAMNWLKSAAKLLAAEVKDKKTGEILRKRCAVHWVTPDGFPVWQEYKKPIQTRLNLMFL 747
Query: 888 IRTSLQVLALQREGNLVKIRKQRTAFPPNFVHSLDGSHMMMTAV 931
+ LQ + + + KQ + PNFVHS DGSH+ T V
Sbjct: 748 GQFRLQPTINTNKDSEIDAHKQESGIAPNFVHSQDGSHLRKTVV 791
>pdb|1L2L|A Chain A, Crystal Structure Of Adp-Dependent Glucokinase From A
Pyrococcus Horikoshii
Length = 457
Score = 30.8 bits (68), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 27/92 (29%), Positives = 45/92 (48%), Gaps = 24/92 (26%)
Query: 719 LQHYAALGRNTLEAAAVNLVAGEKPADVYSEIAVRVHEIMKRDSNKDPSKHPQALLAKIL 778
L+H+ ++G N +E A+V V GEK E+ +R +KDP+ P A++ +L
Sbjct: 286 LKHFYSVGLNEVELASVVSVMGEK-------------ELAERIISKDPAD-PIAVIEGLL 331
Query: 779 IDQVDRKLVKQTVMTSV----YGVTFVGAREQ 806
KL+K+T + + YG RE+
Sbjct: 332 ------KLIKETGVKRIHFHTYGYYLALTREK 357
>pdb|4ESU|A Chain A, Crystal Structure Of Rabbit Ryanodine Receptor 1 Mutant
S2776m
Length = 210
Score = 30.4 bits (67), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 23/102 (22%), Positives = 43/102 (42%), Gaps = 14/102 (13%)
Query: 505 KQVLSVLESIWVSGGNIAGLVDRNDVLIPEKPLSEDMTEVQKW------------KWSVR 552
K +++ W+ G N+ + + +L P K SE E+ +W +W++
Sbjct: 35 KWAFDKIQNNWMYGENVDEELKTHPMLRPYKTFSEKDKEIYRWPIKESLKAMIAWEWTIE 94
Query: 553 KAKKINQERHSQRCDTELKLSVARRMKDEEGFYYPHNLDFRG 594
KA++ +ER ++ K+S + D Y P D G
Sbjct: 95 KAREGEEERTEKKKTR--KISQTAQTYDPREGYNPQPPDLSG 134
>pdb|4ETU|A Chain A, Crystal Structure Of Rabbit Ryanodine Receptor 1 Mutant
R2939s
Length = 210
Score = 29.6 bits (65), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 23/102 (22%), Positives = 42/102 (41%), Gaps = 14/102 (13%)
Query: 505 KQVLSVLESIWVSGGNIAGLVDRNDVLIPEKPLSEDMTEVQKW------------KWSVR 552
K +++ W G N+ + + +L P K SE E+ +W +W++
Sbjct: 35 KWAFDKIQNNWSYGENVDEELKTHPMLRPYKTFSEKDKEIYRWPIKESLKAMIAWEWTIE 94
Query: 553 KAKKINQERHSQRCDTELKLSVARRMKDEEGFYYPHNLDFRG 594
KA++ +ER ++ K+S + D Y P D G
Sbjct: 95 KAREGEEERTEKKKTR--KISQTAQTYDPREGYNPQPPDLSG 134
>pdb|4ETT|A Chain A, Crystal Structure Of Rabbit Ryanodine Receptor 1 Mutant
E2764k
Length = 210
Score = 29.6 bits (65), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 23/102 (22%), Positives = 42/102 (41%), Gaps = 14/102 (13%)
Query: 505 KQVLSVLESIWVSGGNIAGLVDRNDVLIPEKPLSEDMTEVQKW------------KWSVR 552
K +++ W G N+ + + +L P K SE E+ +W +W++
Sbjct: 35 KWAFDKIQNNWSYGENVDEELKTHPMLRPYKTFSEKDKEIYRWPIKESLKAMIAWEWTIE 94
Query: 553 KAKKINQERHSQRCDTELKLSVARRMKDEEGFYYPHNLDFRG 594
KA++ +ER ++ K+S + D Y P D G
Sbjct: 95 KAREGEEERTEKKKTR--KISQTAQTYDPREGYNPQPPDLSG 134
>pdb|4ERT|A Chain A, Crystal Structure Of Rabbit Ryanodine Receptor 1
(2734-2940)
Length = 210
Score = 29.6 bits (65), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 23/102 (22%), Positives = 42/102 (41%), Gaps = 14/102 (13%)
Query: 505 KQVLSVLESIWVSGGNIAGLVDRNDVLIPEKPLSEDMTEVQKW------------KWSVR 552
K +++ W G N+ + + +L P K SE E+ +W +W++
Sbjct: 35 KWAFDKIQNNWSYGENVDEELKTHPMLRPYKTFSEKDKEIYRWPIKESLKAMIAWEWTIE 94
Query: 553 KAKKINQERHSQRCDTELKLSVARRMKDEEGFYYPHNLDFRG 594
KA++ +ER ++ K+S + D Y P D G
Sbjct: 95 KAREGEEERTEKKKTR--KISQTAQTYDPREGYNPQPPDLSG 134
>pdb|3RQR|A Chain A, Crystal Structure Of The Ryr Domain Of The Rabbit
Ryanodine Receptor
Length = 227
Score = 29.6 bits (65), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 25/107 (23%), Positives = 45/107 (42%), Gaps = 19/107 (17%)
Query: 500 KWRVNKQVLSVLESIWVSGGNIAGLVDRNDVLIPEKPLSEDMTEVQKW------------ 547
KW +K +++ W G N+ + + +L P K SE E+ +W
Sbjct: 52 KWAFDK-----IQNNWSYGENVDEELKTHPMLRPYKTFSEKDKEIYRWPIKESLKAMIAW 106
Query: 548 KWSVRKAKKINQERHSQRCDTELKLSVARRMKDEEGFYYPHNLDFRG 594
+W++ KA++ +ER ++ K+S + D Y P D G
Sbjct: 107 EWTIEKAREGEEERTEKKKTR--KISQTAQTYDPREGYNPQPPDLSG 151
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
0.319 0.134 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 26,457,432
Number of Sequences: 62578
Number of extensions: 1061967
Number of successful extensions: 2528
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 2475
Number of HSP's gapped (non-prelim): 22
length of query: 952
length of database: 14,973,337
effective HSP length: 108
effective length of query: 844
effective length of database: 8,214,913
effective search space: 6933386572
effective search space used: 6933386572
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: 56 (26.2 bits)