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= 005391
(698 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1Q79|A Chain A, Crystal Structure Of Mammalian Poly(A) Polymerase
Length = 514
Score = 411 bits (1057), Expect = e-115, Method: Compositional matrix adjust.
Identities = 203/388 (52%), Positives = 268/388 (69%), Gaps = 3/388 (0%)
Query: 7 QRLGITEPISLAGPTDDDLMRTRKLEKYLRDVNLYESQEEAVSREEVLGRLDQIVKIWVK 66
+ GIT PISLA P + D + T+KL + L+ ++E +EE R +LG+L+ +VK W++
Sbjct: 18 KHYGITSPISLAAPKETDXLLTQKLVETLKPFGVFEEEEELQRRILILGKLNNLVKEWIR 77
Query: 67 KISRAKGLNDQLLQEANAKIFTFGSYRLGVHGPGADIDTLCVGPRHATREEDFFGELHQM 126
+IS +K L +++ KIFTFGSYRLGVH GADID LCV PRH R DFF +
Sbjct: 78 EISESKNLPQSVIENVGGKIFTFGSYRLGVHTKGADIDALCVAPRHVDRS-DFFTSFYDK 136
Query: 127 LTEMPEVTELHPVPDAHVPVMKFKFSGVSIDLLYARLSLWVIPEDLDISQDSILQNADEQ 186
L EV +L V +A VPV+K F G+ ID+L+ARL+L IPEDLD+ DS+L+N D +
Sbjct: 137 LKLQEEVKDLRAVEEAFVPVIKLXFDGIEIDILFARLALQTIPEDLDLRDDSLLKNLDIR 196
Query: 187 TVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVARI 246
+RSLNGCRVTD+IL LVP I NFR TLR ++ WAKR +YSN+ GFLGG++WA+LVAR
Sbjct: 197 XIRSLNGCRVTDEILHLVPNIDNFRLTLRAIKLWAKRHNIYSNILGFLGGVSWAMLVART 256
Query: 247 CQLYPNAVPSMLVSRFFRVYTQWRWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPII 306
CQLYPNA+ S LV +FF V+++W WPNPVLL EE +L L VWDPR NP D+YHLMPII
Sbjct: 257 CQLYPNAIASTLVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLMPII 316
Query: 307 TPAYPCMNSSYNVSTSTLRIMMDEFQRGHEICEAMEKNEADVDWDTLFEPFTFFEAYKNY 366
TPAYP NS+YNVS ST +M++EF++G I + + ++A +W LFE FF+ YK+Y
Sbjct: 317 TPAYPQQNSTYNVSVSTRMVMVEEFKQGLAITDEILLSKA--EWSKLFEAPNFFQKYKHY 374
Query: 367 LRIDISAENADDLRNWKGWVESRLRQLT 394
+ + SA W G VES++R L
Sbjct: 375 IVLLASAPTEKQRLEWVGLVESKIRILV 402
>pdb|1Q78|A Chain A, Crystal Structure Of Poly(A) Polymerase In Complex With
3'- Datp And Magnesium Chloride
Length = 514
Score = 410 bits (1054), Expect = e-114, Method: Compositional matrix adjust.
Identities = 203/388 (52%), Positives = 268/388 (69%), Gaps = 3/388 (0%)
Query: 7 QRLGITEPISLAGPTDDDLMRTRKLEKYLRDVNLYESQEEAVSREEVLGRLDQIVKIWVK 66
+ GIT PISLA P + D + T+KL + L+ ++E +EE R +LG+L+ +VK W++
Sbjct: 18 KHYGITSPISLAAPKETDXLLTQKLVETLKPFGVFEEEEELQRRILILGKLNNLVKEWIR 77
Query: 67 KISRAKGLNDQLLQEANAKIFTFGSYRLGVHGPGADIDTLCVGPRHATREEDFFGELHQM 126
+IS +K L +++ KIFTFGSYRLGVH GADID LCV PRH R DFF +
Sbjct: 78 EISESKNLPQSVIENVGGKIFTFGSYRLGVHTKGADIDALCVAPRHVDRS-DFFTSFYDK 136
Query: 127 LTEMPEVTELHPVPDAHVPVMKFKFSGVSIDLLYARLSLWVIPEDLDISQDSILQNADEQ 186
L EV +L V +A VPV+K F G+ ID+L+ARL+L IPEDLD+ DS+L+N D +
Sbjct: 137 LKLQEEVKDLRAVEEAFVPVIKLCFDGIEIDILFARLALQTIPEDLDLRDDSLLKNLDIR 196
Query: 187 TVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVARI 246
+RSLNGCRVTD+IL LVP I NFR TLR ++ WAKR +YSN+ GFLGG++WA+LVAR
Sbjct: 197 XIRSLNGCRVTDEILHLVPNIDNFRLTLRAIKLWAKRHNIYSNILGFLGGVSWAMLVART 256
Query: 247 CQLYPNAVPSMLVSRFFRVYTQWRWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPII 306
CQLYPNA+ S LV +FF V+++W WPNPVLL EE +L L VWDPR NP D+YHLMPII
Sbjct: 257 CQLYPNAIASTLVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLMPII 316
Query: 307 TPAYPCMNSSYNVSTSTLRIMMDEFQRGHEICEAMEKNEADVDWDTLFEPFTFFEAYKNY 366
TPAYP NS+YNVS ST +M++EF++G I + + ++A +W LFE FF+ YK+Y
Sbjct: 317 TPAYPQQNSTYNVSVSTRMVMVEEFKQGLAITDEILLSKA--EWSKLFEAPNFFQKYKHY 374
Query: 367 LRIDISAENADDLRNWKGWVESRLRQLT 394
+ + SA W G VES++R L
Sbjct: 375 IVLLASAPTEKQRLEWVGLVESKIRILV 402
>pdb|1F5A|A Chain A, Crystal Structure Of Mammalian Poly(A) Polymerase
Length = 513
Score = 394 bits (1011), Expect = e-109, Method: Compositional matrix adjust.
Identities = 201/388 (51%), Positives = 265/388 (68%), Gaps = 3/388 (0%)
Query: 7 QRLGITEPISLAGPTDDDLMRTRKLEKYLRDVNLYESQEEAVSREEVLGRLDQIVKIWVK 66
+ GIT PISLA P + D + T+KL + L+ ++E +EE R +LG+L+ +VK W++
Sbjct: 18 KHYGITSPISLAAPKETDCLLTQKLVETLKPFGVFEEEEELQRRILILGKLNNLVKEWIR 77
Query: 67 KISRAKGLNDQLLQEANAKIFTFGSYRLGVHGPGADIDTLCVGPRHATREEDFFGELHQM 126
+IS +K L +++ KIFTFGSYRLGVH GADID LCV PRH R DFF +
Sbjct: 78 EISESKNLPQSVIENVGGKIFTFGSYRLGVHTKGADIDALCVAPRHVDRS-DFFTSFYDK 136
Query: 127 LTEMPEVTELHPVPDAHVPVMKFKFSGVSIDLLYARLSLWVIPEDLDISQDSILQNADEQ 186
L EV +L V +A VPV+K F G+ ID+L+ARL+L IPEDLD+ DS+L+N D +
Sbjct: 137 LKLQEEVKDLRAVEEAFVPVIKLCFDGIEIDILFARLALQTIPEDLDLRDDSLLKNLDIR 196
Query: 187 TVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVARI 246
+RSLNGCRVTD+IL LVP I NFR TLR ++ WAKR +YSN+ GFLGG++WA LVAR
Sbjct: 197 CIRSLNGCRVTDEILHLVPNIDNFRLTLRAIKLWAKRHNIYSNILGFLGGVSWAXLVART 256
Query: 247 CQLYPNAVPSMLVSRFFRVYTQWRWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPII 306
CQLYPNA+ S LV +FF V+++W WPNPVLL EE +L L VWDPR NP D+YHL PII
Sbjct: 257 CQLYPNAIASTLVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLXPII 316
Query: 307 TPAYPCMNSSYNVSTSTLRIMMDEFQRGHEICEAMEKNEADVDWDTLFEPFTFFEAYKNY 366
TPAYP NS+YNVS ST + ++EF++G I + + ++A +W LFE FF+ YK+Y
Sbjct: 317 TPAYPQQNSTYNVSVSTRXVXVEEFKQGLAITDEILLSKA--EWSKLFEAPNFFQKYKHY 374
Query: 367 LRIDISAENADDLRNWKGWVESRLRQLT 394
+ + SA W G VES++R L
Sbjct: 375 IVLLASAPTEKQRLEWVGLVESKIRILV 402
>pdb|2HHP|A Chain A, Structure Of Yeast Poly(A) Polymerase In A Closed
Conformation
Length = 530
Score = 368 bits (945), Expect = e-102, Method: Compositional matrix adjust.
Identities = 179/394 (45%), Positives = 263/394 (66%), Gaps = 4/394 (1%)
Query: 4 SNGQRLGITEPISLAGPTDDDLMRTRKLEKYLRDVNLYESQEEAVSREEVLGRLDQIVKI 63
S+ + GIT P+S G T + L + L+ +E+++E +R +VL L ++ +
Sbjct: 2 SSQKVFGITGPVSTVGATAAENKLNDSLIQELKKEGSFETEQETANRVQVLKILQELAQR 61
Query: 64 WVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVHGPGADIDTLCVGPRHATREEDFFGEL 123
+V ++S+ K ++D + ++A KIFT+GSYRLGVHGPG+DIDTL V P+H TRE DFF
Sbjct: 62 FVYEVSKKKNMSDGMARDAGGKIFTYGSYRLGVHGPGSDIDTLVVVPKHVTRE-DFFTVF 120
Query: 124 HQMLTEMPEVTELHPVPDAHVPVMKFKFSGVSIDLLYARLSLWVIPEDLDISQDSILQNA 183
+L E E+ E+ PVPDA VP++K KFSG+SIDL+ ARL +P L +S ++L+N
Sbjct: 121 DSLLRERKELDEIAPVPDAFVPIIKIKFSGISIDLICARLDQPQVPLSLTLSDKNLLRNL 180
Query: 184 DEQTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLV 243
DE+ +R+LNG RVTD+IL LVPK FR LR ++ WA+RR VY+N+ GF GG+ WA+LV
Sbjct: 181 DEKDLRALNGTRVTDEILELVPKPNVFRIALRAIKLWAQRRAVYANIFGFPGGVAWAMLV 240
Query: 244 ARICQLYPNAVPSMLVSRFFRVYTQWRWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLM 303
ARICQLYPNA +++++RFF + ++W WP PV+L IE+G L ++VW+P+ +D+ H M
Sbjct: 241 ARICQLYPNACSAVILNRFFIILSEWNWPQPVILKPIEDGPLQVRVWNPKIYAQDRSHRM 300
Query: 304 PIITPAYPCMNSSYNVSTSTLRIMMDEFQRGHEICEAMEKNEADVDWDTLFEPFTFFEAY 363
P+ITPAYP M +++N++ ST ++++ EF RG +I + N+ W LFE FF Y
Sbjct: 301 PVITPAYPSMCATHNITESTKKVILQEFVRGVQITNDIFSNKK--SWANLFEKNDFFFRY 358
Query: 364 KNYLRIDISAENADDLR-NWKGWVESRLRQLTLK 396
K YL I +D+ W G VES++R L +K
Sbjct: 359 KFYLEITAYTRGSDEQHLKWSGLVESKVRLLVMK 392
>pdb|1FA0|A Chain A, Structure Of Yeast Poly(A) Polymerase Bound To Manganate
And 3'-Datp
pdb|1FA0|B Chain B, Structure Of Yeast Poly(A) Polymerase Bound To Manganate
And 3'-Datp
pdb|3C66|A Chain A, Yeast Poly(A) Polymerase In Complex With Fip1 Residues
80-105
pdb|3C66|B Chain B, Yeast Poly(A) Polymerase In Complex With Fip1 Residues
80-105
Length = 537
Score = 368 bits (945), Expect = e-102, Method: Compositional matrix adjust.
Identities = 179/394 (45%), Positives = 263/394 (66%), Gaps = 4/394 (1%)
Query: 4 SNGQRLGITEPISLAGPTDDDLMRTRKLEKYLRDVNLYESQEEAVSREEVLGRLDQIVKI 63
S+ + GIT P+S G T + L + L+ +E+++E +R +VL L ++ +
Sbjct: 2 SSQKVFGITGPVSTVGATAAENKLNDSLIQELKKEGSFETEQETANRVQVLKILQELAQR 61
Query: 64 WVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVHGPGADIDTLCVGPRHATREEDFFGEL 123
+V ++S+ K ++D + ++A KIFT+GSYRLGVHGPG+DIDTL V P+H TRE DFF
Sbjct: 62 FVYEVSKKKNMSDGMARDAGGKIFTYGSYRLGVHGPGSDIDTLVVVPKHVTRE-DFFTVF 120
Query: 124 HQMLTEMPEVTELHPVPDAHVPVMKFKFSGVSIDLLYARLSLWVIPEDLDISQDSILQNA 183
+L E E+ E+ PVPDA VP++K KFSG+SIDL+ ARL +P L +S ++L+N
Sbjct: 121 DSLLRERKELDEIAPVPDAFVPIIKIKFSGISIDLICARLDQPQVPLSLTLSDKNLLRNL 180
Query: 184 DEQTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLV 243
DE+ +R+LNG RVTD+IL LVPK FR LR ++ WA+RR VY+N+ GF GG+ WA+LV
Sbjct: 181 DEKDLRALNGTRVTDEILELVPKPNVFRIALRAIKLWAQRRAVYANIFGFPGGVAWAMLV 240
Query: 244 ARICQLYPNAVPSMLVSRFFRVYTQWRWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLM 303
ARICQLYPNA +++++RFF + ++W WP PV+L IE+G L ++VW+P+ +D+ H M
Sbjct: 241 ARICQLYPNACSAVILNRFFIILSEWNWPQPVILKPIEDGPLQVRVWNPKIYAQDRSHRM 300
Query: 304 PIITPAYPCMNSSYNVSTSTLRIMMDEFQRGHEICEAMEKNEADVDWDTLFEPFTFFEAY 363
P+ITPAYP M +++N++ ST ++++ EF RG +I + N+ W LFE FF Y
Sbjct: 301 PVITPAYPSMCATHNITESTKKVILQEFVRGVQITNDIFSNKK--SWANLFEKNDFFFRY 358
Query: 364 KNYLRIDISAENADDLR-NWKGWVESRLRQLTLK 396
K YL I +D+ W G VES++R L +K
Sbjct: 359 KFYLEITAYTRGSDEQHLKWSGLVESKVRLLVMK 392
>pdb|2O1P|A Chain A, Structure Of Yeast Poly(A) Polymerase In A Somewhat Closed
State
pdb|2O1P|B Chain B, Structure Of Yeast Poly(A) Polymerase In A Somewhat Closed
State
Length = 546
Score = 368 bits (944), Expect = e-102, Method: Compositional matrix adjust.
Identities = 179/394 (45%), Positives = 263/394 (66%), Gaps = 4/394 (1%)
Query: 4 SNGQRLGITEPISLAGPTDDDLMRTRKLEKYLRDVNLYESQEEAVSREEVLGRLDQIVKI 63
S+ + GIT P+S G T + L + L+ +E+++E +R +VL L ++ +
Sbjct: 2 SSQKVFGITGPVSTVGATAAENKLNDSLIQELKKEGSFETEQETANRVQVLKILQELAQR 61
Query: 64 WVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVHGPGADIDTLCVGPRHATREEDFFGEL 123
+V ++S+ K ++D + ++A KIFT+GSYRLGVHGPG+DIDTL V P+H TRE DFF
Sbjct: 62 FVYEVSKKKNMSDGMARDAGGKIFTYGSYRLGVHGPGSDIDTLVVVPKHVTRE-DFFTVF 120
Query: 124 HQMLTEMPEVTELHPVPDAHVPVMKFKFSGVSIDLLYARLSLWVIPEDLDISQDSILQNA 183
+L E E+ E+ PVPDA VP++K KFSG+SIDL+ ARL +P L +S ++L+N
Sbjct: 121 DSLLRERKELDEIAPVPDAFVPIIKIKFSGISIDLICARLDQPQVPLSLTLSDKNLLRNL 180
Query: 184 DEQTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLV 243
DE+ +R+LNG RVTD+IL LVPK FR LR ++ WA+RR VY+N+ GF GG+ WA+LV
Sbjct: 181 DEKDLRALNGTRVTDEILELVPKPNVFRIALRAIKLWAQRRAVYANIFGFPGGVAWAMLV 240
Query: 244 ARICQLYPNAVPSMLVSRFFRVYTQWRWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLM 303
ARICQLYPNA +++++RFF + ++W WP PV+L IE+G L ++VW+P+ +D+ H M
Sbjct: 241 ARICQLYPNACSAVILNRFFIILSEWNWPQPVILKPIEDGPLQVRVWNPKIYAQDRSHRM 300
Query: 304 PIITPAYPCMNSSYNVSTSTLRIMMDEFQRGHEICEAMEKNEADVDWDTLFEPFTFFEAY 363
P+ITPAYP M +++N++ ST ++++ EF RG +I + N+ W LFE FF Y
Sbjct: 301 PVITPAYPSMCATHNITESTKKVILQEFVRGVQITNDIFSNKK--SWANLFEKNDFFFRY 358
Query: 364 KNYLRIDISAENADDLR-NWKGWVESRLRQLTLK 396
K YL I +D+ W G VES++R L +K
Sbjct: 359 KFYLEITAYTRGSDEQHLKWSGLVESKVRLLVMK 392
>pdb|2Q66|A Chain A, Structure Of Yeast Poly(A) Polymerase With Atp And
Oligo(A)
Length = 525
Score = 364 bits (934), Expect = e-100, Method: Compositional matrix adjust.
Identities = 177/389 (45%), Positives = 259/389 (66%), Gaps = 4/389 (1%)
Query: 9 LGITEPISLAGPTDDDLMRTRKLEKYLRDVNLYESQEEAVSREEVLGRLDQIVKIWVKKI 68
GIT P+S G T + L + L+ +E+++E +R +VL L ++ + +V ++
Sbjct: 3 FGITGPVSTVGATAAENKLNDSLIQELKKEGSFETEQETANRVQVLKILQELAQRFVYEV 62
Query: 69 SRAKGLNDQLLQEANAKIFTFGSYRLGVHGPGADIDTLCVGPRHATREEDFFGELHQMLT 128
S+ K ++D + ++A KIFT+GSYRLGVHGPG+DIDTL V P+H TRE DFF +L
Sbjct: 63 SKKKNMSDGMARDAGGKIFTYGSYRLGVHGPGSDIDTLVVVPKHVTRE-DFFTVFDSLLR 121
Query: 129 EMPEVTELHPVPDAHVPVMKFKFSGVSIDLLYARLSLWVIPEDLDISQDSILQNADEQTV 188
E E+ E+ PVPDA VP++K KFSG+SI L+ ARL +P L +S ++L+N DE+ +
Sbjct: 122 ERKELDEIAPVPDAFVPIIKIKFSGISIALICARLDQPQVPLSLTLSDKNLLRNLDEKDL 181
Query: 189 RSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVARICQ 248
R+LNG RVTD+IL LVPK FR LR ++ WA+RR VY+N+ GF GG+ WA+LVARICQ
Sbjct: 182 RALNGTRVTDEILELVPKPNVFRIALRAIKLWAQRRAVYANIFGFPGGVAWAMLVARICQ 241
Query: 249 LYPNAVPSMLVSRFFRVYTQWRWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPIITP 308
LYPNA +++++RFF + ++W WP PV+L IE+G L ++VW+P+ +D+ H MP+ITP
Sbjct: 242 LYPNACSAVILNRFFIILSEWNWPQPVILKPIEDGPLQVRVWNPKIYAQDRSHRMPVITP 301
Query: 309 AYPCMNSSYNVSTSTLRIMMDEFQRGHEICEAMEKNEADVDWDTLFEPFTFFEAYKNYLR 368
AYP M +++N++ ST ++++ EF RG +I + N+ W LFE FF YK YL
Sbjct: 302 AYPSMCATHNITESTKKVILQEFVRGVQITNDIFSNKK--SWANLFEKNDFFFRYKFYLE 359
Query: 369 IDISAENADDLR-NWKGWVESRLRQLTLK 396
I +D+ W G VES++R L +K
Sbjct: 360 ITAYTRGSDEQHLKWSGLVESKVRLLVMK 388
>pdb|3NYB|A Chain A, Structure And Function Of The Polymerase Core Of Tramp, A
Rna Surveillance Complex
Length = 323
Score = 38.5 bits (88), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 38/82 (46%), Gaps = 2/82 (2%)
Query: 83 NAKIFTFGSYRLGVHGPGADIDTLCVGPRHATREEDFFGELHQMLTEMPEVTELHPVPDA 142
+A + FGSY ++ PG+DID + + L L + TE+ V A
Sbjct: 59 DADLHVFGSYSTDLYLPGSDIDCVVTSELGGKESRNNLYSLASHLKKKNLATEVEVVAKA 118
Query: 143 HVPVMKF--KFSGVSIDLLYAR 162
VP++KF SG+ I + + R
Sbjct: 119 RVPIIKFVEPHSGIHIAVSFER 140
>pdb|3U5Z|B Chain B, Structure Of T4 Bacteriophage Clamp Loader Bound To The T4
Clamp, Primer-Template Dna, And Atp Analog
pdb|3U5Z|C Chain C, Structure Of T4 Bacteriophage Clamp Loader Bound To The T4
Clamp, Primer-Template Dna, And Atp Analog
pdb|3U5Z|D Chain D, Structure Of T4 Bacteriophage Clamp Loader Bound To The T4
Clamp, Primer-Template Dna, And Atp Analog
pdb|3U5Z|E Chain E, Structure Of T4 Bacteriophage Clamp Loader Bound To The T4
Clamp, Primer-Template Dna, And Atp Analog
pdb|3U5Z|L Chain L, Structure Of T4 Bacteriophage Clamp Loader Bound To The T4
Clamp, Primer-Template Dna, And Atp Analog
pdb|3U5Z|M Chain M, Structure Of T4 Bacteriophage Clamp Loader Bound To The T4
Clamp, Primer-Template Dna, And Atp Analog
pdb|3U5Z|N Chain N, Structure Of T4 Bacteriophage Clamp Loader Bound To The T4
Clamp, Primer-Template Dna, And Atp Analog
pdb|3U5Z|O Chain O, Structure Of T4 Bacteriophage Clamp Loader Bound To The T4
Clamp, Primer-Template Dna, And Atp Analog
pdb|3U60|B Chain B, Structure Of T4 Bacteriophage Clamp Loader Bound To Open
Clamp, Dna And Atp Analog
pdb|3U60|C Chain C, Structure Of T4 Bacteriophage Clamp Loader Bound To Open
Clamp, Dna And Atp Analog
pdb|3U60|D Chain D, Structure Of T4 Bacteriophage Clamp Loader Bound To Open
Clamp, Dna And Atp Analog
pdb|3U60|E Chain E, Structure Of T4 Bacteriophage Clamp Loader Bound To Open
Clamp, Dna And Atp Analog
pdb|3U61|B Chain B, Structure Of T4 Bacteriophage Clamp Loader Bound To Closed
Clamp, Dna And Atp Analog And Adp
pdb|3U61|C Chain C, Structure Of T4 Bacteriophage Clamp Loader Bound To Closed
Clamp, Dna And Atp Analog And Adp
pdb|3U61|D Chain D, Structure Of T4 Bacteriophage Clamp Loader Bound To Closed
Clamp, Dna And Atp Analog And Adp
pdb|3U61|E Chain E, Structure Of T4 Bacteriophage Clamp Loader Bound To Closed
Clamp, Dna And Atp Analog And Adp
Length = 324
Score = 33.9 bits (76), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 28/108 (25%), Positives = 49/108 (45%), Gaps = 8/108 (7%)
Query: 358 TFFEAYKNYLRIDISAENADDLRNWKGWVESRLRQLTLKRKQGVPVGEGEQFDIRLTVKE 417
+F EAY + I I+A N D + ++SR R +T G P E + ++ ++
Sbjct: 128 SFMEAYSSNCSIIITANNIDGIIK---PLQSRCRVITF----GQPTDEDKIEMMKQMIRR 180
Query: 418 FKQAVSMYTLRKPGMQISVAHVTRRNLPNFVFPGGVRPSRPSKGTWDS 465
+ + M++ VA + ++N P+F G S SKG D+
Sbjct: 181 LTEICKHEGIAIADMKV-VAALVKKNFPDFRKTIGELDSYSSKGVLDA 227
>pdb|3ESV|F Chain F, Crystal Structure Of The Engineered Neutralizing Antibody
M18
pdb|3ESV|G Chain G, Crystal Structure Of The Engineered Neutralizing Antibody
M18
pdb|3ETB|F Chain F, Crystal Structure Of The Engineered Neutralizing Antibody
M18 Complexed With Anthrax Protective Antigen Domain 4
pdb|3ETB|G Chain G, Crystal Structure Of The Engineered Neutralizing Antibody
M18 Complexed With Anthrax Protective Antigen Domain 4
pdb|3ETB|H Chain H, Crystal Structure Of The Engineered Neutralizing Antibody
M18 Complexed With Anthrax Protective Antigen Domain 4
pdb|3ETB|I Chain I, Crystal Structure Of The Engineered Neutralizing Antibody
M18 Complexed With Anthrax Protective Antigen Domain 4
Length = 252
Score = 31.2 bits (69), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 23/97 (23%), Positives = 37/97 (38%), Gaps = 21/97 (21%)
Query: 368 RIDISAENADDLRNWKGWVESR-------LRQLTLKRKQGVP---VGEGEQFDIRLTVKE 417
R+ +S + D+RN+ W + + L T + + GVP G G D LT+
Sbjct: 23 RVTVSCRASQDIRNYLNWYQQKPDGTVKFLIYYTSRLQPGVPSRFSGSGSGTDYSLTINN 82
Query: 418 FKQAVSMYTLRKPGMQISVAHVTRRNLPNFVFPGGVR 454
+Q I + N P + F GG +
Sbjct: 83 LEQE-----------DIGTYFCQQGNTPPWTFGGGTK 108
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
0.318 0.134 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,726,060
Number of Sequences: 62578
Number of extensions: 806006
Number of successful extensions: 1634
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1607
Number of HSP's gapped (non-prelim): 13
length of query: 698
length of database: 14,973,337
effective HSP length: 106
effective length of query: 592
effective length of database: 8,340,069
effective search space: 4937320848
effective search space used: 4937320848
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.8 bits)