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= psy11640
(552 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4ERN|A Chain A, Crystal Structure Of The C-terminal Domain Of Human
Xpb/ercc-3 Excision Repair Protein At 1.80 A
Length = 289
Score = 435 bits (1119), Expect = e-122, Method: Compositional matrix adjust.
Identities = 207/289 (71%), Positives = 240/289 (83%), Gaps = 7/289 (2%)
Query: 269 LELQKRGFIARVQCAEVWCPMSPEFYREYLVCKTSKRLLLYVMNPNKYRATQYLIAYHER 328
+ELQ G+IA+VQCAEVWCPMSPEFYREY+ KT KR+LLY MNPNK+RA Q+LI +HER
Sbjct: 1 MELQNNGYIAKVQCAEVWCPMSPEFYREYVAIKTKKRILLYTMNPNKFRACQFLIKFHER 60
Query: 329 RGDKTIVFSDNVFALKHYAVKMNKPYIYGPTSQSERIQILQNFKLNPKVNTIFVSKVADT 388
R DK IVF+DNVFALK YA+++NKPYIYGPTSQ ER+QILQNFK NPK+NTIF+SKV DT
Sbjct: 61 RNDKIIVFADNVFALKEYAIRLNKPYIYGPTSQGERMQILQNFKHNPKINTIFISKVGDT 120
Query: 389 SFDLPEANVLIQISSHGGSRRQEAQRLGRILRAKKGAIAEEYNAFFYTLVSQDTMEMSYS 448
SFDLPEANVLIQISSHGGSRRQEAQRLGR+LRAKKG +AEEYNAFFY+LVSQDT EM+YS
Sbjct: 121 SFDLPEANVLIQISSHGGSRRQEAQRLGRVLRAKKGMVAEEYNAFFYSLVSQDTQEMAYS 180
Query: 449 RKRQRFLINQGYSYKVITKLAGMEEERGMHYSTRDEQGQLLQQVLAASETDADEERVAGE 508
KRQRFL++QGYS+KVITKLAGMEEE + +ST++EQ QLLQ+VLAA++ DA+EE VAGE
Sbjct: 181 TKRQRFLVDQGYSFKVITKLAGMEEE-DLAFSTKEEQQQLLQKVLAATDLDAEEEVVAGE 239
Query: 509 XXXXXXXXXXXXXTMASLSGADDAVYHESRFSNVK------HPLFKKFR 551
TM+S+SGADD VY E S K HPLFK+FR
Sbjct: 240 FGSRSSQASRRFGTMSSMSGADDTVYMEYHSSRSKAPSKHVHPLFKRFR 288
>pdb|2FWR|A Chain A, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|B Chain B, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|C Chain C, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|D Chain D, Structure Of Archaeoglobus Fulgidis Xpb
Length = 472
Score = 83.2 bits (204), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 77/275 (28%), Positives = 131/275 (47%), Gaps = 48/275 (17%)
Query: 217 EVHTIPAKMFRRVLTIVQSHCKLGLTATLLREDDKIADLNFLIGPKLYEANWLELQKRGF 276
EVH +PA+ + ++ + + +LGLTAT RED + L ++G K++E L +
Sbjct: 200 EVHHLPAESYVQIAQMSIAPFRLGLTATFEREDGRHEILKEVVGGKVFELFPDSLAGK-H 258
Query: 277 IARVQCAEVWCPMSPE----------FYREYLVCK--TSKRLLLY---VM---------- 311
+A+ ++ P++ + Y+++L + T +R + VM
Sbjct: 259 LAKYTIKRIFVPLAEDERVEYEKREKVYKQFLRARGITLRRAEDFNKIVMASGYDERAYE 318
Query: 312 --------------NPNKYRATQYLIAYHERRGDKTIVFSDNVFALKHYAVKMNKPYIYG 357
+ NK R + ++ H R DK I+F+ + + + P I
Sbjct: 319 ALRAWEEARRIAFNSKNKIRKLREILERH--RKDKIIIFTRHNELVYRISKVFLIPAITH 376
Query: 358 PTSQSERIQILQNFKLNPKVNTIFVSKVADTSFDLPEANVLIQISSHGGSRRQEAQRLGR 417
TS+ ER +IL+ F+ + I S+V D D+P+ANV + I S GS R+ QRLGR
Sbjct: 377 RTSREEREEILEGFRTG-RFRAIVSSQVLDEGIDVPDANVGV-IMSGSGSAREYIQRLGR 434
Query: 418 ILRAKKGAIAEEYNAFFYTLVSQDTMEMSYSRKRQ 452
ILR KG + A Y L+S+ T E++ +R+R+
Sbjct: 435 ILRPSKG----KKEAVLYELISRGTGEVNTARRRK 465
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 62.8 bits (151), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 46/129 (35%), Positives = 68/129 (52%), Gaps = 8/129 (6%)
Query: 312 NPNKYRATQYLIAYHERRGDKTIVFSDNVFALKHYAVKMNKPYIYGPTSQSERIQILQNF 371
+ NK R + ++ H R DK I+F+ + + + P I TS+ ER +IL+ F
Sbjct: 98 SKNKIRKLREILERH--RKDKIIIFTRHNELVYRISKVFLIPAITHRTSREEREEILEGF 155
Query: 372 KLNPKVNTIFVSKVADTSFDLPEANVLIQISSHGGSRRQEAQRLGRILRAKKGAIAEEYN 431
+ + I S+V D D+P+ANV + I S GS R+ QRLGRILR KG +
Sbjct: 156 RTG-RFRAIVSSQVLDEGIDVPDANVGV-IMSGSGSAREYIQRLGRILRPSKG----KKE 209
Query: 432 AFFYTLVSQ 440
A Y L+S+
Sbjct: 210 AVLYELISR 218
>pdb|1Z63|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COMPLEX
With Dsdna
pdb|1Z63|B Chain B, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COMPLEX
With Dsdna
Length = 500
Score = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 37/136 (27%), Positives = 62/136 (45%), Gaps = 15/136 (11%)
Query: 353 PYIYGPTSQSERIQILQNFKLNPKVNTIFVS-KVADTSFDLPEANVLIQISSHGGSRRQE 411
P++YG S+ ER I+ F+ NP V I +S K +L AN +I + E
Sbjct: 370 PFLYGELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANRVIHF-DRWWNPAVE 428
Query: 412 AQRLGRILRAKKGAIAEEYNAFFYTLVSQDTME------MSYSRKRQRFLINQGYSYKVI 465
Q R+ R I + N + L+S T+E +++ R + +I+ G S+ I
Sbjct: 429 DQATDRVYR-----IGQTRNVIVHKLISVGTLEEKIDQLLAFKRSLFKDIISSGDSW--I 481
Query: 466 TKLAGMEEERGMHYST 481
T+L+ E + + S
Sbjct: 482 TELSTEELRKVIELSV 497
>pdb|1Z6A|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE DOMAIN
Length = 500
Score = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 37/136 (27%), Positives = 62/136 (45%), Gaps = 15/136 (11%)
Query: 353 PYIYGPTSQSERIQILQNFKLNPKVNTIFVS-KVADTSFDLPEANVLIQISSHGGSRRQE 411
P++YG S+ ER I+ F+ NP V I +S K +L AN +I + E
Sbjct: 370 PFLYGELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANRVIHF-DRWWNPAVE 428
Query: 412 AQRLGRILRAKKGAIAEEYNAFFYTLVSQDTME------MSYSRKRQRFLINQGYSYKVI 465
Q R+ R I + N + L+S T+E +++ R + +I+ G S+ I
Sbjct: 429 DQATDRVYR-----IGQTRNVIVHKLISVGTLEEKIDQLLAFKRSLFKDIISSGDSW--I 481
Query: 466 TKLAGMEEERGMHYST 481
T+L+ E + + S
Sbjct: 482 TELSTEELRKVIELSV 497
>pdb|1Z5Z|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE C-Terminal Domain
pdb|1Z5Z|B Chain B, Sulfolobus Solfataricus Swi2SNF2 ATPASE C-Terminal Domain
Length = 271
Score = 38.9 bits (89), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 37/136 (27%), Positives = 62/136 (45%), Gaps = 15/136 (11%)
Query: 353 PYIYGPTSQSERIQILQNFKLNPKVNTIFVS-KVADTSFDLPEANVLIQISSHGGSRRQE 411
P++YG S+ ER I+ F+ NP V I +S K +L AN +I + E
Sbjct: 141 PFLYGELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANRVIHF-DRWWNPAVE 199
Query: 412 AQRLGRILRAKKGAIAEEYNAFFYTLVSQDTME------MSYSRKRQRFLINQGYSYKVI 465
Q R+ R I + N + L+S T+E +++ R + +I+ G S+ I
Sbjct: 200 DQATDRVYR-----IGQTRNVIVHKLISVGTLEEKIDQLLAFKRSLFKDIISSGDSW--I 252
Query: 466 TKLAGMEEERGMHYST 481
T+L+ E + + S
Sbjct: 253 TELSTEELRKVIELSV 268
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 32.3 bits (72), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 13/56 (23%), Positives = 31/56 (55%), Gaps = 1/56 (1%)
Query: 345 HYAVKMNKPYIYGPTSQSERIQILQNFKLNPKVNTIFVSKVADTSFDLPEANVLIQ 400
H+ + + P +Q+E+ +++ F+ K+N + + VA+ D+ E N++I+
Sbjct: 184 HHLIGAGHSSEFKPXTQNEQREVISKFR-TGKINLLIATTVAEEGLDIKECNIVIR 238
>pdb|1ZY8|A Chain A, The Crystal Structure Of Dihydrolipoamide Dehydrogenase
And Dihydrolipoamide Dehydrogenase-Binding Protein
(Didomain) Subcomplex Of Human Pyruvate Dehydrogenase
Complex.
pdb|1ZY8|B Chain B, The Crystal Structure Of Dihydrolipoamide Dehydrogenase
And Dihydrolipoamide Dehydrogenase-Binding Protein
(Didomain) Subcomplex Of Human Pyruvate Dehydrogenase
Complex.
pdb|1ZY8|C Chain C, The Crystal Structure Of Dihydrolipoamide Dehydrogenase
And Dihydrolipoamide Dehydrogenase-Binding Protein
(Didomain) Subcomplex Of Human Pyruvate Dehydrogenase
Complex.
pdb|1ZY8|D Chain D, The Crystal Structure Of Dihydrolipoamide Dehydrogenase
And Dihydrolipoamide Dehydrogenase-Binding Protein
(Didomain) Subcomplex Of Human Pyruvate Dehydrogenase
Complex.
pdb|1ZY8|E Chain E, The Crystal Structure Of Dihydrolipoamide Dehydrogenase
And Dihydrolipoamide Dehydrogenase-Binding Protein
(Didomain) Subcomplex Of Human Pyruvate Dehydrogenase
Complex.
pdb|1ZY8|F Chain F, The Crystal Structure Of Dihydrolipoamide Dehydrogenase
And Dihydrolipoamide Dehydrogenase-Binding Protein
(Didomain) Subcomplex Of Human Pyruvate Dehydrogenase
Complex.
pdb|1ZY8|G Chain G, The Crystal Structure Of Dihydrolipoamide Dehydrogenase
And Dihydrolipoamide Dehydrogenase-Binding Protein
(Didomain) Subcomplex Of Human Pyruvate Dehydrogenase
Complex.
pdb|1ZY8|H Chain H, The Crystal Structure Of Dihydrolipoamide Dehydrogenase
And Dihydrolipoamide Dehydrogenase-Binding Protein
(Didomain) Subcomplex Of Human Pyruvate Dehydrogenase
Complex.
pdb|1ZY8|I Chain I, The Crystal Structure Of Dihydrolipoamide Dehydrogenase
And Dihydrolipoamide Dehydrogenase-Binding Protein
(Didomain) Subcomplex Of Human Pyruvate Dehydrogenase
Complex.
pdb|1ZY8|J Chain J, The Crystal Structure Of Dihydrolipoamide Dehydrogenase
And Dihydrolipoamide Dehydrogenase-Binding Protein
(Didomain) Subcomplex Of Human Pyruvate Dehydrogenase
Complex
Length = 474
Score = 32.3 bits (72), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 33/124 (26%), Positives = 52/124 (41%), Gaps = 19/124 (15%)
Query: 378 NTIFVSKVADTSFDLPEANVLIQISSHGGSRRQEAQRLGRILRAKKGAIAEEYNAFFYTL 437
+TI S A + +PE V+I G QRLG + A + F
Sbjct: 163 DTIVSSTGALSLKKVPEKMVVIGAGVIGVELGSVWQRLGADVTAVE----------FLGH 212
Query: 438 VSQDTMEMSYSRKRQRFLINQGYSYKVITKLAGMEEERGMHYSTRDEQGQLLQQVLAASE 497
V ++M S+ QR L QG+ +K+ TK+ G +T+ G++ + AAS
Sbjct: 213 VGGVGIDMEISKNFQRILQKQGFKFKLNTKVTG---------ATKKSDGKIDVSIEAASG 263
Query: 498 TDAD 501
A+
Sbjct: 264 GKAE 267
>pdb|1ZMC|A Chain A, Crystal Structure Of Human Dihydrolipoamide Dehydrogenase
Complexed To Nad+
pdb|1ZMC|B Chain B, Crystal Structure Of Human Dihydrolipoamide Dehydrogenase
Complexed To Nad+
pdb|1ZMC|C Chain C, Crystal Structure Of Human Dihydrolipoamide Dehydrogenase
Complexed To Nad+
pdb|1ZMC|D Chain D, Crystal Structure Of Human Dihydrolipoamide Dehydrogenase
Complexed To Nad+
pdb|1ZMC|E Chain E, Crystal Structure Of Human Dihydrolipoamide Dehydrogenase
Complexed To Nad+
pdb|1ZMC|F Chain F, Crystal Structure Of Human Dihydrolipoamide Dehydrogenase
Complexed To Nad+
pdb|1ZMC|G Chain G, Crystal Structure Of Human Dihydrolipoamide Dehydrogenase
Complexed To Nad+
pdb|1ZMC|H Chain H, Crystal Structure Of Human Dihydrolipoamide Dehydrogenase
Complexed To Nad+
pdb|1ZMD|A Chain A, Crystal Structure Of Human Dihydrolipoamide Dehydrogenase
Complexed To Nadh
pdb|1ZMD|B Chain B, Crystal Structure Of Human Dihydrolipoamide Dehydrogenase
Complexed To Nadh
pdb|1ZMD|C Chain C, Crystal Structure Of Human Dihydrolipoamide Dehydrogenase
Complexed To Nadh
pdb|1ZMD|D Chain D, Crystal Structure Of Human Dihydrolipoamide Dehydrogenase
Complexed To Nadh
pdb|1ZMD|E Chain E, Crystal Structure Of Human Dihydrolipoamide Dehydrogenase
Complexed To Nadh
pdb|1ZMD|F Chain F, Crystal Structure Of Human Dihydrolipoamide Dehydrogenase
Complexed To Nadh
pdb|1ZMD|G Chain G, Crystal Structure Of Human Dihydrolipoamide Dehydrogenase
Complexed To Nadh
pdb|1ZMD|H Chain H, Crystal Structure Of Human Dihydrolipoamide Dehydrogenase
Complexed To Nadh
pdb|2F5Z|A Chain A, Crystal Structure Of Human Dihydrolipoamide Dehydrogenase
(E3) Complexed To The E3-Binding Domain Of Human E3-
Binding Protein
pdb|2F5Z|B Chain B, Crystal Structure Of Human Dihydrolipoamide Dehydrogenase
(E3) Complexed To The E3-Binding Domain Of Human E3-
Binding Protein
pdb|2F5Z|C Chain C, Crystal Structure Of Human Dihydrolipoamide Dehydrogenase
(E3) Complexed To The E3-Binding Domain Of Human E3-
Binding Protein
pdb|2F5Z|D Chain D, Crystal Structure Of Human Dihydrolipoamide Dehydrogenase
(E3) Complexed To The E3-Binding Domain Of Human E3-
Binding Protein
pdb|2F5Z|E Chain E, Crystal Structure Of Human Dihydrolipoamide Dehydrogenase
(E3) Complexed To The E3-Binding Domain Of Human E3-
Binding Protein
pdb|2F5Z|F Chain F, Crystal Structure Of Human Dihydrolipoamide Dehydrogenase
(E3) Complexed To The E3-Binding Domain Of Human E3-
Binding Protein
pdb|2F5Z|G Chain G, Crystal Structure Of Human Dihydrolipoamide Dehydrogenase
(E3) Complexed To The E3-Binding Domain Of Human E3-
Binding Protein
pdb|2F5Z|H Chain H, Crystal Structure Of Human Dihydrolipoamide Dehydrogenase
(E3) Complexed To The E3-Binding Domain Of Human E3-
Binding Protein
pdb|2F5Z|I Chain I, Crystal Structure Of Human Dihydrolipoamide Dehydrogenase
(E3) Complexed To The E3-Binding Domain Of Human E3-
Binding Protein
pdb|2F5Z|J Chain J, Crystal Structure Of Human Dihydrolipoamide Dehydrogenase
(E3) Complexed To The E3-Binding Domain Of Human E3-
Binding Protein
Length = 474
Score = 32.0 bits (71), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 33/124 (26%), Positives = 52/124 (41%), Gaps = 19/124 (15%)
Query: 378 NTIFVSKVADTSFDLPEANVLIQISSHGGSRRQEAQRLGRILRAKKGAIAEEYNAFFYTL 437
+TI S A + +PE V+I G QRLG + A + F
Sbjct: 163 DTIVSSTGALSLKKVPEKMVVIGAGVIGVELGSVWQRLGADVTAVE----------FLGH 212
Query: 438 VSQDTMEMSYSRKRQRFLINQGYSYKVITKLAGMEEERGMHYSTRDEQGQLLQQVLAASE 497
V ++M S+ QR L QG+ +K+ TK+ G +T+ G++ + AAS
Sbjct: 213 VGGVGIDMEISKNFQRILQKQGFKFKLNTKVTG---------ATKKSDGKIDVSIEAASG 263
Query: 498 TDAD 501
A+
Sbjct: 264 GKAE 267
>pdb|4GL2|A Chain A, Structural Basis For Dsrna Duplex Backbone Recognition By
Mda5
pdb|4GL2|B Chain B, Structural Basis For Dsrna Duplex Backbone Recognition By
Mda5
Length = 699
Score = 32.0 bits (71), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 12/45 (26%), Positives = 28/45 (62%), Gaps = 1/45 (2%)
Query: 356 YGPTSQSERIQILQNFKLNPKVNTIFVSKVADTSFDLPEANVLIQ 400
+ P +Q+E+ +++ F+ K+N + + VA+ D+ E N++I+
Sbjct: 445 FKPMTQNEQKEVISKFRTG-KINLLIATTVAEEGLDIKECNIVIR 488
>pdb|4AEF|A Chain A, The Crystal Structure Of Thermostable Amylase From The
Pyrococcus
pdb|4AEF|B Chain B, The Crystal Structure Of Thermostable Amylase From The
Pyrococcus
Length = 645
Score = 32.0 bits (71), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 35/82 (42%), Gaps = 10/82 (12%)
Query: 345 HYAVKMNKPYIYGPTSQSERIQILQNFKLNPKVNTIFVSKVADTSFDLPEANVLIQISSH 404
HYA ++ ++ P + R+ + +K + +VN + K D F P L +I
Sbjct: 65 HYAFSIDGKFVLDPDNPERRVYTRKGYKFHREVNVARIVKSDDLVFHTPSLLYLYEIFG- 123
Query: 405 GGSRRQEAQRLGRILRAKKGAI 426
R+ +LR +KG I
Sbjct: 124 ---------RVHVLLRTQKGVI 136
>pdb|3RNM|A Chain A, The Crystal Structure Of The Subunit Binding Of Human
Dihydrolipoamide Transacylase (E2b) Bound To Human
Dihydrolipoamide Dehydrogenase (E3)
pdb|3RNM|B Chain B, The Crystal Structure Of The Subunit Binding Of Human
Dihydrolipoamide Transacylase (E2b) Bound To Human
Dihydrolipoamide Dehydrogenase (E3)
pdb|3RNM|C Chain C, The Crystal Structure Of The Subunit Binding Of Human
Dihydrolipoamide Transacylase (E2b) Bound To Human
Dihydrolipoamide Dehydrogenase (E3)
pdb|3RNM|D Chain D, The Crystal Structure Of The Subunit Binding Of Human
Dihydrolipoamide Transacylase (E2b) Bound To Human
Dihydrolipoamide Dehydrogenase (E3)
Length = 495
Score = 32.0 bits (71), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 33/124 (26%), Positives = 52/124 (41%), Gaps = 19/124 (15%)
Query: 378 NTIFVSKVADTSFDLPEANVLIQISSHGGSRRQEAQRLGRILRAKKGAIAEEYNAFFYTL 437
+TI S A + +PE V+I G QRLG + A + F
Sbjct: 184 DTIVSSTGALSLKKVPEKMVVIGAGVIGVELGSVWQRLGADVTAVE----------FLGH 233
Query: 438 VSQDTMEMSYSRKRQRFLINQGYSYKVITKLAGMEEERGMHYSTRDEQGQLLQQVLAASE 497
V ++M S+ QR L QG+ +K+ TK+ G +T+ G++ + AAS
Sbjct: 234 VGGVGIDMEISKNFQRILQKQGFKFKLNTKVTG---------ATKKSDGKIDVSIEAASG 284
Query: 498 TDAD 501
A+
Sbjct: 285 GKAE 288
>pdb|2FZ4|A Chain A, Crystal Structure Of The N-Terminal Half Of Archaeoglobus
Fulgidus Xpb
Length = 237
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 23/35 (65%)
Query: 217 EVHTIPAKMFRRVLTIVQSHCKLGLTATLLREDDK 251
EVH +PA+ + ++ + + +LGLTAT RED +
Sbjct: 200 EVHHLPAESYVQIAQMSIAPFRLGLTATFEREDGR 234
>pdb|2DB3|A Chain A, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|B Chain B, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|C Chain C, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|D Chain D, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
Length = 434
Score = 31.2 bits (69), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 31/118 (26%), Positives = 49/118 (41%), Gaps = 18/118 (15%)
Query: 289 MSPEFYREYL---------VCKTSKRLLLYVMNPNKYRATQYLIAYHERRGDKTIVFSDN 339
M+ EF + Y+ C K+ + V NKY LI + D TIVF +
Sbjct: 253 MAGEFLKNYVFVAIGIVGGACSDVKQTIYEV---NKYAKRSKLIEILSEQADGTIVFVET 309
Query: 340 VFALKHYAVKMNK-----PYIYGPTSQSERIQILQNFKLNPKVNTIFVSKVADTSFDL 392
A +++ I+G QS+R Q L++FK N + + + VA D+
Sbjct: 310 KRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFK-NGSMKVLIATSVASRGLDI 366
>pdb|3F7C|A Chain A, Crystal Structure Of A Duf416 Family Protein (Maqu_0942)
From Marinobacter Aquaeolei Vt8 At 2.00 A Resolution
Length = 200
Score = 30.4 bits (67), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 23/42 (54%), Gaps = 5/42 (11%)
Query: 284 EVWCPMSPEF-----YREYLVCKTSKRLLLYVMNPNKYRATQ 320
E CP E+ Y + C+ ++ LL +NPNK+RAT+
Sbjct: 77 ETLCPNVDEYDAYGVYPAFDFCQLLEQALLNRLNPNKHRATE 118
>pdb|3ITG|A Chain A, Structure The Proline Utilization A Proline Dehydrogenase
Domain (Puta86-630) Inactivated With N-Propargylglycine
pdb|3ITG|B Chain B, Structure The Proline Utilization A Proline Dehydrogenase
Domain (Puta86-630) Inactivated With N-Propargylglycine
Length = 602
Score = 30.0 bits (66), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 25/48 (52%), Gaps = 2/48 (4%)
Query: 349 KMNKP-YIYGPTSQSERI-QILQNFKLNPKVNTIFVSKVADTSFDLPE 394
K+N+P IY P E + L L NT FV+++ADTS L E
Sbjct: 447 KLNRPCRIYAPVGTHETLLAYLVRRLLENGANTSFVNRIADTSLPLDE 494
>pdb|1TIW|A Chain A, Crystal Structure Of E. Coli Puta Proline Dehydrogenase
Domain (Residues 86-669) Complexed With
L-Tetrahydro-2-Furoic Acid
pdb|1TJ0|A Chain A, Crystal Structure Of E. Coli Puta Proline Dehydrogenase
Domain (Residues 86-669) Co-Crystallized With L-Lactate
pdb|1TJ1|A Chain A, Crystal Structure Of E. Coli Puta Proline Dehydrogenase
Domain (Residues 86-669) Complexed With L-Lactate
pdb|2FZN|A Chain A, Structure Of The E. Coli Puta Proline Dehydrogenase Domain
Reduced By Dithionite And Complexed With Proline
pdb|2FZM|A Chain A, Structure Of The E. Coli Puta Proline Dehydrogenase Domain
Reduced By Dithionite And Complexed With So2
Length = 602
Score = 30.0 bits (66), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 25/48 (52%), Gaps = 2/48 (4%)
Query: 349 KMNKP-YIYGPTSQSERI-QILQNFKLNPKVNTIFVSKVADTSFDLPE 394
K+N+P IY P E + L L NT FV+++ADTS L E
Sbjct: 447 KLNRPCRIYAPVGTHETLLAYLVRRLLENGANTSFVNRIADTSLPLDE 494
>pdb|1TJ2|A Chain A, Crystal Structure Of E. Coli Puta Proline Dehydrogenase
Domain (Residues 86-669) Complexed With Acetate
Length = 584
Score = 30.0 bits (66), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 25/48 (52%), Gaps = 2/48 (4%)
Query: 349 KMNKP-YIYGPTSQSERI-QILQNFKLNPKVNTIFVSKVADTSFDLPE 394
K+N+P IY P E + L L NT FV+++ADTS L E
Sbjct: 447 KLNRPCRIYAPVGTHETLLAYLVRRLLENGANTSFVNRIADTSLPLDE 494
>pdb|1K87|A Chain A, Crystal Structure Of E.coli Puta (residues 1-669)
Length = 669
Score = 30.0 bits (66), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 25/48 (52%), Gaps = 2/48 (4%)
Query: 349 KMNKP-YIYGPTSQSERI-QILQNFKLNPKVNTIFVSKVADTSFDLPE 394
K+N+P IY P E + L L NT FV+++ADTS L E
Sbjct: 532 KLNRPCRIYAPVGTHETLLAYLVRRLLENGANTSFVNRIADTSLPLDE 579
>pdb|3C48|A Chain A, Structure Of The Retaining Glycosyltransferase Msha: The
First Step In Mycothiol Biosynthesis. Organism:
Corynebacterium Glutamicum- Apo (Open) Structure.
pdb|3C48|B Chain B, Structure Of The Retaining Glycosyltransferase Msha: The
First Step In Mycothiol Biosynthesis. Organism:
Corynebacterium Glutamicum- Apo (Open) Structure
Length = 438
Score = 28.9 bits (63), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 26/55 (47%), Gaps = 4/55 (7%)
Query: 103 TYSMISHTQKRSWEADQTMQWLQNQEWGIMLLDDGVPVAAKKNVEKDDAAVPEDE 157
TY +I W + Q + WL W I L+ +AA KN +DD+ PE E
Sbjct: 122 TYDLI---HSHYWLSGQ-VGWLLRDLWRIPLIHTAHTLAAVKNSYRDDSDTPESE 172
>pdb|3C4Q|A Chain A, Structure Of The Retaining Glycosyltransferase Msha : The
First Step In Mycothiol Biosynthesis. Organism :
Corynebacterium Glutamicum- Complex With Udp
pdb|3C4Q|B Chain B, Structure Of The Retaining Glycosyltransferase Msha : The
First Step In Mycothiol Biosynthesis. Organism :
Corynebacterium Glutamicum- Complex With Udp
pdb|3C4V|A Chain A, Structure Of The Retaining Glycosyltransferase Msha:the
First Step In Mycothiol Biosynthesis. Organism:
Corynebacterium Glutamicum : Complex With Udp And
1l-Ins-1- P.
pdb|3C4V|B Chain B, Structure Of The Retaining Glycosyltransferase Msha:the
First Step In Mycothiol Biosynthesis. Organism:
Corynebacterium Glutamicum : Complex With Udp And
1l-Ins-1- P
Length = 426
Score = 28.9 bits (63), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 26/55 (47%), Gaps = 4/55 (7%)
Query: 103 TYSMISHTQKRSWEADQTMQWLQNQEWGIMLLDDGVPVAAKKNVEKDDAAVPEDE 157
TY +I W + Q + WL W I L+ +AA KN +DD+ PE E
Sbjct: 102 TYDLI---HSHYWLSGQ-VGWLLRDLWRIPLIHTAHTLAAVKNSYRDDSDTPESE 152
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
0.321 0.134 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,036,051
Number of Sequences: 62578
Number of extensions: 578984
Number of successful extensions: 1186
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 1170
Number of HSP's gapped (non-prelim): 23
length of query: 552
length of database: 14,973,337
effective HSP length: 104
effective length of query: 448
effective length of database: 8,465,225
effective search space: 3792420800
effective search space used: 3792420800
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (25.4 bits)