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= 001615
(1044 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3KX2|B Chain B, Crystal Structure Of Prp43p In Complex With Adp
pdb|3KX2|A Chain A, Crystal Structure Of Prp43p In Complex With Adp
Length = 767
Score = 314 bits (805), Expect = 2e-85, Method: Compositional matrix adjust.
Identities = 223/702 (31%), Positives = 334/702 (47%), Gaps = 84/702 (11%)
Query: 274 MLSFREKLPAFKMKAEFLKAVAENQVLVVSGETGCGKTTQLPQFILEEELSSLRGADCNI 333
+L R +LP + EFLK NQ++V GETG GKTTQ+PQF+L +E+ L + +
Sbjct: 86 ILKIRRELPVHAQRDEFLKLYQNNQIMVFVGETGSGKTTQIPQFVLFDEMPHLE--NTQV 143
Query: 334 ICTQPXXXXXXXXXXXXXXERGENLGETVGYQIRLESKRSAQTRLLFCTTGVLLRQLVED 393
CTQP E LGE VGY IR E+K S +T L + T G+LLR+ +ED
Sbjct: 144 ACTQPRRVAAMSVAQRVAEEMDVKLGEEVGYSIRFENKTSNKTILKYMTDGMLLREAMED 203
Query: 394 PDLSCVSHLLVDEIHERGMNEDFXXXXXXXXXXXXXXXXXXXMSATINADLFSKYFGNAP 453
DLS S +++DE HER + D MSAT++A+ F +YF +AP
Sbjct: 204 HDLSRYSCIILDEAHERTLATDILMGLLKQVVKRRPDLKIIIMSATLDAEKFQRYFNDAP 263
Query: 454 TVHIPGLTFPVTDLFLEDVLEKTRYKMNSKLDSFQGNXXXXXXQDSKKDHLTALFEDVDI 513
+ +PG T+PV +L+ ++ LDS + D L L + +I
Sbjct: 264 LLAVPGRTYPV-ELYYTPEFQR------DYLDSAIRTVLQIHATEEAGDILLFLTGEDEI 316
Query: 514 DSNYKNYRASTRASLEAWSAEQIDLGLVESTIEYICRHEGDGAILVFLTGWNDISKLLDQ 573
+ A + SLE + + R EG G + V+
Sbjct: 317 ED------AVRKISLEG---------------DQLVREEGCGPLSVY------------- 342
Query: 574 IKVNKFLGDPNKFLVLPLHGSMPTINQREIFDRPPPNK-----RKIVLATNIAESSITID 628
PL+GS+P Q+ IF+ P + RK+V++TNIAE+S+TID
Sbjct: 343 ----------------PLYGSLPPHQQQRIFEPAPESHNGRPGRKVVISTNIAETSLTID 386
Query: 629 DVVYVVDCGKAKETSYDALNKLACLLPSWISKASAHQRRGRAGRVQPGVCYKLYP-RIIH 687
+VYVVD G +K+ Y+ ++ LL S ISKASA QR GRAGR +PG C++LY
Sbjct: 387 GIVYVVDPGFSKQKVYNPRIRVESLLVSPISKASAQQRAGRAGRTRPGKCFRLYTEEAFQ 446
Query: 688 DAMLPYQLPEILRTPLQELCLHIKSLQLGTVGSFLSKALQPPDPLAVQNAIELLKTIGAL 747
++ PEILR+ L L +K L + + F + PP P + A+E L + L
Sbjct: 447 KELIEQSYPEILRSNLSSTVLELKKLGIDDLVHF--DFMDPPAPETMMRALEELNYLACL 504
Query: 748 DDMENLTPLGRHLCTLPVDPNIGKMLLMGAIFQCLNPALTIAAALAHRNPFVLPVNMQKE 807
DD NLTPLGR P+DP + ML+ FQC LTI A L+ N F+ P +K
Sbjct: 505 DDEGNLTPLGRLASQFPLDPMLAVMLIGSFEFQCSQEILTIVAMLSVPNVFIRPTKDKKR 564
Query: 808 VDEAKRSFAGDSCSDHIALLKAFDGYK-DAKRNRRERDFCWENFLSPITLQMMEDMRSQF 866
D+AK FA DHI LL + +K D +C +++L+ +L +++RSQ
Sbjct: 565 ADDAKNIFAHPD-GDHITLLNVYHAFKSDEAYEYGIHKWCRDHYLNYRSLSAADNIRSQL 623
Query: 867 LDLLSDIGF---VDKSKGPSAYNRYSHDLEMVCAILCAGLYPNVVQCKRKGKRAVFYTKE 923
L++ + P ++ + L +G + V + KR G + K+
Sbjct: 624 ERLMNRYNLELNTTDYESPKYFDN-------IRKALASGFFMQVAK-KRSGAKGYITVKD 675
Query: 924 VGQVALHPSSVNANQNNFPLPYMVYSEMVKTNNINVYDSTNI 965
V +HPS+V + +++Y+E V T+ + T++
Sbjct: 676 NQDVLIHPSTVLGHDAE----WVIYNEFVLTSKNYIRTVTSV 713
>pdb|2XAU|A Chain A, Crystal Structure Of The Prp43p Deah-Box Rna Helicase In
Complex With Adp
pdb|2XAU|B Chain B, Crystal Structure Of The Prp43p Deah-Box Rna Helicase In
Complex With Adp
Length = 773
Score = 314 bits (805), Expect = 2e-85, Method: Compositional matrix adjust.
Identities = 223/702 (31%), Positives = 334/702 (47%), Gaps = 84/702 (11%)
Query: 274 MLSFREKLPAFKMKAEFLKAVAENQVLVVSGETGCGKTTQLPQFILEEELSSLRGADCNI 333
+L R +LP + EFLK NQ++V GETG GKTTQ+PQF+L +E+ L + +
Sbjct: 86 ILKIRRELPVHAQRDEFLKLYQNNQIMVFVGETGSGKTTQIPQFVLFDEMPHLE--NTQV 143
Query: 334 ICTQPXXXXXXXXXXXXXXERGENLGETVGYQIRLESKRSAQTRLLFCTTGVLLRQLVED 393
CTQP E LGE VGY IR E+K S +T L + T G+LLR+ +ED
Sbjct: 144 ACTQPRRVAAMSVAQRVAEEMDVKLGEEVGYSIRFENKTSNKTILKYMTDGMLLREAMED 203
Query: 394 PDLSCVSHLLVDEIHERGMNEDFXXXXXXXXXXXXXXXXXXXMSATINADLFSKYFGNAP 453
DLS S +++DE HER + D MSAT++A+ F +YF +AP
Sbjct: 204 HDLSRYSCIILDEAHERTLATDILMGLLKQVVKRRPDLKIIIMSATLDAEKFQRYFNDAP 263
Query: 454 TVHIPGLTFPVTDLFLEDVLEKTRYKMNSKLDSFQGNXXXXXXQDSKKDHLTALFEDVDI 513
+ +PG T+PV +L+ ++ LDS + D L L + +I
Sbjct: 264 LLAVPGRTYPV-ELYYTPEFQR------DYLDSAIRTVLQIHATEEAGDILLFLTGEDEI 316
Query: 514 DSNYKNYRASTRASLEAWSAEQIDLGLVESTIEYICRHEGDGAILVFLTGWNDISKLLDQ 573
+ A + SLE + + R EG G + V+
Sbjct: 317 ED------AVRKISLEG---------------DQLVREEGCGPLSVY------------- 342
Query: 574 IKVNKFLGDPNKFLVLPLHGSMPTINQREIFDRPPPNK-----RKIVLATNIAESSITID 628
PL+GS+P Q+ IF+ P + RK+V++TNIAE+S+TID
Sbjct: 343 ----------------PLYGSLPPHQQQRIFEPAPESHNGRPGRKVVISTNIAETSLTID 386
Query: 629 DVVYVVDCGKAKETSYDALNKLACLLPSWISKASAHQRRGRAGRVQPGVCYKLYP-RIIH 687
+VYVVD G +K+ Y+ ++ LL S ISKASA QR GRAGR +PG C++LY
Sbjct: 387 GIVYVVDPGFSKQKVYNPRIRVESLLVSPISKASAQQRAGRAGRTRPGKCFRLYTEEAFQ 446
Query: 688 DAMLPYQLPEILRTPLQELCLHIKSLQLGTVGSFLSKALQPPDPLAVQNAIELLKTIGAL 747
++ PEILR+ L L +K L + + F + PP P + A+E L + L
Sbjct: 447 KELIEQSYPEILRSNLSSTVLELKKLGIDDLVHF--DFMDPPAPETMMRALEELNYLACL 504
Query: 748 DDMENLTPLGRHLCTLPVDPNIGKMLLMGAIFQCLNPALTIAAALAHRNPFVLPVNMQKE 807
DD NLTPLGR P+DP + ML+ FQC LTI A L+ N F+ P +K
Sbjct: 505 DDEGNLTPLGRLASQFPLDPMLAVMLIGSFEFQCSQEILTIVAMLSVPNVFIRPTKDKKR 564
Query: 808 VDEAKRSFAGDSCSDHIALLKAFDGYK-DAKRNRRERDFCWENFLSPITLQMMEDMRSQF 866
D+AK FA DHI LL + +K D +C +++L+ +L +++RSQ
Sbjct: 565 ADDAKNIFAHPD-GDHITLLNVYHAFKSDEAYEYGIHKWCRDHYLNYRSLSAADNIRSQL 623
Query: 867 LDLLSDIGF---VDKSKGPSAYNRYSHDLEMVCAILCAGLYPNVVQCKRKGKRAVFYTKE 923
L++ + P ++ + L +G + V + KR G + K+
Sbjct: 624 ERLMNRYNLELNTTDYESPKYFDN-------IRKALASGFFMQVAK-KRSGAKGYITVKD 675
Query: 924 VGQVALHPSSVNANQNNFPLPYMVYSEMVKTNNINVYDSTNI 965
V +HPS+V + +++Y+E V T+ + T++
Sbjct: 676 NQDVLIHPSTVLGHDAE----WVIYNEFVLTSKNYIRTVTSV 713
>pdb|3LLM|A Chain A, Crystal Structure Analysis Of A Rna Helicase
pdb|3LLM|B Chain B, Crystal Structure Analysis Of A Rna Helicase
Length = 235
Score = 147 bits (372), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 80/215 (37%), Positives = 120/215 (55%), Gaps = 4/215 (1%)
Query: 245 PQSDSAKERLNVILK-ERQEKLKSSDSGKAMLSFREKLPAFKMKAEFLKAVAENQVLVVS 303
P + + E+++ LK E +L+ +A+L RE LP K ++E L+A+++N V+++
Sbjct: 23 PLAFATPEQISXDLKNELXYQLEQDHDLQAILQERELLPVKKFESEILEAISQNSVVIIR 82
Query: 304 GETGCGKTTQLPQFILEEELSSLRGADCNIICTQPXXXXXXXXXXXXXXERGENLGETVG 363
G TGCGKTTQ+PQFIL++ + + R A+CNI+ TQP ERGE G++ G
Sbjct: 83 GATGCGKTTQVPQFILDDFIQNDRAAECNIVVTQPRRISAVSVAERVAFERGEEPGKSCG 142
Query: 364 YQIRLESKR-SAQTRLLFCTTGVLLRQLVEDPDLSCVSHLLVDEIHERGMNEDFXXXXXX 422
Y +R ES + FCT GVLLR+L + + +SH++VDEIHER +N DF
Sbjct: 143 YSVRFESILPRPHASIXFCTVGVLLRKL--EAGIRGISHVIVDEIHERDINTDFLLVVLR 200
Query: 423 XXXXXXXXXXXXXMSATINADLFSKYFGNAPTVHI 457
SATI+ F +YF N P + +
Sbjct: 201 DVVQAYPEVRIVLXSATIDTSXFCEYFFNCPIIEV 235
>pdb|3I4U|A Chain A, Crystal Structure Analysis Of A Helicase Associated Domain
Length = 270
Score = 97.8 bits (242), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 77/262 (29%), Positives = 122/262 (46%), Gaps = 26/262 (9%)
Query: 713 LQLGTVGSFLSKALQPPDPLAVQNAIELLKTIGALDDMENLTPLGRHLCTLPVDPNIGKM 772
+LGT GS P + L A+E L T+GALDD LT LGR + P++P + KM
Sbjct: 8 FELGTRGS-------PMETLI--TAMEQLYTLGALDDEGLLTRLGRRMAEFPLEPMLCKM 58
Query: 773 LLMGAIFQCLNPALTIAAALAHRNPFVLPVNMQKEVDEAKRSFAGDSCSDHIALLKAFDG 832
L+M C LTI + L+ +N F P + Q D+ K F + DH+ LL ++
Sbjct: 59 LIMSVHLGCSEEMLTIVSMLSVQNVFYRPKDKQALADQKKAKFH-QTEGDHLTLLAVYNS 117
Query: 833 YKDAKRNRRERDFCWENFLSPITLQMMEDMRSQFLDLLSDIGFVDKSKGPSAYNRYSHDL 892
+K+ N+ +C+ENF+ +L+ +D+R Q L ++ S G S
Sbjct: 118 WKN---NKFSNPWCYENFIQARSLRRAQDIRKQMLGIMDRHKLDVVSCGKSTVR------ 168
Query: 893 EMVCAILCAGLYPNVVQCKRKGKRAVFYTKEVGQVALHPSSVNANQNNFPLPYMVYSEMV 952
V +C+G + N + + ++V V +HPSS N+ ++VY E+V
Sbjct: 169 --VQKAICSGFFRNAAKKDPQEGYRTLIDQQV--VYIHPSSALFNRQP---EWVVYHELV 221
Query: 953 KTNNINVYDSTNISEYALLLFG 974
T + + T I L+ F
Sbjct: 222 LTTKEYMREVTTIDPRWLVEFA 243
>pdb|2GZA|A Chain A, Crystal Structure Of The Virb11 Atpase From The Brucella
Suis Type Iv Secretion System In Complex With Sulphate
pdb|2GZA|B Chain B, Crystal Structure Of The Virb11 Atpase From The Brucella
Suis Type Iv Secretion System In Complex With Sulphate
pdb|2GZA|C Chain C, Crystal Structure Of The Virb11 Atpase From The Brucella
Suis Type Iv Secretion System In Complex With Sulphate
Length = 361
Score = 35.4 bits (80), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 32/53 (60%), Gaps = 4/53 (7%)
Query: 272 KAMLSFREKLPAFKMKAEFL----KAVAENQVLVVSGETGCGKTTQLPQFILE 320
K++ F ++L A K +++ +AV +V+VV+GETG GKTT + + E
Sbjct: 146 KSLTPFEQELLALKEAGDYMSFLRRAVQLERVIVVAGETGSGKTTLMKALMQE 198
>pdb|2WV9|A Chain A, Crystal Structure Of The Ns3 Protease-Helicase From Murray
Valley Encephalitis Virus
Length = 673
Score = 34.3 bits (77), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 24/61 (39%), Positives = 33/61 (54%), Gaps = 3/61 (4%)
Query: 614 IVLATNIAESSITIDDVVYVVDCGKA-KETSYD-ALNKLACLLPSWISKASAHQRRGRAG 671
V+ T+I+E V+DC K+ K T D ++ +PS I+ ASA QRRGR G
Sbjct: 459 FVITTDISEMGANFG-ASRVIDCRKSVKPTILDEGEGRVILSVPSAITSASAAQRRGRVG 517
Query: 672 R 672
R
Sbjct: 518 R 518
>pdb|2V8O|A Chain A, Structure Of The Murray Valley Encephalitis Virus Rna
Helicase To 1.9a Resolution
Length = 444
Score = 33.9 bits (76), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 24/61 (39%), Positives = 33/61 (54%), Gaps = 3/61 (4%)
Query: 614 IVLATNIAESSITIDDVVYVVDCGKA-KETSYD-ALNKLACLLPSWISKASAHQRRGRAG 671
V+ T+I+E V+DC K+ K T D ++ +PS I+ ASA QRRGR G
Sbjct: 230 FVITTDISEMGANFG-ASRVIDCRKSVKPTILDEGEGRVILSVPSAITSASAAQRRGRVG 288
Query: 672 R 672
R
Sbjct: 289 R 289
>pdb|3QQD|A Chain A, Human Sod1 H80r Variant, P212121 Crystal Form
pdb|3QQD|B Chain B, Human Sod1 H80r Variant, P212121 Crystal Form
Length = 154
Score = 33.1 bits (74), Expect = 0.87, Method: Composition-based stats.
Identities = 25/73 (34%), Positives = 33/73 (45%), Gaps = 9/73 (12%)
Query: 158 GLH-FHAYNKGKALAVSKVPLPMYRPDLDERHGSTEKELQMSIETERRVGNLLNSSQGNV 216
GLH FH + G A P + P L +HG + E ERRVG+L N +
Sbjct: 42 GLHGFHVHEFGDNTAGCTSAGPHFNP-LSRKHGGPKDE-------ERRVGDLGNVTADKD 93
Query: 217 PVNDSGIESSEVA 229
V D IE S ++
Sbjct: 94 GVADVSIEDSVIS 106
>pdb|3H2Q|A Chain A, Human Sod1 H80r Variant, P21 Crystal Form
pdb|3H2Q|B Chain B, Human Sod1 H80r Variant, P21 Crystal Form
pdb|3H2Q|C Chain C, Human Sod1 H80r Variant, P21 Crystal Form
pdb|3H2Q|D Chain D, Human Sod1 H80r Variant, P21 Crystal Form
Length = 153
Score = 33.1 bits (74), Expect = 0.87, Method: Composition-based stats.
Identities = 25/73 (34%), Positives = 33/73 (45%), Gaps = 9/73 (12%)
Query: 158 GLH-FHAYNKGKALAVSKVPLPMYRPDLDERHGSTEKELQMSIETERRVGNLLNSSQGNV 216
GLH FH + G A P + P L +HG + E ERRVG+L N +
Sbjct: 41 GLHGFHVHEFGDNTAGCTSAGPHFNP-LSRKHGGPKDE-------ERRVGDLGNVTADKD 92
Query: 217 PVNDSGIESSEVA 229
V D IE S ++
Sbjct: 93 GVADVSIEDSVIS 105
>pdb|2Z83|A Chain A, Crystal Structure Of Catalytic Domain Of Japanese
Encephalitis Virus Ns3 HelicaseNUCLEOSIDE TRIPHOSPHATASE
At A Resolution 1.8
Length = 459
Score = 31.6 bits (70), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 32/61 (52%), Gaps = 3/61 (4%)
Query: 614 IVLATNIAESSITIDDVVYVVDCGKAKETSYDALNKLACLL--PSWISKASAHQRRGRAG 671
V+ T+I+E V+DC K+ + + + +L PS I+ ASA QRRGR G
Sbjct: 239 FVITTDISEMGANFG-ASRVIDCRKSVKPTILEEGEGRVILGNPSPITSASAAQRRGRVG 297
Query: 672 R 672
R
Sbjct: 298 R 298
>pdb|3RV0|A Chain A, Crystal Structure Of K. Polysporus Dcr1 Without The
C-Terminal Dsrbd
pdb|3RV0|B Chain B, Crystal Structure Of K. Polysporus Dcr1 Without The
C-Terminal Dsrbd
pdb|3RV0|C Chain C, Crystal Structure Of K. Polysporus Dcr1 Without The
C-Terminal Dsrbd
pdb|3RV0|D Chain D, Crystal Structure Of K. Polysporus Dcr1 Without The
C-Terminal Dsrbd
Length = 341
Score = 30.0 bits (66), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 42/85 (49%), Gaps = 3/85 (3%)
Query: 114 EVFDQNEWWGKLEQMKRGEEQEMIIKRKFSRADQQTLADM--AHQLGLHFHAYNKGKALA 171
E D EW +L + K + +M+IK ++ + LA++ ++LG H Y K +
Sbjct: 224 EFLDIKEWLEELSEKKLAKSSQMVIKEPLNKNAKNELAELLQINKLGHKLH-YRKLTEMP 282
Query: 172 VSKVPLPMYRPDLDERHGSTEKELQ 196
+V + + LDE G++ +E +
Sbjct: 283 PFRVEVKIGDILLDEAEGNSIREAE 307
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 0.135 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 27,404,190
Number of Sequences: 62578
Number of extensions: 1062589
Number of successful extensions: 2521
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 2496
Number of HSP's gapped (non-prelim): 16
length of query: 1044
length of database: 14,973,337
effective HSP length: 109
effective length of query: 935
effective length of database: 8,152,335
effective search space: 7622433225
effective search space used: 7622433225
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: 57 (26.6 bits)