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= 015049
(414 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3RC8|A Chain A, Human Mitochondrial Helicase Suv3 In Complex With Short
Rna Fragment
Length = 677
Score = 301 bits (770), Expect = 5e-82, Method: Compositional matrix adjust.
Identities = 159/379 (41%), Positives = 237/379 (62%), Gaps = 10/379 (2%)
Query: 1 MADVVSDYDCAVIDEIQMLGCKTRGFSFTRALLGICANELHLCGDPAAVPLIQQILQVTG 60
M V + Y+ AVIDEIQM+ RG+++TRALLG+CA E+HLCG+PAA+ L+ +++ TG
Sbjct: 233 MCSVTTPYEVAVIDEIQMIRDPARGWAWTRALLGLCAEEVHLCGEPAAIDLVMELMYTTG 292
Query: 61 DDVKVQSYERLSPLVPLNVPLGSFSNIQTGDCIVTFSRHAIYRLKKAIESRGKHLCSIVY 120
++V+V+ Y+RL+P+ L+ L S N++ GDCIV FS++ IY + + IE RG +++Y
Sbjct: 293 EEVEVRDYKRLTPISVLDHALESLDNLRPGDCIVCFSKNDIYSVSRQIEIRGLE-SAVIY 351
Query: 121 GSLPPETRTRQATRFNDASSEFDVLVASDAIGMGLNLNISRIIFSTMKK-----FDGVEL 175
GSLPP T+ QA +FND + +LVA+DAIGMGLNL+I RIIF ++ K EL
Sbjct: 352 GSLPPGTKLAQAKKFNDPNDPCKILVATDAIGMGLNLSIRRIIFYSLIKPSINEKGEREL 411
Query: 176 RDLTVPEVKQIAGRAGRYGSKFPVGEVTCLDSEDLPLLHKSLLEPSPMLESAGLFPNFDL 235
+T + QIAGRAGR+ S+F GEVT ++ EDL LL + L P + +AGL P +
Sbjct: 412 EPITTSQALQIAGRAGRFSSRFKEGEVTTMNHEDLSLLKEILKRPVDPIRAAGLHPTAEQ 471
Query: 236 IYMYSRLHPDSSLYGILEHFLENAKLSENYFFANCEEVLKVATVIDQLPLRLHEKYLFCI 295
I M++ PD++L +++ F++ +++ YF N ++ A +I +PL L +Y+FC
Sbjct: 472 IEMFAYHLPDATLSNLIDIFVDFSQVDGQYFVCNMDDFKFSAELIQHIPLSLRVRYVFCT 531
Query: 296 SPVDMNDDISSQGLTQFATNYSKK---GIVQLREIFTPGTLQVPKTQAALRELESIHKVL 352
+P++ L QFA YS+ LR + L PK L +LE++H VL
Sbjct: 532 APINKKQPFVCSSLLQFARQYSRNEPLTFAWLRR-YIKWPLLPPKNIKDLMDLEAVHDVL 590
Query: 353 DLYVWLSFRLEESFPDREL 371
DLY+WLS+R + FPD L
Sbjct: 591 DLYLWLSYRFMDMFPDASL 609
>pdb|3RC3|A Chain A, Human Mitochondrial Helicase Suv3
Length = 677
Score = 290 bits (741), Expect = 1e-78, Method: Compositional matrix adjust.
Identities = 155/376 (41%), Positives = 231/376 (61%), Gaps = 10/376 (2%)
Query: 4 VVSDYDCAVIDEIQMLGCKTRGFSFTRALLGICANELHLCGDPAAVPLIQQILQVTGDDV 63
V + Y+ AVIDEIQ + RG+++TRALLG+CA E+HLCG+PAA+ L+ ++ TG++V
Sbjct: 236 VTTPYEVAVIDEIQXIRDPARGWAWTRALLGLCAEEVHLCGEPAAIDLVXELXYTTGEEV 295
Query: 64 KVQSYERLSPLVPLNVPLGSFSNIQTGDCIVTFSRHAIYRLKKAIESRGKHLCSIVYGSL 123
+V+ Y+RL+P+ L+ L S N++ GDCIV FS++ IY + + IE RG +++YGSL
Sbjct: 296 EVRDYKRLTPISVLDHALESLDNLRPGDCIVCFSKNDIYSVSRQIEIRGLE-SAVIYGSL 354
Query: 124 PPETRTRQATRFNDASSEFDVLVASDAIGMGLNLNISRIIFSTMKK-----FDGVELRDL 178
PP T+ QA +FND + +LVA+DAIG GLNL+I RIIF ++ K EL +
Sbjct: 355 PPGTKLAQAKKFNDPNDPCKILVATDAIGXGLNLSIRRIIFYSLIKPSINEKGERELEPI 414
Query: 179 TVPEVKQIAGRAGRYGSKFPVGEVTCLDSEDLPLLHKSLLEPSPMLESAGLFPNFDLIYM 238
T + QIAGRAGR+ S+F GEVT + EDL LL + L P + +AGL P + I
Sbjct: 415 TTSQALQIAGRAGRFSSRFKEGEVTTXNHEDLSLLKEILKRPVDPIRAAGLHPTAEQIEX 474
Query: 239 YSRLHPDSSLYGILEHFLENAKLSENYFFANCEEVLKVATVIDQLPLRLHEKYLFCISPV 298
++ PD++L +++ F++ +++ YF N ++ A +I +PL L +Y+FC +P+
Sbjct: 475 FAYHLPDATLSNLIDIFVDFSQVDGQYFVCNXDDFKFSAELIQHIPLSLRVRYVFCTAPI 534
Query: 299 DMNDDISSQGLTQFATNYSKK---GIVQLREIFTPGTLQVPKTQAALRELESIHKVLDLY 355
+ L QFA YS+ LR + L PK L +LE++H VLDLY
Sbjct: 535 NKKQPFVCSSLLQFARQYSRNEPLTFAWLRR-YIKWPLLPPKNIKDLXDLEAVHDVLDLY 593
Query: 356 VWLSFRLEESFPDREL 371
+WLS+R + FPD L
Sbjct: 594 LWLSYRFXDXFPDASL 609
>pdb|4A4Z|A Chain A, Crystal Structure Of The S. Cerevisiae Dexh Helicase Ski2
Bound To Amppnp
Length = 997
Score = 56.2 bits (134), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 41/121 (33%), Positives = 61/121 (50%), Gaps = 11/121 (9%)
Query: 83 SFSNIQTGDCIVTFSRHAIYRLKKA-------IESRG--KHLCSIVYGSLPPETRTRQAT 133
+F N + I F +I RLKK +++R + ++ +G L P +
Sbjct: 360 NFCNNKEKSQIHMFIEKSITRLKKEDRDLPQILKTRSLLERGIAVHHGGLLPIVKELIEI 419
Query: 134 RFNDASSEFDVLVASDAIGMGLNLNISRIIFSTMKKFDGVELRDLTVPEVKQIAGRAGRY 193
F+ VL A++ MGLNL +IFS+++K DG LR+LT E Q+AGRAGR
Sbjct: 420 LFSKGF--IKVLFATETFAMGLNLPTRTVIFSSIRKHDGNGLRELTPGEFTQMAGRAGRR 477
Query: 194 G 194
G
Sbjct: 478 G 478
>pdb|2XGJ|A Chain A, Structure Of Mtr4, A Dexh Helicase Involved In Nuclear Rna
Processing And Surveillance
pdb|2XGJ|B Chain B, Structure Of Mtr4, A Dexh Helicase Involved In Nuclear Rna
Processing And Surveillance
Length = 1010
Score = 46.2 bits (108), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 35/51 (68%)
Query: 144 VLVASDAIGMGLNLNISRIIFSTMKKFDGVELRDLTVPEVKQIAGRAGRYG 194
VL A++ +GLN+ ++F++++K+DG + R ++ E Q++GRAGR G
Sbjct: 435 VLFATETFSIGLNMPAKTVVFTSVRKWDGQQFRWVSGGEYIQMSGRAGRRG 485
>pdb|3L9O|A Chain A, Crystal Structure Of Mtr4, A Co-Factor Of The Nuclear
Exosome
Length = 1108
Score = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 35/51 (68%)
Query: 144 VLVASDAIGMGLNLNISRIIFSTMKKFDGVELRDLTVPEVKQIAGRAGRYG 194
VL A++ +GLN+ ++F++++K+DG + R ++ E Q++GRAGR G
Sbjct: 533 VLFATETFSIGLNMPAKTVVFTSVRKWDGQQFRWVSGGEYIQMSGRAGRRG 583
>pdb|2P6R|A Chain A, Crystal Structure Of Superfamily 2 Helicase Hel308 In
Complex With Unwound Dna
pdb|2P6U|A Chain A, Apo Structure Of The Hel308 Superfamily 2 Helicase
Length = 702
Score = 45.1 bits (105), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 23/51 (45%), Positives = 33/51 (64%), Gaps = 1/51 (1%)
Query: 144 VLVASDAIGMGLNLNISRIIFSTMKKFDGVELRDLTVPEVKQIAGRAGRYG 194
V+VA+ + G+NL R+I ++ +FDG R + V E KQ+AGRAGR G
Sbjct: 325 VVVATPTLAAGVNLPARRVIVRSLYRFDGYSKR-IKVSEYKQMAGRAGRPG 374
>pdb|2FFI|A Chain A, Crystal Structure Of Putative 2-pyrone-4,6-dicarboxylic
Acid Hydrolase From Pseudomonas Putida, Northeast
Structural Genomics Target Ppr23.
pdb|2FFI|B Chain B, Crystal Structure Of Putative 2-pyrone-4,6-dicarboxylic
Acid Hydrolase From Pseudomonas Putida, Northeast
Structural Genomics Target Ppr23
Length = 288
Score = 33.1 bits (74), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 33/134 (24%), Positives = 55/134 (41%), Gaps = 17/134 (12%)
Query: 47 AAVPLIQQILQVTGDDVKVQSYERLSPLVPLNVPLGSFSNIQT--GDCIVTFSRHAIYRL 104
A +P++ + LQ G D+ + + R L P F+ + T G V IYRL
Sbjct: 147 ADIPVLVRALQPYGLDIVIDHFGRPDARRGLGQP--GFAELLTLSGRGKVWVKVSGIYRL 204
Query: 105 KKAIESR----GKHLCSI---------VYGSLPPETRTRQATRFNDASSEFDVLVASDAI 151
+ + E + LC++ +GS P T+ F A +F+ L S +
Sbjct: 205 QGSPEENLAFARQALCALEAHYGAERLXWGSDWPHTQHESEVSFGSAVEQFEALGCSAQL 264
Query: 152 GMGLNLNISRIIFS 165
L L+ +R +F
Sbjct: 265 RQALLLDTARALFG 278
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 32.7 bits (73), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 40/78 (51%), Gaps = 6/78 (7%)
Query: 144 VLVASDAIGMGLNLNISRIIFSTMKKFD---GVELRDLTVPEVKQIAGRAGRYGSKFPVG 200
V+VA+ + G+NL +I + +F+ ++ + E KQ++GRAGR G +G
Sbjct: 341 VIVATPTLAAGVNLPARTVIIGDIYRFNKKIAGYYDEIPIMEYKQMSGRAGRPGFD-QIG 399
Query: 201 E--VTCLDSEDLPLLHKS 216
E V D ED+ + K
Sbjct: 400 ESIVVVRDKEDVDRVFKK 417
>pdb|2ZJ2|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 1
pdb|2ZJ5|A Chain A, Archaeal Dna Helicase Hjm Complexed With Adp In Form 1
pdb|2ZJ8|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 2
pdb|2ZJA|A Chain A, Archaeal Dna Helicase Hjm Complexed With Amppcp In Form 2
Length = 720
Score = 32.0 bits (71), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 35/68 (51%), Gaps = 3/68 (4%)
Query: 145 LVASDAIGMGLNLNISRIIFSTMKKFDGVELRDLTVPEVKQIAGRAGRYGSKF-PVGEVT 203
+VA+ + G+N R+I + ++ + + + EV Q+ GRAGR K+ VGE
Sbjct: 324 VVATPTLSAGINTPAFRVIIRDIWRYSDFGMERIPIIEVHQMLGRAGR--PKYDEVGEGI 381
Query: 204 CLDSEDLP 211
+ + D P
Sbjct: 382 IVSTSDDP 389
>pdb|2QZX|A Chain A, Secreted Aspartic Proteinase (Sap) 5 From Candida Albicans
pdb|2QZX|B Chain B, Secreted Aspartic Proteinase (Sap) 5 From Candida Albicans
Length = 342
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 22/89 (24%), Positives = 35/89 (39%), Gaps = 12/89 (13%)
Query: 124 PPETRTRQATRFNDASSEFDVLVASDAIGMGLNLNISRIIFSTMKKFDGVELRDLTVPEV 183
P +RT Q + ++ FD+ + G ++ GV +RD V
Sbjct: 67 PASSRTSQ-----NLNTRFDIKYGDGSYAKGK-------LYKDTVGIGGVSVRDQLFANV 114
Query: 184 KQIAGRAGRYGSKFPVGEVTCLDSEDLPL 212
+ R G G F GE T D ++LP+
Sbjct: 115 WSTSARKGILGIGFQSGEATEFDYDNLPI 143
>pdb|3MAW|A Chain A, Structure Of The Newcastle Disease Virus F Protein In The
Po Conformation
pdb|3MAW|B Chain B, Structure Of The Newcastle Disease Virus F Protein In The
Po Conformation
Length = 483
Score = 29.6 bits (65), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 34/154 (22%), Positives = 69/154 (44%), Gaps = 13/154 (8%)
Query: 134 RFNDASSEFDVLVASDAIGMGLNLNISRIIFSTMKKFDGVELRDLTVPEVKQIAGRAGRY 193
+FN+ + E D + + +G+ LNL ++ + + L LT+ + +AG Y
Sbjct: 158 QFNNTAQELDCIKITQQVGVELNLYLTELTTVFGPQITSPALTQLTIQALYNLAGGNMDY 217
Query: 194 -GSKFPVGEVTCLDSEDLPLLHKSLLEPSPMLESAGLFPNFDLIYMYSRLHPDSSLYGIL 252
+K VG +++ L+ L+ +P+L + L+ + L +L +
Sbjct: 218 LLTKLGVG-----NNQLSSLIGSGLITGNPILYDS----QTQLLGIQVTLPSVGNLNNMR 268
Query: 253 EHFLENAKLSENYFFANC---EEVLKVATVIDQL 283
+LE +S FA+ + V +V +VI++L
Sbjct: 269 ATYLETLSVSTTKGFASALVPKVVTQVGSVIEEL 302
>pdb|2R3A|A Chain A, Methyltransferase Domain Of Human Suppressor Of
Variegation 3-9 Homolog 2
Length = 300
Score = 29.3 bits (64), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 38/84 (45%), Gaps = 11/84 (13%)
Query: 223 MLESAGLFPNFDLIYMYSRLHPDSSLYGILEHFLENAKLSENYFFANCEEVLKVATV-ID 281
++ G+ FDL Y D++ YG + HF+ ++ C+ L+V V ID
Sbjct: 186 FYDNKGITYLFDLDYESDEFTVDAARYGNVSHFVNHS----------CDPNLQVFNVFID 235
Query: 282 QLPLRLHEKYLFCISPVDMNDDIS 305
L RL LF ++ ++++
Sbjct: 236 NLDTRLPRIALFSTRTINAGEELT 259
>pdb|1G5G|A Chain A, Fragment Of Fusion Protein From Newcastle Disease Virus
pdb|1G5G|B Chain B, Fragment Of Fusion Protein From Newcastle Disease Virus
pdb|1G5G|C Chain C, Fragment Of Fusion Protein From Newcastle Disease Virus
pdb|1G5G|D Chain D, Fragment Of Fusion Protein From Newcastle Disease Virus
pdb|1G5G|E Chain E, Fragment Of Fusion Protein From Newcastle Disease Virus
pdb|1G5G|F Chain F, Fragment Of Fusion Protein From Newcastle Disease Virus
Length = 481
Score = 28.9 bits (63), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 34/154 (22%), Positives = 68/154 (44%), Gaps = 13/154 (8%)
Query: 134 RFNDASSEFDVLVASDAIGMGLNLNISRIIFSTMKKFDGVELRDLTVPEVKQIAGRAGRY 193
+FN + E D + + +G+ LNL ++ + + L LT+ + +AG Y
Sbjct: 158 QFNKTAQELDCIKITQQVGVELNLYLTELTTVFGPQITSPALTQLTIQALYNLAGGNMDY 217
Query: 194 -GSKFPVGEVTCLDSEDLPLLHKSLLEPSPMLESAGLFPNFDLIYMYSRLHPDSSLYGIL 252
+K VG +++ L+ L+ +P+L + L+ + L +L +
Sbjct: 218 LLTKLGVG-----NNQLSSLISSGLITGNPILYDS----QTQLLGIQVTLPSVGNLNNMR 268
Query: 253 EHFLENAKLSENYFFANC---EEVLKVATVIDQL 283
+LE +S FA+ + V +V +VI++L
Sbjct: 269 ATYLETLSVSTTKGFASALVPKVVTQVGSVIEEL 302
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
0.322 0.138 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,561,770
Number of Sequences: 62578
Number of extensions: 477229
Number of successful extensions: 1250
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1232
Number of HSP's gapped (non-prelim): 17
length of query: 414
length of database: 14,973,337
effective HSP length: 101
effective length of query: 313
effective length of database: 8,652,959
effective search space: 2708376167
effective search space used: 2708376167
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: 53 (25.0 bits)