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= psy4476
(266 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|Q92900|RENT1_HUMAN Regulator of nonsense transcripts 1 OS=Homo sapiens GN=UPF1 PE=1
SV=2
Length = 1129
Score = 142 bits (357), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 71/123 (57%), Positives = 86/123 (69%), Gaps = 4/123 (3%)
Query: 36 GPRSRGLRFRIILPVT---EVGLELKSSAGAPTESYHGLFCGPSFWKSTSFDRMQLALRK 92
P +G+ I +P E+ +EL+SS GAP E H F WKSTSFDRMQ AL+
Sbjct: 382 APLWKGIGHVIKVPDNYGDEIAIELRSSVGAPVEVTHN-FQVDFVWKSTSFDRMQSALKT 440
Query: 93 FAVDDQSVSAYIYHRLLGHNVDEVLFRCHLPKHFSAPNLPDLNRSQVYAVKHAIQRPLSL 152
FAVD+ SVS YIYH+LLGH V++V+ +C LPK F+A LPDLN SQVYAVK +QRPLSL
Sbjct: 441 FAVDETSVSGYIYHKLLGHEVEDVIIKCQLPKRFTAQGLPDLNHSQVYAVKTVLQRPLSL 500
Query: 153 IQG 155
IQG
Sbjct: 501 IQG 503
Score = 35.4 bits (80), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 32/64 (50%), Positives = 39/64 (60%), Gaps = 11/64 (17%)
Query: 197 LSQGHLSQGNNSQEITQPYSQVMSQGGGFSLSQADLSQDSLM----MSQLDGMLSQESAY 252
SQG L+QG S ++QP SQ MSQ G LSQ +LSQDS + SQ+D LSQ+S Y
Sbjct: 1060 FSQGALTQGYIS--MSQP-SQ-MSQPG---LSQPELSQDSYLGDEFKSQIDVALSQDSTY 1112
Query: 253 LDHR 256
R
Sbjct: 1113 QGER 1116
>sp|Q9EPU0|RENT1_MOUSE Regulator of nonsense transcripts 1 OS=Mus musculus GN=Upf1 PE=1
SV=2
Length = 1124
Score = 141 bits (356), Expect = 4e-33, Method: Compositional matrix adjust.
Identities = 71/123 (57%), Positives = 86/123 (69%), Gaps = 4/123 (3%)
Query: 36 GPRSRGLRFRIILPVT---EVGLELKSSAGAPTESYHGLFCGPSFWKSTSFDRMQLALRK 92
P +G+ I +P E+ +EL+SS GAP E H F WKSTSFDRMQ AL+
Sbjct: 377 APLWKGIGHVIKVPDNYGDEIAIELRSSVGAPVEVTHN-FQVDFVWKSTSFDRMQSALKT 435
Query: 93 FAVDDQSVSAYIYHRLLGHNVDEVLFRCHLPKHFSAPNLPDLNRSQVYAVKHAIQRPLSL 152
FAVD+ SVS YIYH+LLGH V++V+ +C LPK F+A LPDLN SQVYAVK +QRPLSL
Sbjct: 436 FAVDETSVSGYIYHKLLGHEVEDVVIKCQLPKRFTAQGLPDLNHSQVYAVKTVLQRPLSL 495
Query: 153 IQG 155
IQG
Sbjct: 496 IQG 498
Score = 35.4 bits (80), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 32/64 (50%), Positives = 39/64 (60%), Gaps = 11/64 (17%)
Query: 197 LSQGHLSQGNNSQEITQPYSQVMSQGGGFSLSQADLSQDSLM----MSQLDGMLSQESAY 252
SQG L+QG S ++QP SQ MSQ G LSQ +LSQDS + SQ+D LSQ+S Y
Sbjct: 1055 FSQGALTQGYVS--MSQP-SQ-MSQPG---LSQPELSQDSYLGDEFKSQIDVALSQDSTY 1107
Query: 253 LDHR 256
R
Sbjct: 1108 QGER 1111
>sp|Q98TR3|RENT1_TAKRU Putative regulator of nonsense transcripts 1 OS=Takifugu rubripes
GN=rent1 PE=3 SV=1
Length = 1097
Score = 137 bits (345), Expect = 8e-32, Method: Compositional matrix adjust.
Identities = 69/123 (56%), Positives = 86/123 (69%), Gaps = 4/123 (3%)
Query: 36 GPRSRGLRFRIILPVT---EVGLELKSSAGAPTESYHGLFCGPSFWKSTSFDRMQLALRK 92
P +G+ I +P + E+ +EL++S GAP E H + WKSTSFDRMQ AL+
Sbjct: 353 APLWKGIGHVIKVPDSYGDEIAIELRTSVGAPVEIPHN-YQVDFVWKSTSFDRMQSALKT 411
Query: 93 FAVDDQSVSAYIYHRLLGHNVDEVLFRCHLPKHFSAPNLPDLNRSQVYAVKHAIQRPLSL 152
FAVD+ SVS YIYH+LLGH V++V +C LPK F+A LPDLN SQVYAVK +QRPLSL
Sbjct: 412 FAVDETSVSGYIYHKLLGHEVEDVTIKCQLPKRFTANGLPDLNHSQVYAVKTVLQRPLSL 471
Query: 153 IQG 155
IQG
Sbjct: 472 IQG 474
>sp|Q9VYS3|RENT1_DROME Regulator of nonsense transcripts 1 homolog OS=Drosophila
melanogaster GN=Upf1 PE=1 SV=2
Length = 1180
Score = 131 bits (329), Expect = 6e-30, Method: Compositional matrix adjust.
Identities = 71/108 (65%), Positives = 78/108 (72%), Gaps = 5/108 (4%)
Query: 52 EVGLELKSSAGAPTESYHGLFCGPSFWKSTSFDRMQLALRKFAVDDQSVSAYIYHRLLGH 111
+VGLELKSS AP + F WK TSFDRM AL KFA+D SVS +IY RLLGH
Sbjct: 367 DVGLELKSSTNAPVKCTSN-FTVDFIWKCTSFDRMTRALCKFAIDRNSVSNFIYSRLLGH 425
Query: 112 ----NVDEVLFRCHLPKHFSAPNLPDLNRSQVYAVKHAIQRPLSLIQG 155
+ DEVLFR PK FSAP+LPDLNRSQVYAVKHA+QRPLSLIQG
Sbjct: 426 GRADSNDEVLFRGPQPKLFSAPHLPDLNRSQVYAVKHALQRPLSLIQG 473
Score = 42.7 bits (99), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 34/84 (40%), Positives = 49/84 (58%), Gaps = 7/84 (8%)
Query: 173 GNSANTNRLRNKSNLNHRPSGANKLSQGHLSQGNNSQEITQ---PYSQVMSQGGGFSLSQ 229
G + TN+L KS + +G L+QG S N+ +Q P S M+Q GF+LSQ
Sbjct: 1085 GGNKKTNKL-GKSRVTGGGTGGAPLTQG--SSVCNAAPYSQHPMPLSLQMTQPSGFALSQ 1141
Query: 230 A-DLSQDSLMMSQLDGMLSQESAY 252
+LSQD +SQ+DG+LSQ+ A+
Sbjct: 1142 QPELSQDFGQISQMDGLLSQDVAF 1165
>sp|Q9FJR0|RENT1_ARATH Regulator of nonsense transcripts 1 homolog OS=Arabidopsis thaliana
GN=UPF1 PE=1 SV=2
Length = 1254
Score = 122 bits (305), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 70/141 (49%), Positives = 90/141 (63%), Gaps = 5/141 (3%)
Query: 15 LDAGDELKLAATSYDASTPGSGPRSRGLRFRIILPVTEVGLELKSSAGAPTESYHGLFCG 74
L GDEL+L + DA P +S G ++ EV LEL+++ G P + HG F
Sbjct: 375 LVPGDELRLRYSG-DAVHPSW--QSVGHVIKLTAQ-EEVALELRANQGVPIDVNHG-FSV 429
Query: 75 PSFWKSTSFDRMQLALRKFAVDDQSVSAYIYHRLLGHNVDEVLFRCHLPKHFSAPNLPDL 134
WKSTSFDRMQ A++ FAVD+ SVS YIYH+LLGH V+ + R LP+ F P LP+L
Sbjct: 430 DFVWKSTSFDRMQGAMKNFAVDETSVSGYIYHQLLGHEVEAQMVRNTLPRRFGVPGLPEL 489
Query: 135 NRSQVYAVKHAIQRPLSLIQG 155
N SQV AVK +Q+P+SLIQG
Sbjct: 490 NASQVNAVKSVLQKPISLIQG 510
>sp|Q9HEH1|RENT1_NEUCR Regulator of nonsense transcripts 1 homolog OS=Neurospora crassa
(strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257
/ FGSC 987) GN=2E4.130 PE=3 SV=1
Length = 1093
Score = 114 bits (284), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 65/147 (44%), Positives = 85/147 (57%), Gaps = 13/147 (8%)
Query: 15 LDAGDELKLAATSYDASTPGSGPRSRGLRFRIILP---VTEVGLELKSSA---GAPTESY 68
L GDE++L Y P G+ + I +P EV +EL+ SA PTE
Sbjct: 338 LAVGDEMRL---KYKGEL---RPPWEGVGYVIKIPNNQSDEVEVELRKSANDKSVPTECT 391
Query: 69 HGLFCGPSFWKSTSFDRMQLALRKFAVDDQSVSAYIYHRLLGHNVDEVLFRCHLPKHFSA 128
H F WK+TS+DRMQLA++ FAVD+ SVS YI+H+LLGH V + +PK F
Sbjct: 392 HN-FSADYVWKATSYDRMQLAMKTFAVDEMSVSGYIFHKLLGHEVQVAPTKITMPKKFHV 450
Query: 129 PNLPDLNRSQVYAVKHAIQRPLSLIQG 155
P LP+LN SQ+ A+K + PLSLIQG
Sbjct: 451 PGLPELNASQIAAIKQVLSNPLSLIQG 477
>sp|Q09820|RENT1_SCHPO ATP-dependent helicase upf1 OS=Schizosaccharomyces pombe (strain
972 / ATCC 24843) GN=upf1 PE=3 SV=2
Length = 925
Score = 111 bits (277), Expect = 6e-24, Method: Compositional matrix adjust.
Identities = 67/142 (47%), Positives = 82/142 (57%), Gaps = 6/142 (4%)
Query: 15 LDAGDELKLAATSYDASTPGSGPRSRGLRFRIILPVT-EVGLELKSSAGAPTESYHGLFC 73
L GDE+KL + P S S G +I V+ EVGLELK S P E H F
Sbjct: 278 LAIGDEMKLTYEG-ELRAPWS---STGYVIKIPNNVSDEVGLELKRSDKVPIECTHN-FS 332
Query: 74 GPSFWKSTSFDRMQLALRKFAVDDQSVSAYIYHRLLGHNVDEVLFRCHLPKHFSAPNLPD 133
WKSTSFDRMQ ALR FA D +S+++YH+LLGH++ + LP S PNLP
Sbjct: 333 VDYVWKSTSFDRMQTALRLFATDGSRLSSFLYHKLLGHDIPPSFLKPKLPSDLSVPNLPK 392
Query: 134 LNRSQVYAVKHAIQRPLSLIQG 155
LN SQ AV+ + +PLSLIQG
Sbjct: 393 LNASQSEAVRAVLSKPLSLIQG 414
>sp|P30771|NAM7_YEAST ATP-dependent helicase NAM7 OS=Saccharomyces cerevisiae (strain
ATCC 204508 / S288c) GN=NAM7 PE=1 SV=1
Length = 971
Score = 109 bits (272), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 53/101 (52%), Positives = 65/101 (64%)
Query: 55 LELKSSAGAPTESYHGLFCGPSFWKSTSFDRMQLALRKFAVDDQSVSAYIYHRLLGHNVD 114
LELK S P F WK TS+DRMQ AL+KFA+D +S+S Y+Y+++LGH V
Sbjct: 330 LELKPSKTPPPTHLTTGFTAEFIWKGTSYDRMQDALKKFAIDKKSISGYLYYKILGHQVV 389
Query: 115 EVLFRCHLPKHFSAPNLPDLNRSQVYAVKHAIQRPLSLIQG 155
++ F LPK FS PN LN SQ AV H +QRPLSLIQG
Sbjct: 390 DISFDVPLPKEFSIPNFAQLNSSQSNAVSHVLQRPLSLIQG 430
>sp|O76512|RENT1_CAEEL Regulator of nonsense transcripts 1 OS=Caenorhabditis elegans
GN=smg-2 PE=1 SV=1
Length = 1069
Score = 90.5 bits (223), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 52/144 (36%), Positives = 77/144 (53%), Gaps = 8/144 (5%)
Query: 15 LDAGDELKLAATSYDASTPGSGPRSRGLRFRIILPVT---EVGLELKSSAGAPTESYHGL 71
L GDEL+L + + GS G F+I P EVG+E++ + +
Sbjct: 329 LAKGDELRL---KHSQTVDGSEWTKIGSVFKI--PDNHGDEVGIEIRGAVDKSVMESRIM 383
Query: 72 FCGPSFWKSTSFDRMQLALRKFAVDDQSVSAYIYHRLLGHNVDEVLFRCHLPKHFSAPNL 131
F W +T+F+R AL D +++S Y+Y +LLGH +E++ + LP+ S L
Sbjct: 384 FTVDVVWNATTFERQYKALAALLNDSKAISPYLYQKLLGHPAEEMMLKFDLPRRLSVAGL 443
Query: 132 PDLNRSQVYAVKHAIQRPLSLIQG 155
P+LN SQ+ AVK + RPLSLIQG
Sbjct: 444 PELNSSQMQAVKQVLTRPLSLIQG 467
>sp|Q54I89|RENT1_DICDI Regulator of nonsense transcripts 1 OS=Dictyostelium discoideum
GN=upf1 PE=3 SV=1
Length = 1331
Score = 76.6 bits (187), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 56/157 (35%), Positives = 78/157 (49%), Gaps = 12/157 (7%)
Query: 3 LPVGHTCVELHALDAGDELKLAATSYDASTPGSGPRSRGLRFRIILPVTEVGLELKSSAG 62
P + +E + GDELKL + +ST G R I + LE KS
Sbjct: 410 FPFSRSDLEFKVV-PGDELKL---QFISSTGGVIEWEDTGRVIHIDDENLLSLETKSRCS 465
Query: 63 ---APTESYHGLFCGPSFWKSTSFDRMQLALRKFAVDDQSVSAYIYHRLLGH-NVDEVLF 118
P SY W+STS +R+ A++ FA+ +Q++S+Y+YH LLGH ++
Sbjct: 466 FDSGPKGSYRMEMV----WRSTSSERILSAMKSFAIKEQALSSYLYHALLGHPDIPPAPL 521
Query: 119 RCHLPKHFSAPNLPDLNRSQVYAVKHAIQRPLSLIQG 155
LP +F NLP LN SQ+ AV + PLSLIQG
Sbjct: 522 DIQLPTNFHLKNLPRLNESQISAVNKVLTAPLSLIQG 558
Database: swissprot
Posted date: Mar 23, 2013 2:32 AM
Number of letters in database: 191,569,459
Number of sequences in database: 539,616
Lambda K H
0.315 0.131 0.386
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 101,302,697
Number of Sequences: 539616
Number of extensions: 4101534
Number of successful extensions: 16563
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 27
Number of HSP's successfully gapped in prelim test: 40
Number of HSP's that attempted gapping in prelim test: 15789
Number of HSP's gapped (non-prelim): 708
length of query: 266
length of database: 191,569,459
effective HSP length: 115
effective length of query: 151
effective length of database: 129,513,619
effective search space: 19556556469
effective search space used: 19556556469
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 60 (27.7 bits)