Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
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.
Query= Dr_sW_004_P10
(781 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|Q09904|NU124_SCHPO Nucleoporin nup124 (Nuclear pore prot... 42 0.002
sp|P14907|NSP1_YEAST Nucleoporin NSP1 (Nuclear pore protein... 40 0.007
sp|P49793|NUP98_RAT Nuclear pore complex protein Nup98 (Nuc... 39 0.012
sp|P40070|LSM4_YEAST U6 snRNA-associated Sm-like protein LSm4 39 0.021
sp|Q8K3Z9|PO121_MOUSE Nuclear envelope pore membrane protei... 38 0.027
sp|P35658|NU214_HUMAN Nuclear pore complex protein Nup214 (... 38 0.035
sp|P35674|HRPZ_PSESY Harpin hrpZ (HrpZ-Pss protein) (Harpin... 38 0.035
sp|P49686|NUP42_YEAST Nucleoporin NUP42 (Nuclear pore prote... 36 0.13
sp|P52948|NUP98_HUMAN Nuclear pore complex protein Nup98-Nu... 35 0.18
sp|Q15532|SSXT_HUMAN SSXT protein (Synovial sarcoma, transl... 35 0.23
>sp|Q09904|NU124_SCHPO Nucleoporin nup124 (Nuclear pore protein nup124)
Length = 1159
Score = 41.6 bits (96), Expect = 0.002
Identities = 40/136 (29%), Positives = 52/136 (38%), Gaps = 8/136 (5%)
Frame = +2
Query: 26 FGSQTVTTT----APLATIEASKPPVASFSFSAQPASVFGAAXXXXXXXXXXXXPQMNFS 193
FGS T TT AP A+ A P ++FSF A +S+ P F
Sbjct: 936 FGSATSKTTSEGTAPAASASAPAPTTSAFSFGASNSSMNKEENTPMAKDAGDTAPASGFK 995
Query: 194 QPAVNQNPSQFPL-PNNNNQSANMFAGS---QSNAFQFGGSAQAGNSAPFGNSVANSFGG 361
S F NN+ Q A+MF S S+AF FG + +AP G +
Sbjct: 996 --------SGFSFGANNSPQPASMFGTSTPAPSSAFAFGNQSGTNPAAPAGFGGITNTAT 1047
Query: 362 GLGEQTGFNFNSNQPG 409
TGF F + G
Sbjct: 1048 NNPPSTGFTFTPSNAG 1063
>sp|P14907|NSP1_YEAST Nucleoporin NSP1 (Nuclear pore protein NSP1) (Nucleoskeletal-like
protein) (p110)
Length = 823
Score = 40.0 bits (92), Expect = 0.007
Identities = 29/79 (36%), Positives = 37/79 (46%), Gaps = 6/79 (7%)
Frame = +2
Query: 182 MNFSQPAVNQNPSQFPLPNNNNQSANMFAGSQSNAFQFGGSAQA-GNSAPFGNSVANS-- 352
MNF+ P N+ P F NNN+ + N + + + AF G S NSAP + ANS
Sbjct: 1 MNFNTPQQNKTPFSFGTANNNSNTTNQNSSTGAGAFGTGQSTFGFNNSAPNNTNNANSSI 60
Query: 353 ---FGGGLGEQTGFNFNSN 400
FG T F NSN
Sbjct: 61 TPAFGSNNTGNTAFG-NSN 78
>sp|P49793|NUP98_RAT Nuclear pore complex protein Nup98 (Nucleoporin Nup98) (98 kDa
nucleoporin)
Length = 937
Score = 39.3 bits (90), Expect = 0.012
Identities = 33/135 (24%), Positives = 47/135 (34%)
Frame = +2
Query: 2 QSSYQGAIFGSQTVTTTAPLATIEASKPPVASFSFSAQPASVFGAAXXXXXXXXXXXXPQ 181
Q+S G +FG+ T T+T + F A +++FG P
Sbjct: 322 QASQPGGLFGTATNTSTGTAFGTGTGLFGQPNTGFGAVGSTLFGNNKLTTFGTSTTSAPS 381
Query: 182 MNFSQPAVNQNPSQFPLPNNNNQSANMFAGSQSNAFQFGGSAQAGNSAPFGNSVANSFGG 361
+ + N L N N S F + S + FG AG G + FG
Sbjct: 382 FGTTSGGLFGNKPTLTLGTNTNTSNFGFGTNNSGSSIFGSKPAAGT---LGTGLGTGFGT 438
Query: 362 GLGEQTGFNFNSNQP 406
LG F +NQP
Sbjct: 439 ALGAGQASLFGNNQP 453
>sp|P40070|LSM4_YEAST U6 snRNA-associated Sm-like protein LSm4
Length = 187
Score = 38.5 bits (88), Expect = 0.021
Identities = 22/72 (30%), Positives = 32/72 (44%)
Frame = +2
Query: 206 NQNPSQFPLPNNNNQSANMFAGSQSNAFQFGGSAQAGNSAPFGNSVANSFGGGLGEQTGF 385
N N + NNNN ++N SQ+ + S+ NS NS + GLG
Sbjct: 116 NNNRGNYNRRNNNNGNSNRRPYSQNRQYNNSNSSNINNSINSINSNNQNMNNGLGGSVQH 175
Query: 386 NFNSNQPGLFQF 421
+FNS+ P +F
Sbjct: 176 HFNSSSPQKVEF 187
>sp|Q8K3Z9|PO121_MOUSE Nuclear envelope pore membrane protein POM 121 (Pore membrane protein
of 121 kDa)
Length = 1200
Score = 38.1 bits (87), Expect = 0.027
Identities = 39/137 (28%), Positives = 52/137 (37%), Gaps = 2/137 (1%)
Frame = +2
Query: 5 SSYQGAIFGSQTVTTT--APLATIEASKPPVASFSFSAQPASVFGAAXXXXXXXXXXXXP 178
S+ Q A G + +T AP +T A + FSF + S FGAA
Sbjct: 977 SAAQPAFGGLKAAASTFGAPASTQPAFGSTTSVFSFGSATTSGFGAA------------- 1023
Query: 179 QMNFSQPAVNQNPSQFPLPNNNNQSANMFAGSQSNAFQFGGSAQAGNSAPFGNSVANSFG 358
A +Q N+ S+++F S + F FGGSA S FG S
Sbjct: 1024 -------ATAATTTQ---TTNSGSSSSLFGSSAPSPFTFGGSAAPAGSGGFGLSATPGTS 1073
Query: 359 GGLGEQTGFNFNSNQPG 409
G F+F S Q G
Sbjct: 1074 STSGT---FSFGSGQSG 1087
>sp|P35658|NU214_HUMAN Nuclear pore complex protein Nup214 (Nucleoporin Nup214) (214 kDa
nucleoporin) (CAN protein)
Length = 2090
Score = 37.7 bits (86), Expect = 0.035
Identities = 37/133 (27%), Positives = 53/133 (39%), Gaps = 16/133 (12%)
Frame = +2
Query: 20 AIFGSQTVTTTAPLATIEASKPPVASFSFSAQP----------------ASVFGAAXXXX 151
++FG QT +T A+ A+ P V+S FS+ ASVFG +
Sbjct: 1684 SLFGQQTGST----ASTAAATPQVSSSGFSSPAFGTTAPGVFGQTTFGQASVFGQSASSA 1739
Query: 152 XXXXXXXXPQMNFSQPAVNQNPSQFPLPNNNNQSANMFAGSQSNAFQFGGSAQAGNSAPF 331
P + S PA Q S P + + + S S++F FG S+ F
Sbjct: 1740 ASVFSFSQPGFS-SVPAFGQPASSTPTSTSGSVFGAASSTSSSSSFSFGQSSPNTGGGLF 1798
Query: 332 GNSVANSFGGGLG 370
G S A +FG G
Sbjct: 1799 GQSNAPAFGQSPG 1811
Score = 33.5 bits (75), Expect = 0.67
Identities = 36/138 (26%), Positives = 52/138 (37%), Gaps = 18/138 (13%)
Frame = +2
Query: 17 GAIFGSQTVTTTAPLATIEASKPPVASFSFSAQPASVFGAAXXXXXXXXXXXXPQMNFSQ 196
G++FG + TT A+ FS AS FG++ + F Q
Sbjct: 1816 GSVFGGTSAATTT-----------AATSGFSFCQASGFGSSNTGSVFGQAASTGGIVFGQ 1864
Query: 197 PAVNQNPSQFPLPNNNNQSANMFAG---------SQSNAFQ-----FGGSAQAGNSAPFG 334
+ + + S F N + F+G + N F FG +A + S FG
Sbjct: 1865 QSSSSSGSVFG-SGNTGRGGGFFSGLGGKPSQDAANKNPFSSASGGFGSTATSNTSNLFG 1923
Query: 335 NSVANSFGG----GLGEQ 376
NS A +FGG GEQ
Sbjct: 1924 NSGAKTFGGFASSSFGEQ 1941
>sp|P35674|HRPZ_PSESY Harpin hrpZ (HrpZ-Pss protein) (Harpin-Pss)
Length = 341
Score = 37.7 bits (86), Expect = 0.035
Identities = 27/86 (31%), Positives = 41/86 (47%), Gaps = 8/86 (9%)
Frame = +2
Query: 176 PQMNFSQPAVNQNPSQFPLPN-----NNNQSANMFAGSQSNAFQFG---GSAQAGNSAPF 331
P +N ++ NP+QFP P+ N + N G ++ AF+ Q GN
Sbjct: 143 PMLNKIAQFMDDNPAQFPKPDSGSWVNELKEDNFLDGDETAAFRSALDIIGQQLGNQQSD 202
Query: 332 GNSVANSFGGGLGEQTGFNFNSNQPG 409
S+A + GGGLG + F+ NS+ G
Sbjct: 203 AGSLAGT-GGGLGTPSSFSNNSSVMG 227
>sp|P49686|NUP42_YEAST Nucleoporin NUP42 (Nuclear pore protein NUP42)
Length = 430
Score = 35.8 bits (81), Expect = 0.13
Identities = 41/152 (26%), Positives = 65/152 (42%), Gaps = 14/152 (9%)
Frame = +2
Query: 5 SSYQGAIFGSQT---VTTTAPLATIEASKPPVASFSFSAQPASVFGAAXXXXXXXXXXXX 175
S+ + FG+ + +TTT+P +++ + AS + SA FGAA
Sbjct: 163 SNSNNSAFGAASNTPLTTTSPFGSLQQNASQNASSTSSAFGKPTFGAATNTQSPFGTI-- 220
Query: 176 PQMNFSQPAVNQNPSQFPLPNNNNQS--ANMFAGSQSNAFQFGGSAQAGN------SAPF 331
Q + +P N+NN+S +N+ +G+ + + FG + N S+ F
Sbjct: 221 -QNTSTSSGTGVSPFGTFGTNSNNKSPFSNLQSGAGAGSSPFGTTTSKANNNNNVGSSAF 279
Query: 332 GNSVANS-FGGGLGEQTG--FNFNSNQPGLFQ 418
G + S F GG G G N N N G FQ
Sbjct: 280 GTTNNQSPFSGGSGGTFGSASNLNKNTNGNFQ 311
>sp|P52948|NUP98_HUMAN Nuclear pore complex protein Nup98-Nup96 precursor [Contains:
Nuclear pore complex protein Nup98 (Nucleoporin Nup98)
(98 kDa nucleoporin); Nuclear pore complex protein Nup96
(Nucleoporin Nup96) (96 kDa nucleoporin)]
Length = 1729
Score = 35.4 bits (80), Expect = 0.18
Identities = 32/135 (23%), Positives = 45/135 (33%)
Frame = +2
Query: 2 QSSYQGAIFGSQTVTTTAPLATIEASKPPVASFSFSAQPASVFGAAXXXXXXXXXXXXPQ 181
Q+S G +FG+ T T+T + F A +++FG P
Sbjct: 323 QASQPGGLFGTATNTSTGTAFGTGTGLFGQTNTGFGAVGSTLFGNNKLTTFGSSTTSAPS 382
Query: 182 MNFSQPAVNQNPSQFPLPNNNNQSANMFAGSQSNAFQFGGSAQAGNSAPFGNSVANSFGG 361
+ + N L N N S F + S FG G G + FG
Sbjct: 383 FGTTSGGLFGNKPTLTLGTNTNTSNFGFGTNTSGNSIFGSKPAPGT---LGTGLGAGFGT 439
Query: 362 GLGEQTGFNFNSNQP 406
LG F +NQP
Sbjct: 440 ALGAGQASLFGNNQP 454
>sp|Q15532|SSXT_HUMAN SSXT protein (Synovial sarcoma, translocated to X chromosome) (SYT
protein)
Length = 418
Score = 35.0 bits (79), Expect = 0.23
Identities = 25/81 (30%), Positives = 32/81 (39%), Gaps = 6/81 (7%)
Frame = +2
Query: 179 QMNFSQPAVNQNPSQFPLPNN---NNQSANMFAGSQSNAFQFGGSAQAGNSAPFGNSVAN 349
QMN P N P Q P PN N S NM + S + + S + S P N +
Sbjct: 122 QMNGQMPGPNHMPMQGPGPNQLNMTNSSMNMPSSSHGSMGGYNHSVPSSQSMPVQNQMTM 181
Query: 350 SFG---GGLGEQTGFNFNSNQ 403
S G G G + + NQ
Sbjct: 182 SQGQPMGNYGPRPNMSMQPNQ 202
Database: Non-redundant SwissProt sequences
Posted date: Dec 6, 2005 7:40 AM
Number of letters in database: 68,354,980
Number of sequences in database: 184,735
Database: swissprot.01
Posted date: Dec 6, 2005 8:18 AM
Number of letters in database: 66,202,850
Number of sequences in database: 184,431
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 74,829,374
Number of Sequences: 369166
Number of extensions: 1266871
Number of successful extensions: 4282
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 3466
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 4149
length of database: 68,354,980
effective HSP length: 108
effective length of database: 48,403,600
effective search space used: 7308943600
frameshift window, decay const: 40, 0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)