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_001_L03
(842 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|P47234|LACY_CITFR Lactose permease (Lactose-proton symport) 39 0.023
sp|P46907|NARK_BACSU Nitrite extrusion protein (Nitrite fac... 38 0.031
sp|P77249|SFMC_ECOLI Chaperone protein sfmC precursor 32 2.2
sp|P45108|CVPA_HAEIN Colicin V production protein homolog 31 3.7
sp|Q5U820|CFTR_CANFA Cystic fibrosis transmembrane conducta... 31 3.7
sp|Q6BN11|MCH1_DEBHA Probable transporter MCH1 31 4.9
sp|P46537|CARB_BACCL Carbamoyl-phosphate synthase pyrimidin... 30 6.4
sp|P06428|VE6_HPV08 Protein E6 30 6.4
sp|Q92C68|Y1323_LISIN Hypothetical UPF0078 membrane protein... 30 6.4
sp|Q9HFW3|TRF5_ASHGO Topoisomerase 1-related protein TRF5 30 6.4
>sp|P47234|LACY_CITFR Lactose permease (Lactose-proton symport)
Length = 416
Score = 38.5 bits (88), Expect = 0.023
Identities = 20/87 (22%), Positives = 38/87 (43%), Gaps = 2/87 (2%)
Frame = +3
Query: 576 FWIISGICVAYYVAVFPFVSLSKVFLIQKYGLNGADAALITSLLYIVSAACSPVMGFLID 755
FW+ Y+ + + ++L + ++ D +I + + + S P+ G L D
Sbjct: 9 FWMFGFFFFFYFFIMGAYFPFFPIWLHEVNHISKGDTGIIFACISLFSLLFQPIFGLLSD 68
Query: 756 LTG--RNLFWVLTGTLATLGSHALYAF 830
G ++L WV+TG L +Y F
Sbjct: 69 KLGLRKHLLWVITGMLVMFAPFFIYVF 95
>sp|P46907|NARK_BACSU Nitrite extrusion protein (Nitrite facilitator)
Length = 395
Score = 38.1 bits (87), Expect = 0.031
Identities = 26/73 (35%), Positives = 33/73 (45%), Gaps = 2/73 (2%)
Frame = +3
Query: 579 WIISGICVAYYVAVFPFVSLSKVFLIQKYGLNGADAALITSLLYIVSAACSPVMGFLIDL 758
W +S + A F FL++ +GLN ADA L T+ VS P GFL D
Sbjct: 205 WFLSLFYFITFGAFVAFTIYLPNFLVEHFGLNPADAGLRTAGFIAVSTLLRPAGGFLADK 264
Query: 759 TG--RNLFWVLTG 791
R L +V TG
Sbjct: 265 MSPLRILMFVFTG 277
>sp|P77249|SFMC_ECOLI Chaperone protein sfmC precursor
Length = 230
Score = 32.0 bits (71), Expect = 2.2
Identities = 12/36 (33%), Positives = 24/36 (66%)
Frame = +3
Query: 315 LSMSRIGSTVNLNSMTPIYESLSEINIGHKRLGTAL 422
L SR G+ +N+++ +P Y +L + +G ++LG A+
Sbjct: 156 LKFSRSGNYINVHNPSPFYVTLVNLQVGSQKLGNAM 191
>sp|P45108|CVPA_HAEIN Colicin V production protein homolog
Length = 163
Score = 31.2 bits (69), Expect = 3.7
Identities = 23/82 (28%), Positives = 40/82 (48%)
Frame = +3
Query: 567 SVAFWIISGICVAYYVAVFPFVSLSKVFLIQKYGLNGADAALITSLLYIVSAACSPVMGF 746
S+ WI++ I + + +P+++ + Y NG A++ L IV A + V+
Sbjct: 28 SLGSWIVAFIVASQF---YPYLAAYLTQIESMYIRNGTAIAILFVLTLIVGAIVNYVISQ 84
Query: 747 LIDLTGRNLFWVLTGTLATLGS 812
L+D TG L+GT LG+
Sbjct: 85 LVDKTG------LSGTDRVLGA 100
>sp|Q5U820|CFTR_CANFA Cystic fibrosis transmembrane conductance regulator (CFTR)
(cAMP-dependent chloride channel)
Length = 1483
Score = 31.2 bits (69), Expect = 3.7
Identities = 32/115 (27%), Positives = 51/115 (44%), Gaps = 5/115 (4%)
Frame = +3
Query: 468 VLAMFDRRAERILQRNKKNSEDEKISLGDIRHFSVAFWIISGICVAYYVAVFPFVSLSKV 647
V A ++ +L++ K+NS D KIS GD F F ++ V ++ K+
Sbjct: 397 VTAFWEEGFGELLEKAKENSNDRKISNGDNSLFFSNFSLLG-------TPVLKDINF-KI 448
Query: 648 FLIQKYGLNGADAALITSLLYIVSAACSPVMGFLIDLTGRNLF-----WVLTGTL 797
Q + G+ A TSLL ++ P G I +GR F W++ GT+
Sbjct: 449 ERGQLLAVAGSTGAGKTSLLMMIMGELEPSEG-KIKHSGRISFCSQFSWIMPGTI 502
>sp|Q6BN11|MCH1_DEBHA Probable transporter MCH1
Length = 486
Score = 30.8 bits (68), Expect = 4.9
Identities = 17/66 (25%), Positives = 32/66 (48%), Gaps = 8/66 (12%)
Frame = +3
Query: 600 VAYYVAVFPFVSLSKVFLI--------QKYGLNGADAALITSLLYIVSAACSPVMGFLID 755
+++++++F ++ + L + YG+N I SL I C PV+G+L D
Sbjct: 31 ISFFISLFSCLTSGSIMLFSLFSSSLHELYGINYLHINFIASLSAIGMYLCLPVLGYLAD 90
Query: 756 LTGRNL 773
G +L
Sbjct: 91 CYGPSL 96
>sp|P46537|CARB_BACCL Carbamoyl-phosphate synthase pyrimidine-specific large chain
(Carbamoyl-phosphate synthetase ammonia chain)
Length = 1065
Score = 30.4 bits (67), Expect = 6.4
Identities = 13/43 (30%), Positives = 24/43 (55%)
Frame = -3
Query: 681 LLRLNHIFGSKILSIVKQRGKLQHNKQHKFQILSKMPQKNDEY 553
L+R +++ G + + IV RG+L H +H ++ + P D Y
Sbjct: 705 LVRPSYVLGGRAMEIVYNRGELLHYMEHAVRVNPQHPVLVDRY 747
>sp|P06428|VE6_HPV08 Protein E6
Length = 155
Score = 30.4 bits (67), Expect = 6.4
Identities = 14/43 (32%), Positives = 22/43 (51%), Gaps = 3/43 (6%)
Frame = +2
Query: 668 FKRSRCCI---NYKFTLYCFCCLQSSNGFSH*SYWKKFILGAD 787
F + R C+ NY T C CC ++ F Y+++ +LG D
Sbjct: 54 FDKKRLCLIWKNYVVTACCRCCCVATATFEFNEYYEQTVLGRD 96
>sp|Q92C68|Y1323_LISIN Hypothetical UPF0078 membrane protein lin1323
Length = 198
Score = 30.4 bits (67), Expect = 6.4
Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 1/52 (1%)
Frame = +3
Query: 675 GADAALITSLLYIVSAACSPVMGFLIDLTGRNLFWVLTGTLATLG-SHALYA 827
G A I +++ I+ + ++ F L + FW+LTG A +G S L+A
Sbjct: 51 GVKAGSIVTVMDILKGTVATLLPFFFQLNVNHHFWLLTGAFAIIGHSFPLFA 102
>sp|Q9HFW3|TRF5_ASHGO Topoisomerase 1-related protein TRF5
Length = 626
Score = 30.4 bits (67), Expect = 6.4
Identities = 15/41 (36%), Positives = 25/41 (60%), Gaps = 1/41 (2%)
Frame = -3
Query: 666 HIFGSKIL-SIVKQRGKLQHNKQHKFQILSKMPQKNDEYHQ 547
H G IL +++K RG + K + I++K Q+N+E+HQ
Sbjct: 485 HRVGKSILGNVIKYRGAKRDFKDERALIVNKAIQENEEFHQ 525
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: 94,374,464
Number of Sequences: 369166
Number of extensions: 1843029
Number of successful extensions: 5549
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 5354
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): 5547
length of database: 68,354,980
effective HSP length: 109
effective length of database: 48,218,865
effective search space used: 8245425915
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)