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_025_N17-2
(439 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|Q8R081|HNRPL_MOUSE Heterogeneous nuclear ribonucleoprote... 52 7e-07
sp|P14866|HNRPL_HUMAN Heterogeneous nuclear ribonucleoprote... 51 1e-06
sp|Q8WVV9|HNRLL_HUMAN Heterogeneous nuclear ribonucleoprote... 42 6e-04
sp|Q921F4|HNRLL_MOUSE Heterogeneous nuclear ribonucleoprote... 41 0.001
sp|P30397|ROAA_EUGGR Ribosomal operon-associated A protein ... 31 1.3
sp|P07540|LYS_BPPZA Lysozyme (Lysis protein) (Muramidase) (... 30 3.0
sp|P11187|LYS_BPPH2 Lysozyme (Lysis protein) (Muramidase) (... 30 3.0
sp|P57175|FLIF_BUCAI Flagellar M-ring protein 29 3.9
sp|P59653|COMA_STRR6 Transport/processing ATP-binding prote... 29 5.1
sp|Q03727|COMA_STRPN Transport/processing ATP-binding prote... 29 5.1
>sp|Q8R081|HNRPL_MOUSE Heterogeneous nuclear ribonucleoprotein L (hnRNP L)
Length = 555
Score = 51.6 bits (122), Expect = 7e-07
Identities = 30/83 (36%), Positives = 48/83 (57%)
Frame = +3
Query: 3 FFNVPSTFTAEEIADVFISAKVKDPSQVVIFPRKNNSQRGSLVTGLIEFDTISEAIEGVV 182
FFN P T E ++ VK P+ V +F K S+R S +GL+E+D+ S+A+E +
Sbjct: 471 FFNAPLEVTEENFFEICDELGVKRPTSVKVFSGK--SERSS--SGLLEWDSKSDALETLG 526
Query: 183 MVNHTRLLLPQVSHPFHIKLSFS 251
+NH ++ P +P+ +KL FS
Sbjct: 527 FLNHYQMKNPNGPYPYTLKLCFS 549
>sp|P14866|HNRPL_HUMAN Heterogeneous nuclear ribonucleoprotein L (hnRNP L)
Length = 558
Score = 51.2 bits (121), Expect = 1e-06
Identities = 30/83 (36%), Positives = 48/83 (57%)
Frame = +3
Query: 3 FFNVPSTFTAEEIADVFISAKVKDPSQVVIFPRKNNSQRGSLVTGLIEFDTISEAIEGVV 182
FFN P T E ++ VK PS V +F K S+R S +GL+E+++ S+A+E +
Sbjct: 474 FFNAPLEVTEENFFEICDELGVKRPSSVKVFSGK--SERSS--SGLLEWESKSDALETLG 529
Query: 183 MVNHTRLLLPQVSHPFHIKLSFS 251
+NH ++ P +P+ +KL FS
Sbjct: 530 FLNHYQMKNPNGPYPYTLKLCFS 552
>sp|Q8WVV9|HNRLL_HUMAN Heterogeneous nuclear ribonucleoprotein L-like (Stromal
RNA-regulating factor) (BLOCK24 protein)
Length = 542
Score = 42.0 bits (97), Expect = 6e-04
Identities = 22/83 (26%), Positives = 47/83 (56%)
Frame = +3
Query: 3 FFNVPSTFTAEEIADVFISAKVKDPSQVVIFPRKNNSQRGSLVTGLIEFDTISEAIEGVV 182
++NVP T E + +V + +F K +++ ++GL+E++ ++A+E +
Sbjct: 458 YYNVPLCVTEETFTKLCNDHEVLTFIKYKVFDAKPSAKT---LSGLLEWECKTDAVEALT 514
Query: 183 MVNHTRLLLPQVSHPFHIKLSFS 251
+NH ++ +P S+P+ +KL FS
Sbjct: 515 ALNHYQIRVPNGSNPYTLKLCFS 537
>sp|Q921F4|HNRLL_MOUSE Heterogeneous nuclear ribonucleoprotein L-like
Length = 591
Score = 40.8 bits (94), Expect = 0.001
Identities = 22/83 (26%), Positives = 46/83 (55%)
Frame = +3
Query: 3 FFNVPSTFTAEEIADVFISAKVKDPSQVVIFPRKNNSQRGSLVTGLIEFDTISEAIEGVV 182
++NVP T E + +V + +F K +++ ++GL+E+ ++A+E +
Sbjct: 507 YYNVPLCVTEETFTKLCNDHEVLPFIKYKVFDAKASAKT---LSGLLEWKCKTDAVEALT 563
Query: 183 MVNHTRLLLPQVSHPFHIKLSFS 251
+NH ++ +P S+P+ +KL FS
Sbjct: 564 ALNHYQIRVPNGSNPYTLKLCFS 586
>sp|P30397|ROAA_EUGGR Ribosomal operon-associated A protein (RoaA)
Length = 516
Score = 30.8 bits (68), Expect = 1.3
Identities = 16/49 (32%), Positives = 29/49 (59%), Gaps = 1/49 (2%)
Frame = -2
Query: 435 IYLILYKKIFSTRNSFEQLCSLFLLHSCRFLHY-STFYSIFQFPVEYFL 292
++LI++ IF+ N F Q + F+ + +L Y FY F+FP ++F+
Sbjct: 210 LFLIIFNFIFNGLNFFFQE-NFFISYKVYYLFYIDKFYFFFKFPYDFFI 257
>sp|P07540|LYS_BPPZA Lysozyme (Lysis protein) (Muramidase) (Endolysin) (Late protein
gp15)
Length = 258
Score = 29.6 bits (65), Expect = 3.0
Identities = 16/64 (25%), Positives = 34/64 (53%), Gaps = 1/64 (1%)
Frame = +3
Query: 54 ISAKVKDPSQVVIFPRKNNSQRGSLVTGLIEFDTISE-AIEGVVMVNHTRLLLPQVSHPF 230
++ +KDP+ + + N + G + DT+S+ A++ V+ L P++++P
Sbjct: 188 LNPSIKDPNMIRVGQTINVTGSGGKTHKVKSGDTLSKIAVDNKTTVSRLMSLNPEITNPN 247
Query: 231 HIKL 242
HIK+
Sbjct: 248 HIKV 251
>sp|P11187|LYS_BPPH2 Lysozyme (Lysis protein) (Muramidase) (Endolysin) (Morphogenesis
protein 2)
Length = 258
Score = 29.6 bits (65), Expect = 3.0
Identities = 16/64 (25%), Positives = 34/64 (53%), Gaps = 1/64 (1%)
Frame = +3
Query: 54 ISAKVKDPSQVVIFPRKNNSQRGSLVTGLIEFDTISE-AIEGVVMVNHTRLLLPQVSHPF 230
++ +KDP+ + + N + G + DT+S+ A++ V+ L P++++P
Sbjct: 188 LNPSIKDPNMIRVGQTINVTGSGGKTHKVKSGDTLSKIAVDNKTTVSRLMSLNPEITNPN 247
Query: 231 HIKL 242
HIK+
Sbjct: 248 HIKV 251
>sp|P57175|FLIF_BUCAI Flagellar M-ring protein
Length = 545
Score = 29.3 bits (64), Expect = 3.9
Identities = 15/40 (37%), Positives = 21/40 (52%)
Frame = +3
Query: 27 TAEEIADVFISAKVKDPSQVVIFPRKNNSQRGSLVTGLIE 146
TA I V IS +K P V++ +N RGS++ L E
Sbjct: 36 TAAAITAVSISVWIKSPEYQVLYNHLSNEDRGSIINELNE 75
>sp|P59653|COMA_STRR6 Transport/processing ATP-binding protein comA
Length = 717
Score = 28.9 bits (63), Expect = 5.1
Identities = 23/101 (22%), Positives = 45/101 (44%), Gaps = 4/101 (3%)
Frame = +3
Query: 9 NVPSTFTAEEIADVFISAKVKDPSQVVIFPRKNNSQRGSLVTGLIEFDTISEAIEGVVMV 188
N+ ++ + I D ++ +++ ++ LV I +S A E +++V
Sbjct: 182 NIVGSYYLQSIIDTYVPDQMRSTLGIISI---------GLVIVYILQQILSYAQEYLLLV 232
Query: 189 NHTRL----LLPQVSHPFHIKLSFSPTRISEQHILRSTGEN 299
RL +L + H FH+ +SF TR + + + R T N
Sbjct: 233 LGQRLSIDVILSYIKHVFHLPMSFFATRRTGEIVSRFTDAN 273
>sp|Q03727|COMA_STRPN Transport/processing ATP-binding protein comA
Length = 717
Score = 28.9 bits (63), Expect = 5.1
Identities = 23/101 (22%), Positives = 45/101 (44%), Gaps = 4/101 (3%)
Frame = +3
Query: 9 NVPSTFTAEEIADVFISAKVKDPSQVVIFPRKNNSQRGSLVTGLIEFDTISEAIEGVVMV 188
N+ ++ + I D ++ +++ ++ LV I +S A E +++V
Sbjct: 182 NIVGSYYLQSIIDTYVPDQMRSTLGIISI---------GLVIVYIFQQILSYAQEYLLLV 232
Query: 189 NHTRL----LLPQVSHPFHIKLSFSPTRISEQHILRSTGEN 299
RL +L + H FH+ +SF TR + + + R T N
Sbjct: 233 LGQRLSIDVILSYIKHVFHLPMSFFATRRTGEIVSRFTDAN 273
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: 46,083,012
Number of Sequences: 369166
Number of extensions: 841200
Number of successful extensions: 2498
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 2456
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): 2498
length of database: 68,354,980
effective HSP length: 100
effective length of database: 49,881,480
effective search space used: 2244666600
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)