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_028_J23
(633 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|O16797|RL3_DROME 60S ribosomal protein L3 257 2e-68
sp|P21531|RL3_RAT 60S ribosomal protein L3 (L4) 237 2e-62
sp|P39872|RL3_BOVIN 60S ribosomal protein L3 236 3e-62
sp|P39023|RL3_HUMAN 60S ribosomal protein L3 (HIV-1 TAR RNA... 236 3e-62
sp|P27659|RL3_MOUSE 60S ribosomal protein L3 (J1 protein) 236 3e-62
sp|P49149|RL3_TOXCA 60S ribosomal protein L3 234 2e-61
sp|Q92901|RL3L_HUMAN 60S ribosomal protein L3-like 233 4e-61
sp|P50880|RL3_CAEEL 60S ribosomal protein L3 216 4e-56
sp|Q9NBK4|RL3_CAEBR 60S ribosomal protein L3 215 9e-56
sp|P17094|RL3A_ARATH 60S ribosomal protein L3 212 6e-55
>sp|O16797|RL3_DROME 60S ribosomal protein L3
Length = 416
Score = 257 bits (657), Expect = 2e-68
Identities = 123/163 (75%), Positives = 139/163 (85%)
Frame = +3
Query: 6 NEMIDCIGITKGKGFEGVTSRWHTKKLQRKTHKGLRKVACIGPWHPARVSFAVARAGQKG 185
+EMIDC+G+TKGKGF+GVTSRWHTKKL RKTHKGLRKVACIG WHP+RVS VARAGQKG
Sbjct: 214 DEMIDCVGVTKGKGFKGVTSRWHTKKLPRKTHKGLRKVACIGAWHPSRVSTTVARAGQKG 273
Query: 186 YHHRTEINKKIYRIGLGVKTQQTEAQNDITKIKGNASTDYDLTVKNITPMGGFPHYGEVN 365
YHHRTEINKKIYRIG G+ T+ D IK NAST+YDLT K+ITPMGGFPHYGEVN
Sbjct: 274 YHHRTEINKKIYRIGAGIHTK------DGKVIKNNASTEYDLTDKSITPMGGFPHYGEVN 327
Query: 366 NDFIMIKGCCMGAKKRLITLRKSLHTTHKKRMMEEIVLKFIDT 494
NDF+MIKGCC+G+KKR+ITLRKSL K+ +E+I LKFIDT
Sbjct: 328 NDFVMIKGCCIGSKKRIITLRKSLLKHTKRSALEQIKLKFIDT 370
Score = 47.0 bits (110), Expect = 4e-05
Identities = 21/32 (65%), Positives = 24/32 (75%)
Frame = +1
Query: 508 GHGRFQTSDEKRTFMGPLKKDRLRQEAKEIAA 603
GHGRFQT +K FMGPLKKDRL++EA A
Sbjct: 375 GHGRFQTPADKLAFMGPLKKDRLKEEAAATTA 406
>sp|P21531|RL3_RAT 60S ribosomal protein L3 (L4)
Length = 403
Score = 237 bits (604), Expect = 2e-62
Identities = 115/163 (70%), Positives = 134/163 (82%)
Frame = +3
Query: 6 NEMIDCIGITKGKGFEGVTSRWHTKKLQRKTHKGLRKVACIGPWHPARVSFAVARAGQKG 185
+EMID IG+TKGKG++GVTSRWHTKKL RKTH+GLRKVACIG WHPARV+F+VARAGQKG
Sbjct: 214 DEMIDVIGVTKGKGYKGVTSRWHTKKLPRKTHRGLRKVACIGAWHPARVAFSVARAGQKG 273
Query: 186 YHHRTEINKKIYRIGLGVKTQQTEAQNDITKIKGNASTDYDLTVKNITPMGGFPHYGEVN 365
YHHRTEINKKIY+IG G + D IK NASTDYDL+ K+I P+GGF HYGEV
Sbjct: 274 YHHRTEINKKIYKIGQGYLIK------DGKLIKNNASTDYDLSDKSINPLGGFVHYGEVT 327
Query: 366 NDFIMIKGCCMGAKKRLITLRKSLHTTHKKRMMEEIVLKFIDT 494
NDFIM+KGC +G KKR++TLRKSL K+R +E+I LKFIDT
Sbjct: 328 NDFIMLKGCVVGTKKRVLTLRKSLLVQTKRRALEKIDLKFIDT 370
Score = 47.0 bits (110), Expect = 4e-05
Identities = 19/26 (73%), Positives = 23/26 (88%)
Frame = +1
Query: 508 GHGRFQTSDEKRTFMGPLKKDRLRQE 585
GHGRFQT +EK+ FMGPLKKDR+ +E
Sbjct: 375 GHGRFQTMEEKKAFMGPLKKDRIAKE 400
>sp|P39872|RL3_BOVIN 60S ribosomal protein L3
Length = 403
Score = 236 bits (603), Expect = 3e-62
Identities = 114/163 (69%), Positives = 134/163 (82%)
Frame = +3
Query: 6 NEMIDCIGITKGKGFEGVTSRWHTKKLQRKTHKGLRKVACIGPWHPARVSFAVARAGQKG 185
+EMID IG+TKGKG++GVTSRWHTKKL RKTH+GLRKVACIG WHPARV+F+VARAGQKG
Sbjct: 214 DEMIDVIGVTKGKGYKGVTSRWHTKKLPRKTHRGLRKVACIGAWHPARVAFSVARAGQKG 273
Query: 186 YHHRTEINKKIYRIGLGVKTQQTEAQNDITKIKGNASTDYDLTVKNITPMGGFPHYGEVN 365
YHHRTEINKKIY+IG G + D IK NASTDYDL+ K+I P+GGF HYGEV
Sbjct: 274 YHHRTEINKKIYKIGQGYLIK------DGKLIKNNASTDYDLSDKSINPLGGFVHYGEVT 327
Query: 366 NDFIMIKGCCMGAKKRLITLRKSLHTTHKKRMMEEIVLKFIDT 494
NDF+M+KGC +G KKR++TLRKSL K+R +E+I LKFIDT
Sbjct: 328 NDFVMLKGCVVGTKKRVLTLRKSLLVQTKRRALEKIDLKFIDT 370
Score = 46.6 bits (109), Expect = 5e-05
Identities = 19/26 (73%), Positives = 23/26 (88%)
Frame = +1
Query: 508 GHGRFQTSDEKRTFMGPLKKDRLRQE 585
GHGRFQT +EK+ FMGPLKKDR+ +E
Sbjct: 375 GHGRFQTVEEKKAFMGPLKKDRIAKE 400
>sp|P39023|RL3_HUMAN 60S ribosomal protein L3 (HIV-1 TAR RNA binding protein B)
(TARBP-B)
Length = 403
Score = 236 bits (603), Expect = 3e-62
Identities = 114/163 (69%), Positives = 134/163 (82%)
Frame = +3
Query: 6 NEMIDCIGITKGKGFEGVTSRWHTKKLQRKTHKGLRKVACIGPWHPARVSFAVARAGQKG 185
+EMID IG+TKGKG++GVTSRWHTKKL RKTH+GLRKVACIG WHPARV+F+VARAGQKG
Sbjct: 214 DEMIDVIGVTKGKGYKGVTSRWHTKKLPRKTHRGLRKVACIGAWHPARVAFSVARAGQKG 273
Query: 186 YHHRTEINKKIYRIGLGVKTQQTEAQNDITKIKGNASTDYDLTVKNITPMGGFPHYGEVN 365
YHHRTEINKKIY+IG G + D IK NASTDYDL+ K+I P+GGF HYGEV
Sbjct: 274 YHHRTEINKKIYKIGQGYLIK------DGKLIKNNASTDYDLSDKSINPLGGFVHYGEVT 327
Query: 366 NDFIMIKGCCMGAKKRLITLRKSLHTTHKKRMMEEIVLKFIDT 494
NDF+M+KGC +G KKR++TLRKSL K+R +E+I LKFIDT
Sbjct: 328 NDFVMLKGCVVGTKKRVLTLRKSLLVQTKRRALEKIDLKFIDT 370
Score = 47.0 bits (110), Expect = 4e-05
Identities = 19/26 (73%), Positives = 23/26 (88%)
Frame = +1
Query: 508 GHGRFQTSDEKRTFMGPLKKDRLRQE 585
GHGRFQT +EK+ FMGPLKKDR+ +E
Sbjct: 375 GHGRFQTMEEKKAFMGPLKKDRIAKE 400
>sp|P27659|RL3_MOUSE 60S ribosomal protein L3 (J1 protein)
Length = 403
Score = 236 bits (603), Expect = 3e-62
Identities = 115/163 (70%), Positives = 133/163 (81%)
Frame = +3
Query: 6 NEMIDCIGITKGKGFEGVTSRWHTKKLQRKTHKGLRKVACIGPWHPARVSFAVARAGQKG 185
+EMID IG+TKGKG++GVTSRWHTKKL RKTH+GLRKVACIG WHPARV+F VARAGQKG
Sbjct: 214 DEMIDVIGVTKGKGYKGVTSRWHTKKLPRKTHRGLRKVACIGAWHPARVAFTVARAGQKG 273
Query: 186 YHHRTEINKKIYRIGLGVKTQQTEAQNDITKIKGNASTDYDLTVKNITPMGGFPHYGEVN 365
YHHRTEINKKIY+IG G + D IK NASTDYDL+ K+I P+GGF HYGEV
Sbjct: 274 YHHRTEINKKIYKIGQGYLIK------DGKLIKNNASTDYDLSDKSINPLGGFVHYGEVT 327
Query: 366 NDFIMIKGCCMGAKKRLITLRKSLHTTHKKRMMEEIVLKFIDT 494
NDFIM+KGC +G KKR++TLRKSL K+R +E+I LKFIDT
Sbjct: 328 NDFIMLKGCVVGTKKRVLTLRKSLLVQTKRRALEKIDLKFIDT 370
Score = 47.0 bits (110), Expect = 4e-05
Identities = 19/26 (73%), Positives = 23/26 (88%)
Frame = +1
Query: 508 GHGRFQTSDEKRTFMGPLKKDRLRQE 585
GHGRFQT +EK+ FMGPLKKDR+ +E
Sbjct: 375 GHGRFQTMEEKKAFMGPLKKDRIAKE 400
>sp|P49149|RL3_TOXCA 60S ribosomal protein L3
Length = 402
Score = 234 bits (596), Expect = 2e-61
Identities = 111/163 (68%), Positives = 129/163 (79%)
Frame = +3
Query: 6 NEMIDCIGITKGKGFEGVTSRWHTKKLQRKTHKGLRKVACIGPWHPARVSFAVARAGQKG 185
+EMIDCIG+TKGKGF+GVTSRWHTKKL RKTHKGLRKVACIG WHP+RV F VARAGQKG
Sbjct: 214 DEMIDCIGVTKGKGFKGVTSRWHTKKLPRKTHKGLRKVACIGAWHPSRVQFTVARAGQKG 273
Query: 186 YHHRTEINKKIYRIGLGVKTQQTEAQNDITKIKGNASTDYDLTVKNITPMGGFPHYGEVN 365
YHHRTE+NKKIYR+G T++ K N TDYD+T K++ PMGGFPHYG VN
Sbjct: 274 YHHRTEVNKKIYRLGKSCLTEEG---------KKNGGTDYDITEKSVNPMGGFPHYGLVN 324
Query: 366 NDFIMIKGCCMGAKKRLITLRKSLHTTHKKRMMEEIVLKFIDT 494
DF+MI+GCC+G+KKR ITLRKSL K+ E+I LK+IDT
Sbjct: 325 QDFVMIRGCCVGSKKRPITLRKSLIVQTKRFAHEKINLKWIDT 367
Score = 39.3 bits (90), Expect = 0.008
Identities = 17/25 (68%), Positives = 19/25 (76%)
Frame = +1
Query: 508 GHGRFQTSDEKRTFMGPLKKDRLRQ 582
GHGRFQT EKR FMG LKKD + +
Sbjct: 372 GHGRFQTHAEKRAFMGKLKKDLIAE 396
>sp|Q92901|RL3L_HUMAN 60S ribosomal protein L3-like
Length = 407
Score = 233 bits (593), Expect = 4e-61
Identities = 110/163 (67%), Positives = 130/163 (79%)
Frame = +3
Query: 6 NEMIDCIGITKGKGFEGVTSRWHTKKLQRKTHKGLRKVACIGPWHPARVSFAVARAGQKG 185
+E+ID I +TKG+G +GVTSRWHTKKL RKTHKGLRKVACIG WHPARV ++ARAGQKG
Sbjct: 214 SEVIDVIAVTKGRGVKGVTSRWHTKKLPRKTHKGLRKVACIGAWHPARVGCSIARAGQKG 273
Query: 186 YHHRTEINKKIYRIGLGVKTQQTEAQNDITKIKGNASTDYDLTVKNITPMGGFPHYGEVN 365
YHHRTE+NKKI+RIG G + D +K NAST YD+T K+ITP+GGFPHYGEVN
Sbjct: 274 YHHRTELNKKIFRIGRGPHME------DGKLVKNNASTSYDVTAKSITPLGGFPHYGEVN 327
Query: 366 NDFIMIKGCCMGAKKRLITLRKSLHTTHKKRMMEEIVLKFIDT 494
NDF+M+KGC G KKR+ITLRKSL H ++ +E I LKFIDT
Sbjct: 328 NDFVMLKGCIAGTKKRVITLRKSLLVHHSRQAVENIELKFIDT 370
Score = 39.7 bits (91), Expect = 0.006
Identities = 19/29 (65%), Positives = 21/29 (72%)
Frame = +1
Query: 508 GHGRFQTSDEKRTFMGPLKKDRLRQEAKE 594
GHGRFQT+ EKR FMGP KK L +E E
Sbjct: 375 GHGRFQTAQEKRAFMGPQKK-HLEKETPE 402
>sp|P50880|RL3_CAEEL 60S ribosomal protein L3
Length = 401
Score = 216 bits (550), Expect = 4e-56
Identities = 107/163 (65%), Positives = 125/163 (76%)
Frame = +3
Query: 6 NEMIDCIGITKGKGFEGVTSRWHTKKLQRKTHKGLRKVACIGPWHPARVSFAVARAGQKG 185
+EMID IG+T+G GF+GVTSRWHTKKL RKTHKGLRKVACIG WHP+RV+F VARAGQKG
Sbjct: 214 DEMIDTIGVTRGHGFKGVTSRWHTKKLPRKTHKGLRKVACIGAWHPSRVAFTVARAGQKG 273
Query: 186 YHHRTEINKKIYRIGLGVKTQQTEAQNDITKIKGNASTDYDLTVKNITPMGGFPHYGEVN 365
+HHRT IN KIYRIG T++ K N ST++DLT K ITPMGGFP YG VN
Sbjct: 274 FHHRTIINNKIYRIGKSALTEEG---------KNNGSTEFDLTQKTITPMGGFPRYGIVN 324
Query: 366 NDFIMIKGCCMGAKKRLITLRKSLHTTHKKRMMEEIVLKFIDT 494
D+IM++G +G KKRLITLRKSL T K+ E+I LK+IDT
Sbjct: 325 QDYIMLRGAVLGPKKRLITLRKSLITQTKRVAHEKINLKWIDT 367
Score = 40.0 bits (92), Expect = 0.005
Identities = 20/29 (68%), Positives = 23/29 (79%), Gaps = 1/29 (3%)
Frame = +1
Query: 508 GHGRFQTSDEKRTFMGPLKKDRLRQ-EAK 591
GHGRFQT+ EKR FMG LK+D L + EAK
Sbjct: 372 GHGRFQTTAEKRAFMGKLKRDFLAEAEAK 400
>sp|Q9NBK4|RL3_CAEBR 60S ribosomal protein L3
Length = 401
Score = 215 bits (547), Expect = 9e-56
Identities = 106/163 (65%), Positives = 124/163 (76%)
Frame = +3
Query: 6 NEMIDCIGITKGKGFEGVTSRWHTKKLQRKTHKGLRKVACIGPWHPARVSFAVARAGQKG 185
+EMID IG+TKG GF+GVTSRWHTKKL RKTHKGLRKVACIG WHP+RV+F VARAGQKG
Sbjct: 214 DEMIDTIGVTKGHGFKGVTSRWHTKKLPRKTHKGLRKVACIGAWHPSRVAFTVARAGQKG 273
Query: 186 YHHRTEINKKIYRIGLGVKTQQTEAQNDITKIKGNASTDYDLTVKNITPMGGFPHYGEVN 365
+HHRT IN KIYRIG T++ K N ST++DLT K I PMGGFP YG VN
Sbjct: 274 FHHRTIINNKIYRIGKSALTEEG---------KNNGSTEFDLTQKTINPMGGFPRYGLVN 324
Query: 366 NDFIMIKGCCMGAKKRLITLRKSLHTTHKKRMMEEIVLKFIDT 494
D++M++G +G KKRLITLRKSL T K+ E+I LK+IDT
Sbjct: 325 QDYVMLRGAILGPKKRLITLRKSLITQTKRVAHEKINLKWIDT 367
Score = 39.3 bits (90), Expect = 0.008
Identities = 17/25 (68%), Positives = 20/25 (80%)
Frame = +1
Query: 508 GHGRFQTSDEKRTFMGPLKKDRLRQ 582
GHGRFQT+ EKR FMG LK+D L +
Sbjct: 372 GHGRFQTTAEKRAFMGKLKRDFLAE 396
>sp|P17094|RL3A_ARATH 60S ribosomal protein L3
Length = 389
Score = 212 bits (540), Expect = 6e-55
Identities = 103/163 (63%), Positives = 124/163 (76%)
Frame = +3
Query: 6 NEMIDCIGITKGKGFEGVTSRWHTKKLQRKTHKGLRKVACIGPWHPARVSFAVARAGQKG 185
+EMID IG+TKGKG+EGV +RW +L RKTH+GLRKVACIG WHPARVS+ VARAGQ G
Sbjct: 215 DEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTHRGLRKVACIGAWHPARVSYTVARAGQNG 274
Query: 186 YHHRTEINKKIYRIGLGVKTQQTEAQNDITKIKGNASTDYDLTVKNITPMGGFPHYGEVN 365
YHHRTE+NKKIYR+G TEA A T+YD T K++TPMGGFPHYG V
Sbjct: 275 YHHRTELNKKIYRLG----KVGTEAH--------TAMTEYDRTEKDVTPMGGFPHYGIVK 322
Query: 366 NDFIMIKGCCMGAKKRLITLRKSLHTTHKKRMMEEIVLKFIDT 494
+D++MIKGCC+G KKR++TLR+SL T + +EEI LKFIDT
Sbjct: 323 DDYLMIKGCCVGPKKRVVTLRQSLLTQTSRLALEEIKLKFIDT 365
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: 66,832,200
Number of Sequences: 369166
Number of extensions: 1266946
Number of successful extensions: 3087
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 2936
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): 3034
length of database: 68,354,980
effective HSP length: 106
effective length of database: 48,773,070
effective search space used: 5072399280
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)