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_002_H24
(629 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 305 8e-83
sp|P21531|RL3_RAT 60S ribosomal protein L3 (L4) 285 5e-77
sp|P39023|RL3_HUMAN 60S ribosomal protein L3 (HIV-1 TAR RNA... 285 7e-77
sp|P27659|RL3_MOUSE 60S ribosomal protein L3 (J1 protein) 285 7e-77
sp|P39872|RL3_BOVIN 60S ribosomal protein L3 285 9e-77
sp|P49149|RL3_TOXCA 60S ribosomal protein L3 276 4e-74
sp|Q92901|RL3L_HUMAN 60S ribosomal protein L3-like 274 2e-73
sp|P50880|RL3_CAEEL 60S ribosomal protein L3 256 4e-68
sp|Q9NBK4|RL3_CAEBR 60S ribosomal protein L3 254 2e-67
sp|P35684|RL3_ORYSA 60S ribosomal protein L3 244 1e-64
>sp|O16797|RL3_DROME 60S ribosomal protein L3
Length = 416
Score = 305 bits (780), Expect = 8e-83
Identities = 146/199 (73%), Positives = 166/199 (83%)
Frame = +3
Query: 3 NEMIDCIGITKGKGFEGVTSRWHTKKLQRKTHKGLRKVACIGPWHPARVSFAVARAGQKG 182
+EMIDC+G+TKGKGF+GVTSRWHTKKL RKTHKGLRKVACIG WHP+RVS VARAGQKG
Sbjct: 214 DEMIDCVGVTKGKGFKGVTSRWHTKKLPRKTHKGLRKVACIGAWHPSRVSTTVARAGQKG 273
Query: 183 YHHRTEINKKIYRIGLGVKTQQTEAQNDITKIKGNASTDYDLTVKNITPMGGFPHYGEVN 362
YHHRTEINKKIYRIG G+ T+ + IK NAST+YDLT K+ITPMGGFPHYGEVN
Sbjct: 274 YHHRTEINKKIYRIGAGIHTKDGKV------IKNNASTEYDLTDKSITPMGGFPHYGEVN 327
Query: 363 NDFIMIKGCCMGAKKRLITLRKSLHTTHKKRMMEEIVLKFIDTSSKFGHGRFQTSDEKRT 542
NDF+MIKGCC+G+KKR+ITLRKSL K+ +E+I LKFIDTSSK GHGRFQT +K
Sbjct: 328 NDFVMIKGCCIGSKKRIITLRKSLLKHTKRSALEQIKLKFIDTSSKMGHGRFQTPADKLA 387
Query: 543 FMGPLKKDRLRQEAKEIAA 599
FMGPLKKDRL++EA A
Sbjct: 388 FMGPLKKDRLKEEAAATTA 406
>sp|P21531|RL3_RAT 60S ribosomal protein L3 (L4)
Length = 403
Score = 285 bits (730), Expect = 5e-77
Identities = 137/193 (70%), Positives = 161/193 (83%)
Frame = +3
Query: 3 NEMIDCIGITKGKGFEGVTSRWHTKKLQRKTHKGLRKVACIGPWHPARVSFAVARAGQKG 182
+EMID IG+TKGKG++GVTSRWHTKKL RKTH+GLRKVACIG WHPARV+F+VARAGQKG
Sbjct: 214 DEMIDVIGVTKGKGYKGVTSRWHTKKLPRKTHRGLRKVACIGAWHPARVAFSVARAGQKG 273
Query: 183 YHHRTEINKKIYRIGLGVKTQQTEAQNDITKIKGNASTDYDLTVKNITPMGGFPHYGEVN 362
YHHRTEINKKIY+IG G + D IK NASTDYDL+ K+I P+GGF HYGEV
Sbjct: 274 YHHRTEINKKIYKIGQGYLIK------DGKLIKNNASTDYDLSDKSINPLGGFVHYGEVT 327
Query: 363 NDFIMIKGCCMGAKKRLITLRKSLHTTHKKRMMEEIVLKFIDTSSKFGHGRFQTSDEKRT 542
NDFIM+KGC +G KKR++TLRKSL K+R +E+I LKFIDT+SKFGHGRFQT +EK+
Sbjct: 328 NDFIMLKGCVVGTKKRVLTLRKSLLVQTKRRALEKIDLKFIDTTSKFGHGRFQTMEEKKA 387
Query: 543 FMGPLKKDRLRQE 581
FMGPLKKDR+ +E
Sbjct: 388 FMGPLKKDRIAKE 400
>sp|P39023|RL3_HUMAN 60S ribosomal protein L3 (HIV-1 TAR RNA binding protein B)
(TARBP-B)
Length = 403
Score = 285 bits (729), Expect = 7e-77
Identities = 136/193 (70%), Positives = 161/193 (83%)
Frame = +3
Query: 3 NEMIDCIGITKGKGFEGVTSRWHTKKLQRKTHKGLRKVACIGPWHPARVSFAVARAGQKG 182
+EMID IG+TKGKG++GVTSRWHTKKL RKTH+GLRKVACIG WHPARV+F+VARAGQKG
Sbjct: 214 DEMIDVIGVTKGKGYKGVTSRWHTKKLPRKTHRGLRKVACIGAWHPARVAFSVARAGQKG 273
Query: 183 YHHRTEINKKIYRIGLGVKTQQTEAQNDITKIKGNASTDYDLTVKNITPMGGFPHYGEVN 362
YHHRTEINKKIY+IG G + D IK NASTDYDL+ K+I P+GGF HYGEV
Sbjct: 274 YHHRTEINKKIYKIGQGYLIK------DGKLIKNNASTDYDLSDKSINPLGGFVHYGEVT 327
Query: 363 NDFIMIKGCCMGAKKRLITLRKSLHTTHKKRMMEEIVLKFIDTSSKFGHGRFQTSDEKRT 542
NDF+M+KGC +G KKR++TLRKSL K+R +E+I LKFIDT+SKFGHGRFQT +EK+
Sbjct: 328 NDFVMLKGCVVGTKKRVLTLRKSLLVQTKRRALEKIDLKFIDTTSKFGHGRFQTMEEKKA 387
Query: 543 FMGPLKKDRLRQE 581
FMGPLKKDR+ +E
Sbjct: 388 FMGPLKKDRIAKE 400
>sp|P27659|RL3_MOUSE 60S ribosomal protein L3 (J1 protein)
Length = 403
Score = 285 bits (729), Expect = 7e-77
Identities = 137/193 (70%), Positives = 160/193 (82%)
Frame = +3
Query: 3 NEMIDCIGITKGKGFEGVTSRWHTKKLQRKTHKGLRKVACIGPWHPARVSFAVARAGQKG 182
+EMID IG+TKGKG++GVTSRWHTKKL RKTH+GLRKVACIG WHPARV+F VARAGQKG
Sbjct: 214 DEMIDVIGVTKGKGYKGVTSRWHTKKLPRKTHRGLRKVACIGAWHPARVAFTVARAGQKG 273
Query: 183 YHHRTEINKKIYRIGLGVKTQQTEAQNDITKIKGNASTDYDLTVKNITPMGGFPHYGEVN 362
YHHRTEINKKIY+IG G + D IK NASTDYDL+ K+I P+GGF HYGEV
Sbjct: 274 YHHRTEINKKIYKIGQGYLIK------DGKLIKNNASTDYDLSDKSINPLGGFVHYGEVT 327
Query: 363 NDFIMIKGCCMGAKKRLITLRKSLHTTHKKRMMEEIVLKFIDTSSKFGHGRFQTSDEKRT 542
NDFIM+KGC +G KKR++TLRKSL K+R +E+I LKFIDT+SKFGHGRFQT +EK+
Sbjct: 328 NDFIMLKGCVVGTKKRVLTLRKSLLVQTKRRALEKIDLKFIDTTSKFGHGRFQTMEEKKA 387
Query: 543 FMGPLKKDRLRQE 581
FMGPLKKDR+ +E
Sbjct: 388 FMGPLKKDRIAKE 400
>sp|P39872|RL3_BOVIN 60S ribosomal protein L3
Length = 403
Score = 285 bits (728), Expect = 9e-77
Identities = 136/193 (70%), Positives = 161/193 (83%)
Frame = +3
Query: 3 NEMIDCIGITKGKGFEGVTSRWHTKKLQRKTHKGLRKVACIGPWHPARVSFAVARAGQKG 182
+EMID IG+TKGKG++GVTSRWHTKKL RKTH+GLRKVACIG WHPARV+F+VARAGQKG
Sbjct: 214 DEMIDVIGVTKGKGYKGVTSRWHTKKLPRKTHRGLRKVACIGAWHPARVAFSVARAGQKG 273
Query: 183 YHHRTEINKKIYRIGLGVKTQQTEAQNDITKIKGNASTDYDLTVKNITPMGGFPHYGEVN 362
YHHRTEINKKIY+IG G + D IK NASTDYDL+ K+I P+GGF HYGEV
Sbjct: 274 YHHRTEINKKIYKIGQGYLIK------DGKLIKNNASTDYDLSDKSINPLGGFVHYGEVT 327
Query: 363 NDFIMIKGCCMGAKKRLITLRKSLHTTHKKRMMEEIVLKFIDTSSKFGHGRFQTSDEKRT 542
NDF+M+KGC +G KKR++TLRKSL K+R +E+I LKFIDT+SKFGHGRFQT +EK+
Sbjct: 328 NDFVMLKGCVVGTKKRVLTLRKSLLVQTKRRALEKIDLKFIDTTSKFGHGRFQTVEEKKA 387
Query: 543 FMGPLKKDRLRQE 581
FMGPLKKDR+ +E
Sbjct: 388 FMGPLKKDRIAKE 400
>sp|P49149|RL3_TOXCA 60S ribosomal protein L3
Length = 402
Score = 276 bits (705), Expect = 4e-74
Identities = 132/192 (68%), Positives = 152/192 (79%)
Frame = +3
Query: 3 NEMIDCIGITKGKGFEGVTSRWHTKKLQRKTHKGLRKVACIGPWHPARVSFAVARAGQKG 182
+EMIDCIG+TKGKGF+GVTSRWHTKKL RKTHKGLRKVACIG WHP+RV F VARAGQKG
Sbjct: 214 DEMIDCIGVTKGKGFKGVTSRWHTKKLPRKTHKGLRKVACIGAWHPSRVQFTVARAGQKG 273
Query: 183 YHHRTEINKKIYRIGLGVKTQQTEAQNDITKIKGNASTDYDLTVKNITPMGGFPHYGEVN 362
YHHRTE+NKKIYR+G T++ K N TDYD+T K++ PMGGFPHYG VN
Sbjct: 274 YHHRTEVNKKIYRLGKSCLTEEG---------KKNGGTDYDITEKSVNPMGGFPHYGLVN 324
Query: 363 NDFIMIKGCCMGAKKRLITLRKSLHTTHKKRMMEEIVLKFIDTSSKFGHGRFQTSDEKRT 542
DF+MI+GCC+G+KKR ITLRKSL K+ E+I LK+IDTSSKFGHGRFQT EKR
Sbjct: 325 QDFVMIRGCCVGSKKRPITLRKSLIVQTKRFAHEKINLKWIDTSSKFGHGRFQTHAEKRA 384
Query: 543 FMGPLKKDRLRQ 578
FMG LKKD + +
Sbjct: 385 FMGKLKKDLIAE 396
>sp|Q92901|RL3L_HUMAN 60S ribosomal protein L3-like
Length = 407
Score = 274 bits (700), Expect = 2e-73
Identities = 132/196 (67%), Positives = 155/196 (79%)
Frame = +3
Query: 3 NEMIDCIGITKGKGFEGVTSRWHTKKLQRKTHKGLRKVACIGPWHPARVSFAVARAGQKG 182
+E+ID I +TKG+G +GVTSRWHTKKL RKTHKGLRKVACIG WHPARV ++ARAGQKG
Sbjct: 214 SEVIDVIAVTKGRGVKGVTSRWHTKKLPRKTHKGLRKVACIGAWHPARVGCSIARAGQKG 273
Query: 183 YHHRTEINKKIYRIGLGVKTQQTEAQNDITKIKGNASTDYDLTVKNITPMGGFPHYGEVN 362
YHHRTE+NKKI+RIG G + D +K NAST YD+T K+ITP+GGFPHYGEVN
Sbjct: 274 YHHRTELNKKIFRIGRGPHME------DGKLVKNNASTSYDVTAKSITPLGGFPHYGEVN 327
Query: 363 NDFIMIKGCCMGAKKRLITLRKSLHTTHKKRMMEEIVLKFIDTSSKFGHGRFQTSDEKRT 542
NDF+M+KGC G KKR+ITLRKSL H ++ +E I LKFIDT+SKFGHGRFQT+ EKR
Sbjct: 328 NDFVMLKGCIAGTKKRVITLRKSLLVHHSRQAVENIELKFIDTTSKFGHGRFQTAQEKRA 387
Query: 543 FMGPLKKDRLRQEAKE 590
FMGP KK L +E E
Sbjct: 388 FMGPQKK-HLEKETPE 402
>sp|P50880|RL3_CAEEL 60S ribosomal protein L3
Length = 401
Score = 256 bits (653), Expect = 4e-68
Identities = 130/196 (66%), Positives = 151/196 (77%), Gaps = 1/196 (0%)
Frame = +3
Query: 3 NEMIDCIGITKGKGFEGVTSRWHTKKLQRKTHKGLRKVACIGPWHPARVSFAVARAGQKG 182
+EMID IG+T+G GF+GVTSRWHTKKL RKTHKGLRKVACIG WHP+RV+F VARAGQKG
Sbjct: 214 DEMIDTIGVTRGHGFKGVTSRWHTKKLPRKTHKGLRKVACIGAWHPSRVAFTVARAGQKG 273
Query: 183 YHHRTEINKKIYRIGLGVKTQQTEAQNDITKIKGNASTDYDLTVKNITPMGGFPHYGEVN 362
+HHRT IN KIYRIG T++ K N ST++DLT K ITPMGGFP YG VN
Sbjct: 274 FHHRTIINNKIYRIGKSALTEEG---------KNNGSTEFDLTQKTITPMGGFPRYGIVN 324
Query: 363 NDFIMIKGCCMGAKKRLITLRKSLHTTHKKRMMEEIVLKFIDTSSKFGHGRFQTSDEKRT 542
D+IM++G +G KKRLITLRKSL T K+ E+I LK+IDTSSK GHGRFQT+ EKR
Sbjct: 325 QDYIMLRGAVLGPKKRLITLRKSLITQTKRVAHEKINLKWIDTSSKTGHGRFQTTAEKRA 384
Query: 543 FMGPLKKDRLRQ-EAK 587
FMG LK+D L + EAK
Sbjct: 385 FMGKLKRDFLAEAEAK 400
>sp|Q9NBK4|RL3_CAEBR 60S ribosomal protein L3
Length = 401
Score = 254 bits (648), Expect = 2e-67
Identities = 126/192 (65%), Positives = 147/192 (76%)
Frame = +3
Query: 3 NEMIDCIGITKGKGFEGVTSRWHTKKLQRKTHKGLRKVACIGPWHPARVSFAVARAGQKG 182
+EMID IG+TKG GF+GVTSRWHTKKL RKTHKGLRKVACIG WHP+RV+F VARAGQKG
Sbjct: 214 DEMIDTIGVTKGHGFKGVTSRWHTKKLPRKTHKGLRKVACIGAWHPSRVAFTVARAGQKG 273
Query: 183 YHHRTEINKKIYRIGLGVKTQQTEAQNDITKIKGNASTDYDLTVKNITPMGGFPHYGEVN 362
+HHRT IN KIYRIG T++ K N ST++DLT K I PMGGFP YG VN
Sbjct: 274 FHHRTIINNKIYRIGKSALTEEG---------KNNGSTEFDLTQKTINPMGGFPRYGLVN 324
Query: 363 NDFIMIKGCCMGAKKRLITLRKSLHTTHKKRMMEEIVLKFIDTSSKFGHGRFQTSDEKRT 542
D++M++G +G KKRLITLRKSL T K+ E+I LK+IDTSSK GHGRFQT+ EKR
Sbjct: 325 QDYVMLRGAILGPKKRLITLRKSLITQTKRVAHEKINLKWIDTSSKTGHGRFQTTAEKRA 384
Query: 543 FMGPLKKDRLRQ 578
FMG LK+D L +
Sbjct: 385 FMGKLKRDFLAE 396
>sp|P35684|RL3_ORYSA 60S ribosomal protein L3
Length = 389
Score = 244 bits (624), Expect = 1e-64
Identities = 118/186 (63%), Positives = 143/186 (76%)
Frame = +3
Query: 3 NEMIDCIGITKGKGFEGVTSRWHTKKLQRKTHKGLRKVACIGPWHPARVSFAVARAGQKG 182
+EMID IG+TKGKG+EGV +RW +L RKTH+GLRKVACIG WHPARVS+ VARAGQ G
Sbjct: 215 DEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTHRGLRKVACIGAWHPARVSYTVARAGQNG 274
Query: 183 YHHRTEINKKIYRIGLGVKTQQTEAQNDITKIKGNASTDYDLTVKNITPMGGFPHYGEVN 362
YHHRTE+NKK+Y+I G Q++ A A T++D T K+ITPMGGFPHYG V
Sbjct: 275 YHHRTEMNKKVYKI--GKSGQESHA----------ACTEFDRTEKDITPMGGFPHYGVVK 322
Query: 363 NDFIMIKGCCMGAKKRLITLRKSLHTTHKKRMMEEIVLKFIDTSSKFGHGRFQTSDEKRT 542
D++MIKGCC+G KKR++TLR+SL + +EEI LKFIDTSSKFGHGRFQT+DEK+
Sbjct: 323 GDYLMIKGCCVGPKKRVVTLRQSLLKQTSRLALEEIKLKFIDTSSKFGHGRFQTTDEKQR 382
Query: 543 FMGPLK 560
F G LK
Sbjct: 383 FFGKLK 388
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: 66,117,159
Number of Sequences: 369166
Number of extensions: 1257966
Number of successful extensions: 3126
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 2998
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): 3073
length of database: 68,354,980
effective HSP length: 106
effective length of database: 48,773,070
effective search space used: 5023626210
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)