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_006_J10
(330 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 157 9e-39
sp|Q92901|RL3L_HUMAN 60S ribosomal protein L3-like 145 4e-35
sp|P21531|RL3_RAT 60S ribosomal protein L3 (L4) 140 1e-33
sp|P27659|RL3_MOUSE 60S ribosomal protein L3 (J1 protein) 140 1e-33
sp|P39872|RL3_BOVIN 60S ribosomal protein L3 139 2e-33
sp|P39023|RL3_HUMAN 60S ribosomal protein L3 (HIV-1 TAR RNA... 139 2e-33
sp|P49149|RL3_TOXCA 60S ribosomal protein L3 134 8e-32
sp|P17094|RL3A_ARATH 60S ribosomal protein L3 125 3e-29
sp|P35684|RL3_ORYSA 60S ribosomal protein L3 124 5e-29
sp|P50880|RL3_CAEEL 60S ribosomal protein L3 120 1e-27
>sp|O16797|RL3_DROME 60S ribosomal protein L3
Length = 416
Score = 157 bits (396), Expect = 9e-39
Identities = 76/109 (69%), Positives = 88/109 (80%)
Frame = +3
Query: 3 YHHRTEINKKIYRIGLGVKTQQTEAQNDITKIKGNASTDYDLTVKNITPMGGFPHYGEVN 182
YHHRTEINKKIYRIG G+ T+ + IK NAST+YDLT K+ITPMGGFPHYGEVN
Sbjct: 274 YHHRTEINKKIYRIGAGIHTKDGKV------IKNNASTEYDLTDKSITPMGGFPHYGEVN 327
Query: 183 NDFIMIKGCCMGAKKRLITLRKSLHTTHKKRMMEEIVLKFIDTSSKFGH 329
NDF+MIKGCC+G+KKR+ITLRKSL K+ +E+I LKFIDTSSK GH
Sbjct: 328 NDFVMIKGCCIGSKKRIITLRKSLLKHTKRSALEQIKLKFIDTSSKMGH 376
>sp|Q92901|RL3L_HUMAN 60S ribosomal protein L3-like
Length = 407
Score = 145 bits (365), Expect = 4e-35
Identities = 69/109 (63%), Positives = 83/109 (76%)
Frame = +3
Query: 3 YHHRTEINKKIYRIGLGVKTQQTEAQNDITKIKGNASTDYDLTVKNITPMGGFPHYGEVN 182
YHHRTE+NKKI+RIG G + D +K NAST YD+T K+ITP+GGFPHYGEVN
Sbjct: 274 YHHRTELNKKIFRIGRGPHME------DGKLVKNNASTSYDVTAKSITPLGGFPHYGEVN 327
Query: 183 NDFIMIKGCCMGAKKRLITLRKSLHTTHKKRMMEEIVLKFIDTSSKFGH 329
NDF+M+KGC G KKR+ITLRKSL H ++ +E I LKFIDT+SKFGH
Sbjct: 328 NDFVMLKGCIAGTKKRVITLRKSLLVHHSRQAVENIELKFIDTTSKFGH 376
>sp|P21531|RL3_RAT 60S ribosomal protein L3 (L4)
Length = 403
Score = 140 bits (352), Expect = 1e-33
Identities = 70/109 (64%), Positives = 83/109 (76%)
Frame = +3
Query: 3 YHHRTEINKKIYRIGLGVKTQQTEAQNDITKIKGNASTDYDLTVKNITPMGGFPHYGEVN 182
YHHRTEINKKIY+IG G + D IK NASTDYDL+ K+I P+GGF HYGEV
Sbjct: 274 YHHRTEINKKIYKIGQGYLIK------DGKLIKNNASTDYDLSDKSINPLGGFVHYGEVT 327
Query: 183 NDFIMIKGCCMGAKKRLITLRKSLHTTHKKRMMEEIVLKFIDTSSKFGH 329
NDFIM+KGC +G KKR++TLRKSL K+R +E+I LKFIDT+SKFGH
Sbjct: 328 NDFIMLKGCVVGTKKRVLTLRKSLLVQTKRRALEKIDLKFIDTTSKFGH 376
>sp|P27659|RL3_MOUSE 60S ribosomal protein L3 (J1 protein)
Length = 403
Score = 140 bits (352), Expect = 1e-33
Identities = 70/109 (64%), Positives = 83/109 (76%)
Frame = +3
Query: 3 YHHRTEINKKIYRIGLGVKTQQTEAQNDITKIKGNASTDYDLTVKNITPMGGFPHYGEVN 182
YHHRTEINKKIY+IG G + D IK NASTDYDL+ K+I P+GGF HYGEV
Sbjct: 274 YHHRTEINKKIYKIGQGYLIK------DGKLIKNNASTDYDLSDKSINPLGGFVHYGEVT 327
Query: 183 NDFIMIKGCCMGAKKRLITLRKSLHTTHKKRMMEEIVLKFIDTSSKFGH 329
NDFIM+KGC +G KKR++TLRKSL K+R +E+I LKFIDT+SKFGH
Sbjct: 328 NDFIMLKGCVVGTKKRVLTLRKSLLVQTKRRALEKIDLKFIDTTSKFGH 376
>sp|P39872|RL3_BOVIN 60S ribosomal protein L3
Length = 403
Score = 139 bits (351), Expect = 2e-33
Identities = 69/109 (63%), Positives = 83/109 (76%)
Frame = +3
Query: 3 YHHRTEINKKIYRIGLGVKTQQTEAQNDITKIKGNASTDYDLTVKNITPMGGFPHYGEVN 182
YHHRTEINKKIY+IG G + D IK NASTDYDL+ K+I P+GGF HYGEV
Sbjct: 274 YHHRTEINKKIYKIGQGYLIK------DGKLIKNNASTDYDLSDKSINPLGGFVHYGEVT 327
Query: 183 NDFIMIKGCCMGAKKRLITLRKSLHTTHKKRMMEEIVLKFIDTSSKFGH 329
NDF+M+KGC +G KKR++TLRKSL K+R +E+I LKFIDT+SKFGH
Sbjct: 328 NDFVMLKGCVVGTKKRVLTLRKSLLVQTKRRALEKIDLKFIDTTSKFGH 376
>sp|P39023|RL3_HUMAN 60S ribosomal protein L3 (HIV-1 TAR RNA binding protein B)
(TARBP-B)
Length = 403
Score = 139 bits (351), Expect = 2e-33
Identities = 69/109 (63%), Positives = 83/109 (76%)
Frame = +3
Query: 3 YHHRTEINKKIYRIGLGVKTQQTEAQNDITKIKGNASTDYDLTVKNITPMGGFPHYGEVN 182
YHHRTEINKKIY+IG G + D IK NASTDYDL+ K+I P+GGF HYGEV
Sbjct: 274 YHHRTEINKKIYKIGQGYLIK------DGKLIKNNASTDYDLSDKSINPLGGFVHYGEVT 327
Query: 183 NDFIMIKGCCMGAKKRLITLRKSLHTTHKKRMMEEIVLKFIDTSSKFGH 329
NDF+M+KGC +G KKR++TLRKSL K+R +E+I LKFIDT+SKFGH
Sbjct: 328 NDFVMLKGCVVGTKKRVLTLRKSLLVQTKRRALEKIDLKFIDTTSKFGH 376
>sp|P49149|RL3_TOXCA 60S ribosomal protein L3
Length = 402
Score = 134 bits (336), Expect = 8e-32
Identities = 65/109 (59%), Positives = 79/109 (72%)
Frame = +3
Query: 3 YHHRTEINKKIYRIGLGVKTQQTEAQNDITKIKGNASTDYDLTVKNITPMGGFPHYGEVN 182
YHHRTE+NKKIYR+G T++ K N TDYD+T K++ PMGGFPHYG VN
Sbjct: 274 YHHRTEVNKKIYRLGKSCLTEEG---------KKNGGTDYDITEKSVNPMGGFPHYGLVN 324
Query: 183 NDFIMIKGCCMGAKKRLITLRKSLHTTHKKRMMEEIVLKFIDTSSKFGH 329
DF+MI+GCC+G+KKR ITLRKSL K+ E+I LK+IDTSSKFGH
Sbjct: 325 QDFVMIRGCCVGSKKRPITLRKSLIVQTKRFAHEKINLKWIDTSSKFGH 373
>sp|P17094|RL3A_ARATH 60S ribosomal protein L3
Length = 389
Score = 125 bits (314), Expect = 3e-29
Identities = 63/109 (57%), Positives = 78/109 (71%)
Frame = +3
Query: 3 YHHRTEINKKIYRIGLGVKTQQTEAQNDITKIKGNASTDYDLTVKNITPMGGFPHYGEVN 182
YHHRTE+NKKIYR+G TEA A T+YD T K++TPMGGFPHYG V
Sbjct: 275 YHHRTELNKKIYRLG----KVGTEAHT--------AMTEYDRTEKDVTPMGGFPHYGIVK 322
Query: 183 NDFIMIKGCCMGAKKRLITLRKSLHTTHKKRMMEEIVLKFIDTSSKFGH 329
+D++MIKGCC+G KKR++TLR+SL T + +EEI LKFIDT+S FGH
Sbjct: 323 DDYLMIKGCCVGPKKRVVTLRQSLLTQTSRLALEEIKLKFIDTASIFGH 371
>sp|P35684|RL3_ORYSA 60S ribosomal protein L3
Length = 389
Score = 124 bits (312), Expect = 5e-29
Identities = 62/109 (56%), Positives = 78/109 (71%)
Frame = +3
Query: 3 YHHRTEINKKIYRIGLGVKTQQTEAQNDITKIKGNASTDYDLTVKNITPMGGFPHYGEVN 182
YHHRTE+NKK+Y+IG Q++ A A T++D T K+ITPMGGFPHYG V
Sbjct: 275 YHHRTEMNKKVYKIGKS--GQESHA----------ACTEFDRTEKDITPMGGFPHYGVVK 322
Query: 183 NDFIMIKGCCMGAKKRLITLRKSLHTTHKKRMMEEIVLKFIDTSSKFGH 329
D++MIKGCC+G KKR++TLR+SL + +EEI LKFIDTSSKFGH
Sbjct: 323 GDYLMIKGCCVGPKKRVVTLRQSLLKQTSRLALEEIKLKFIDTSSKFGH 371
>sp|P50880|RL3_CAEEL 60S ribosomal protein L3
Length = 401
Score = 120 bits (300), Expect = 1e-27
Identities = 63/109 (57%), Positives = 75/109 (68%)
Frame = +3
Query: 3 YHHRTEINKKIYRIGLGVKTQQTEAQNDITKIKGNASTDYDLTVKNITPMGGFPHYGEVN 182
+HHRT IN KIYRIG T++ K N ST++DLT K ITPMGGFP YG VN
Sbjct: 274 FHHRTIINNKIYRIGKSALTEEG---------KNNGSTEFDLTQKTITPMGGFPRYGIVN 324
Query: 183 NDFIMIKGCCMGAKKRLITLRKSLHTTHKKRMMEEIVLKFIDTSSKFGH 329
D+IM++G +G KKRLITLRKSL T K+ E+I LK+IDTSSK GH
Sbjct: 325 QDYIMLRGAVLGPKKRLITLRKSLITQTKRVAHEKINLKWIDTSSKTGH 373
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: 35,379,635
Number of Sequences: 369166
Number of extensions: 636970
Number of successful extensions: 1384
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 1328
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): 1357
length of database: 68,354,980
effective HSP length: 78
effective length of database: 53,945,650
effective search space used: 1672315150
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)