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_003_C09
(536 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|Q9AT61|LB13_ARATH LOB domain protein 13 35 0.089
sp|P50901|HOX3_BRAFL Homeobox protein HOX3 34 0.26
sp|O01835|CPB3_CAEEL Cytoplasmic polyadenylation element bi... 33 0.34
sp|P05153|PPCKC_CHICK Phosphoenolpyruvate carboxykinase, cy... 32 0.99
sp|P33748|MSN2_YEAST Zinc finger protein MSN2 (Multicopy su... 32 0.99
sp|Q02308|HLES_DROME Hairless protein 32 0.99
sp|Q5TJF7|RXRB_CANFA Retinoic acid receptor RXR-beta (Retin... 32 1.3
sp|P28702|RXRB_HUMAN Retinoic acid receptor RXR-beta (Retin... 31 1.7
sp|P28704|RXRB_MOUSE Retinoic acid receptor RXR-beta (Retin... 31 1.7
sp|P49743|RXRB_RAT Retinoic acid receptor RXR-beta (Retinoi... 31 1.7
>sp|Q9AT61|LB13_ARATH LOB domain protein 13
Length = 268
Score = 35.4 bits (80), Expect = 0.089
Identities = 30/94 (31%), Positives = 42/94 (44%), Gaps = 6/94 (6%)
Frame = +1
Query: 130 ITSSVSQANGTSRRTSRFGDRVSLPTQFFTAPPPLDSYN------VEWKSVPPPLPPGIV 291
ITS + N T+ +S D+ +L + PPP + + PPP PP +
Sbjct: 163 ITSLQNNFNSTTTTSSVSCDQHALASAILLPPPPPPPPTPRPPRLLSSQPAPPPTPPVSL 222
Query: 292 GSVNNKVYSTTSSNSEPYNDPMYNHLAFYAIPPP 393
S + V S++SSNS N MYN PPP
Sbjct: 223 PSPSMVVSSSSSSNSSATNS-MYN-------PPP 248
>sp|P50901|HOX3_BRAFL Homeobox protein HOX3
Length = 411
Score = 33.9 bits (76), Expect = 0.26
Identities = 24/94 (25%), Positives = 41/94 (43%), Gaps = 4/94 (4%)
Frame = +1
Query: 124 PYITSSVSQANGTSRRTSRFGDRVSLPTQFFTAPPPLDSYNVEWKSVPPPLPPGIVGSVN 303
P S+SQ+N S S G + PPP ++++ ++ P + + G V+
Sbjct: 230 PTTQPSLSQSNNMSNHMSMMGSLQQTQPAYSQYPPPHLNHSLPHQAPPHSVGLTMSGPVS 289
Query: 304 NKVYSTTSS----NSEPYNDPMYNHLAFYAIPPP 393
+ Y + S +S P+ PM NH+ PP
Sbjct: 290 PQCYQSNHSPCPPSSAPHPVPMGNHVPHPRQGPP 323
>sp|O01835|CPB3_CAEEL Cytoplasmic polyadenylation element binding protein 3
Length = 751
Score = 33.5 bits (75), Expect = 0.34
Identities = 30/106 (28%), Positives = 42/106 (39%), Gaps = 12/106 (11%)
Frame = +1
Query: 121 QPYITSSVSQANGTSRRTSRFGDRVSLPTQFFTAPP------------PLDSYNVEWKSV 264
+P +T S S+ N R + F + PT FF + P PL +Y +
Sbjct: 643 EPPMTPSPSEINKNRRSFTEFS---TPPTVFFNSTPVISPQKSVSDGSPLPAYYNSAAFL 699
Query: 265 PPPLPPGIVGSVNNKVYSTTSSNSEPYNDPMYNHLAFYAIPPPLQN 402
PP P GS N+ S S +PY Y +Y PP Q+
Sbjct: 700 TPP--PTYYGSPNHPTSSNISQPQQPY----YGANLYYGFIPPQQH 739
>sp|P05153|PPCKC_CHICK Phosphoenolpyruvate carboxykinase, cytosolic [GTP]
(Phosphoenolpyruvate carboxylase) (PEPCK-C)
Length = 622
Score = 32.0 bits (71), Expect = 0.99
Identities = 22/69 (31%), Positives = 30/69 (43%), Gaps = 1/69 (1%)
Frame = +1
Query: 151 ANGTSRRTSRFGDRVSLPTQFFTAPPPLDSYNVEWKSVPPPLPPGI-VGSVNNKVYSTTS 327
A GTS +T+ + FT V W+ + PLPPG+ + S NK + T
Sbjct: 336 APGTSIKTNPNAIKTIFKNTIFTNVAETSDGGVYWEGIDEPLPPGVTLTSWKNKDW--TP 393
Query: 328 SNSEPYNDP 354
N EP P
Sbjct: 394 DNGEPCAHP 402
>sp|P33748|MSN2_YEAST Zinc finger protein MSN2 (Multicopy suppressor of SNF1 protein 2)
Length = 704
Score = 32.0 bits (71), Expect = 0.99
Identities = 28/121 (23%), Positives = 54/121 (44%), Gaps = 4/121 (3%)
Frame = +1
Query: 7 SSLGKSTLAYTSS-DLSNSKLDVHTEKKFFNNPNDENYVQPYITSSV---SQANGTSRRT 174
+ L T +Y++S SNS + +FN+ N ++ + Y++S + + T+
Sbjct: 225 NQLNSDTNSYSNSISNSNSNSTGNLNSSYFNSLNIDSMLDDYVSSDLLLNDDDDDTNLSR 284
Query: 175 SRFGDRVSLPTQFFTAPPPLDSYNVEWKSVPPPLPPGIVGSVNNKVYSTTSSNSEPYNDP 354
RF D ++ T S++++ + P P ++N ST+SSN+ P
Sbjct: 285 RRFSDVITNQFPSMTNSRNSISHSLDLWNHPKINPSNRNTNLNITTNSTSSSNASPNTTT 344
Query: 355 M 357
M
Sbjct: 345 M 345
>sp|Q02308|HLES_DROME Hairless protein
Length = 1077
Score = 32.0 bits (71), Expect = 0.99
Identities = 26/110 (23%), Positives = 43/110 (39%), Gaps = 5/110 (4%)
Frame = +1
Query: 52 SNSKLDVHTEKKFFNNPNDENYVQPYITSSVSQANGTSRRTSRFGDRVS-----LPTQFF 216
SNS + ++ ND N +SS S+ N TS +S + S +F
Sbjct: 29 SNSSHSSNNNNNGSSSNNDNNSNDDAASSSNSKNNNTSNESSHSNNNTSSIIAEAAAKFL 88
Query: 217 TAPPPLDSYNVEWKSVPPPLPPGIVGSVNNKVYSTTSSNSEPYNDPMYNH 366
S + + +PPPLP + + +T SS+S ++ H
Sbjct: 89 LKNGLNGSSSTSYPPLPPPLPANLSRTTTPTTTTTPSSSSSTASNGFLPH 138
>sp|Q5TJF7|RXRB_CANFA Retinoic acid receptor RXR-beta (Retinoid X receptor beta)
Length = 533
Score = 31.6 bits (70), Expect = 1.3
Identities = 21/72 (29%), Positives = 30/72 (41%), Gaps = 7/72 (9%)
Frame = +1
Query: 199 LPTQFFTAPPPLDSYNVEWKSVPPPLPPGIVGSVN----NKVYSTTSSNSEPYND---PM 357
+P +P P+ S ++ +PPP PPG G V+ N S S P D P+
Sbjct: 124 MPPPQLGSPFPVISSSMGSPGLPPPAPPGFSGPVSSPQINSTVSLPGGGSGPPEDVKPPV 183
Query: 358 YNHLAFYAIPPP 393
+ PPP
Sbjct: 184 LGVRGLHCPPPP 195
>sp|P28702|RXRB_HUMAN Retinoic acid receptor RXR-beta (Retinoid X receptor beta)
Length = 533
Score = 31.2 bits (69), Expect = 1.7
Identities = 21/72 (29%), Positives = 30/72 (41%), Gaps = 7/72 (9%)
Frame = +1
Query: 199 LPTQFFTAPPPLDSYNVEWKSVPPPLPPGIVGSVN----NKVYSTTSSNSEPYND---PM 357
+P +P P+ S ++ +PPP PPG G V+ N S S P D P+
Sbjct: 124 MPPPPLGSPFPVISSSMGSPGLPPPAPPGFSGPVSSPQINSTVSLPGGGSGPPEDVKPPV 183
Query: 358 YNHLAFYAIPPP 393
+ PPP
Sbjct: 184 LGVRGLHCPPPP 195
>sp|P28704|RXRB_MOUSE Retinoic acid receptor RXR-beta (Retinoid X receptor beta) (MHC
class I regulatory element binding protein H-2RIIBP)
Length = 520
Score = 31.2 bits (69), Expect = 1.7
Identities = 21/72 (29%), Positives = 30/72 (41%), Gaps = 7/72 (9%)
Frame = +1
Query: 199 LPTQFFTAPPPLDSYNVEWKSVPPPLPPGIVGSVN----NKVYSTTSSNSEPYND---PM 357
+P +P P+ S ++ +PPP PPG G V+ N S S P D P+
Sbjct: 111 MPPPPLGSPFPVISSSMGSPGLPPPAPPGFSGPVSSPQINSTVSLPGGGSGPPEDVKPPV 170
Query: 358 YNHLAFYAIPPP 393
+ PPP
Sbjct: 171 LGVRGLHCPPPP 182
>sp|P49743|RXRB_RAT Retinoic acid receptor RXR-beta (Retinoid X receptor beta) (Nuclear
receptor coregulator 1)
Length = 458
Score = 31.2 bits (69), Expect = 1.7
Identities = 21/72 (29%), Positives = 30/72 (41%), Gaps = 7/72 (9%)
Frame = +1
Query: 199 LPTQFFTAPPPLDSYNVEWKSVPPPLPPGIVGSVN----NKVYSTTSSNSEPYND---PM 357
+P +P P+ S ++ +PPP PPG G V+ N S S P D P+
Sbjct: 49 MPPPPLGSPFPVISSSMGSPGLPPPAPPGFSGPVSSPQINSTVSLPGGGSGPPEDVKPPV 108
Query: 358 YNHLAFYAIPPP 393
+ PPP
Sbjct: 109 LGVRGLHCPPPP 120
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: 60,622,519
Number of Sequences: 369166
Number of extensions: 1256581
Number of successful extensions: 3981
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 3697
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): 3960
length of database: 68,354,980
effective HSP length: 103
effective length of database: 49,327,275
effective search space used: 3699545625
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)