RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5387
(200 letters)
>2fim_A Tubby related protein 1; tubby filled-barrel, beta-barrel,
filled-beta-roll, 12-stran barrel, helix-filled-barrel,
retinitis pigmentosa; HET: 3DP; 1.90A {Homo sapiens}
PDB: 1s31_A*
Length = 276
Score = 102 bits (256), Expect = 5e-27
Identities = 40/108 (37%), Positives = 66/108 (61%), Gaps = 4/108 (3%)
Query: 95 QKCQMKKKMSVSTERREFRNNMLFKKEFIMQNKAPMWNETSQVYQLDFGGRVTQESAKNF 154
++ ++ + + ++N L + + NK P+WN+ S Y L+F GRVTQ S KNF
Sbjct: 167 ERVPIRPRNASDGLLVRWQNKTL-ESLIELHNKPPVWNDDSGSYTLNFQGRVTQASVKNF 225
Query: 155 QV---EFRGKQVMQFGRIDYNAYTLDFQYPFSAVQAFAVALANITQRL 199
Q+ + V+QFGR+ +A+TLD++YP A+QAFA+AL++ +L
Sbjct: 226 QIVHADDPDYIVLQFGRVAEDAFTLDYRYPLCALQAFAIALSSFDGKL 273
>3c5n_A Tubby-related protein 1; inositol, signalling, alternative
splicing, disease mutation, polymorphism, retinitis
pigmentosa, sensory transduction; HET: I3P; 1.80A {Homo
sapiens} PDB: 1i7e_A* 1c8z_A
Length = 246
Score = 100 bits (249), Expect = 3e-26
Identities = 39/103 (37%), Positives = 64/103 (62%), Gaps = 4/103 (3%)
Query: 95 QKCQMKKKMSVSTERREFRNNMLFKKEFIMQNKAPMWNETSQVYQLDFGGRVTQESAKNF 154
++ ++ + + ++N L + + NK P+WN+ S Y L+F GRVTQ S KNF
Sbjct: 143 ERVPIRPRNASDGLLVRWQNKTL-ESLIELHNKPPVWNDDSGSYTLNFQGRVTQASVKNF 201
Query: 155 QV---EFRGKQVMQFGRIDYNAYTLDFQYPFSAVQAFAVALAN 194
Q+ + V+QFGR+ +A+TLD++YP A+QAFA+AL++
Sbjct: 202 QIVHADDPDYIVLQFGRVAEDAFTLDYRYPLCALQAFAIALSS 244
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 42.7 bits (100), Expect = 4e-05
Identities = 35/187 (18%), Positives = 53/187 (28%), Gaps = 74/187 (39%)
Query: 40 LLNSPM----------LQ------RRRKNTNGSGNSRNVFSEERSSTLDSF---T----S 76
L+N L R+ K +G SR FSE + + F S
Sbjct: 370 LVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHS 429
Query: 77 DY---------KDLETFQSLSYFLFRPQKCQMKKKMSV-STE----RREFRNNMLFKKEF 122
KDL + F + ++ V T R +
Sbjct: 430 HLLVPASDLINKDLVK----NNVSFNAKDI----QIPVYDTFDGSDLRVLSGS------- 474
Query: 123 IMQNKAPM-------WNETSQV---YQLDFG-------GRVTQESAKNFQVEFRGKQVMQ 165
I + W T+Q + LDFG G +T + G +V+
Sbjct: 475 ISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHR-----NKDGTGVRVIV 529
Query: 166 FGRIDYN 172
G +D N
Sbjct: 530 AGTLDIN 536
Score = 26.9 bits (59), Expect = 6.1
Identities = 11/48 (22%), Positives = 20/48 (41%), Gaps = 5/48 (10%)
Query: 54 NGSGNSRNVFSEERSSTL-DSFTSDYKDL--ETFQSLSYFLFRPQKCQ 98
G GN+ + F E R L ++ DL + ++LS + +
Sbjct: 161 GGQGNTDDYFEELRD--LYQTYHVLVGDLIKFSAETLSELIRTTLDAE 206
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 39.8 bits (92), Expect = 3e-04
Identities = 24/168 (14%), Positives = 53/168 (31%), Gaps = 40/168 (23%)
Query: 10 TNIVDASINPTMKKKAHKKC---------TNIVDA-SIKC--LLNSPMLQRRRKNTN--G 55
+ + A + +K K ++ C +A ++ C LL + R ++ T+
Sbjct: 227 IHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTT----RFKQVTDFLS 282
Query: 56 SGNSRNVFSEERSSTLDSFTSDYKDLETFQSLSYFLFRPQKCQMKKKMSVSTERREFRNN 115
+ + ++ + S + T D + S L K RE
Sbjct: 283 AATTTHISLDHHS---MTLTPD-------EVKSLLL----KYL---DCRPQDLPREVLTT 325
Query: 116 MLFKKEFI---MQNKAPMWNETSQVYQLDFGGRVTQESAKNFQ-VEFR 159
+ I +++ W+ D + + S + E+R
Sbjct: 326 NPRRLSIIAESIRDGLATWDNWKH-VNCDKLTTIIESSLNVLEPAEYR 372
Score = 30.2 bits (67), Expect = 0.54
Identities = 20/165 (12%), Positives = 42/165 (25%), Gaps = 54/165 (32%)
Query: 22 KKKAHKKCTNIVDASIKCLLNSPMLQRR--------RKNTN-------------GSGNSR 60
K K T I+++S+ L P R+ + + +
Sbjct: 348 KHVNCDKLTTIIESSLNVL--EPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVM 405
Query: 61 NVFSEERSSTL-----DSFTSDYKDLETFQSLSYFLFRPQ---KCQMKKKMSVS--TERR 110
V ++ +L T + Y + + + + + + V +
Sbjct: 406 VVVNKLHKYSLVEKQPKESTISIPSI-------YLELKVKLENEYALHRSI-VDHYNIPK 457
Query: 111 EFRNNMLFKK-------EFIM-----QNKAPMWNETSQVYQLDFG 143
F ++ L I V+ LDF
Sbjct: 458 TFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVF-LDFR 501
>3kff_A MUP 4, major urinary protein 4; pheromone, lipocalin, beta barrel,
DI bond, pheromone-binding, secreted, transport,
transport Pro; 0.96A {Mus musculus} PDB: 3kfg_A 3kfh_A
3kfi_A 2l9c_A 2lb6_A 1i06_A 1i05_A* 1i04_A 1mup_A 1znd_A
1qy0_A* 1qy2_A* 1qy1_A 1zne_A 1zng_A 1znh_A 1znk_A*
1znl_A* 2dm5_A* 2ozq_A ...
Length = 162
Score = 26.5 bits (58), Expect = 4.5
Identities = 16/99 (16%), Positives = 33/99 (33%), Gaps = 9/99 (9%)
Query: 93 RPQKCQMKKKMSVSTERREFRNNMLFKKEFIMQNKAPMWNETSQVYQLDFGGRVTQESAK 152
+ +K + M V E N L K + + +E V T+++ +
Sbjct: 28 KREKIEEHGSMRVFVEHIHVLENSLAFKFHTVIDG--ECSEIFLVADK------TEKAGE 79
Query: 153 NFQVEFRGKQVMQFGRIDYNAYTLDFQYPFSAVQAFAVA 191
+ V + G + DY+ Y + + F +
Sbjct: 80 -YSVMYDGFNTFTILKTDYDNYIMFHLINEKDGKTFQLM 117
>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0,
hydrogen ION transport, inner membrane, ION transport,
membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A
3dze_A 3e2j_A
Length = 176
Score = 26.3 bits (58), Expect = 5.3
Identities = 11/50 (22%), Positives = 17/50 (34%), Gaps = 9/50 (18%)
Query: 8 KCTNIVDASI---------NPTMKKKAHKKCTNIVDASIKCLLNSPMLQR 48
KC I D + +M + C N+ D I L + L+
Sbjct: 94 KCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGIIALHHFRNLKY 143
>2ra6_A Trichosurin; lipocalin, beta barrel, glycoprotein, MILK protein,
secreted, transport, transport protein; 1.50A
{Trichosurus vulpecula} PDB: 2r73_A 2r74_A
Length = 166
Score = 26.2 bits (57), Expect = 6.5
Identities = 11/98 (11%), Positives = 24/98 (24%), Gaps = 9/98 (9%)
Query: 94 PQKCQMKKKMSVSTERREFRNNMLFKKEFIMQNKAPMWNETSQVYQLDFGGRVTQESAKN 153
+ + + + L +N E A+
Sbjct: 38 RSLIEEEGPFRNFIQNITVESGNLNGFFLTRKNG--QCIPLYLTAFK-------TEEARQ 88
Query: 154 FQVEFRGKQVMQFGRIDYNAYTLDFQYPFSAVQAFAVA 191
F++ + G + + N Y Y + + VA
Sbjct: 89 FKLNYYGTNDVYYESSKPNEYAKFIFYNYHDGKVNVVA 126
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.319 0.129 0.368
Gapped
Lambda K H
0.267 0.0557 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,766,358
Number of extensions: 142230
Number of successful extensions: 305
Number of sequences better than 10.0: 1
Number of HSP's gapped: 303
Number of HSP's successfully gapped: 14
Length of query: 200
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 111
Effective length of database: 4,216,824
Effective search space: 468067464
Effective search space used: 468067464
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (25.4 bits)