RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2699
(398 letters)
>3t5g_B Retinal ROD rhodopsin-sensitive CGMP 3',5'-cyclic phosphodiesterase
subunit delta...; immunoglobulin-like beta sandwitch,
PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} PDB:
1ksg_B* 1ksj_B* 1ksh_B* 3t5i_B*
Length = 152
Score = 152 bits (386), Expect = 2e-45
Identities = 79/126 (62%), Positives = 99/126 (78%)
Query: 173 AQKAKIDDILNGFQVNWMNLRDVDTGELLWQGNDDLSLADSEHEARVPKKILNCRAVSRE 232
A+ + +IL GF++NWMNLRD +TG++LWQG +DLS+ EHEARVPKKIL C+AVSRE
Sbjct: 5 AKDERAREILRGFKLNWMNLRDAETGKILWQGTEDLSVPGVEHEARVPKKILKCKAVSRE 64
Query: 233 LNFSSVQPIQMLKLKQKVLFKNRVLEEWNFDFGFVIPASVNTWQSIIESAPESQMMPAKV 292
LNFSS + ++ +L+QKV FK + LEEW F+FGFVIP S NTWQS+IE+APESQMMPA V
Sbjct: 65 LNFSSTEQMEKFRLEQKVYFKGQCLEEWFFEFGFVIPNSTNTWQSLIEAAPESQMMPASV 124
Query: 293 LNNTTE 298
L
Sbjct: 125 LTGNVI 130
>3gqq_A Protein UNC-119 homolog A; human retinal protein 4, HRG4,
U119A_human, HR3066A, NESG, structural genomics, PSI-2,
protein structure initiative; 1.95A {Homo sapiens} PDB:
3rbq_A*
Length = 195
Score = 110 bits (276), Expect = 6e-29
Identities = 28/144 (19%), Positives = 70/144 (48%), Gaps = 14/144 (9%)
Query: 169 KLTDAQKAKIDDILNGFQVNWMNLRDVDTGELLWQ-----GNDDLSLADSEHEARVPKKI 223
++T ++ + +RD+D+G +L++ ++ L + + + + +
Sbjct: 25 RITGDYLCSPEENIYKIDFVRFKIRDMDSGTVLFEIKKPPVSERLPINRRDLDPNAGRFV 84
Query: 224 --------LNCRAVSRELNFS-SVQPIQMLKLKQKVLFKNRVLEEWNFDFGFVIPASVNT 274
L R V + F+ +P+ ++ ++ F+N++L+ ++F FGF IP+S NT
Sbjct: 85 RYQFTPAFLRLRQVGATVEFTVGDKPVNNFRMIERHYFRNQLLKSFDFHFGFCIPSSKNT 144
Query: 275 WQSIIESAPESQMMPAKVLNNTTE 298
+ I + P S+ + ++++ + E
Sbjct: 145 CEHIYDFPPLSEELISEMIRHPYE 168
>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 = 61.4 bits (148), Expect = 2e-10
Identities = 67/478 (14%), Positives = 140/478 (29%), Gaps = 159/478 (33%)
Query: 2 HHIVDVRTELLVVSC-------------DLETYARYRYPRSHERHCARITSNRENRDHIL 48
HH +D T + + P+S I S E DHI+
Sbjct: 4 HHHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKS-------ILSKEE-IDHII 55
Query: 49 KCGVQNVAQVWNLCFLRFPSALFSTYLFYY--DSAPKNTYKTVEKKTLGI-FSW------ 99
A+ T ++ S + + ++ L I + +
Sbjct: 56 MS----------------KDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIK 99
Query: 100 ---KNPHL-TGLSSNRGEKFFTQIQKYPKE----KEGKAKLRNWVFKEKLSNRTFFAGTR 151
+ P + T + + ++ + Q + K + KLR + + + + G
Sbjct: 100 TEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDG-- 157
Query: 152 DLTETTESPAIMT----SVSVKLTDAQKAKIDDILNGFQVNWMNLRDVDTGEL------- 200
+ + K+ ++ F++ W+NL++ ++ E
Sbjct: 158 -----------VLGSGKTWVALDV-CLSYKVQCKMD-FKIFWLNLKNCNSPETVLEMLQK 204
Query: 201 LWQGNDDLSLADSEHEARVPKKILNCRAVSRELNFSSVQPIQMLKLKQKVLFKNRVLEE- 259
L D + S+H + + +I + +A R L K + L VL
Sbjct: 205 LLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRL--------LKSKPYENCLL---VLLNV 253
Query: 260 WN------FDFG-------------FVIPASVNTWQSIIE-----SAPESQMMPAKVLNN 295
N F+ + A+ T S+ + E + + K L+
Sbjct: 254 QNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDC 313
Query: 296 TTE--PP------PLHDWLLVGQIK-----FKSWKVGKFE-----VESFCQDQEQTPGYT 337
+ P P ++ I+ + +WK + +ES E P
Sbjct: 314 RPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLE--PAEY 371
Query: 338 KQ---TLSQGRSNL-----LMADLW---------------RNTSLLELKGIRNIAFLH 372
++ LS + L++ +W SL+E + + +
Sbjct: 372 RKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIP 429
Score = 28.7 bits (63), Expect = 4.6
Identities = 14/75 (18%), Positives = 28/75 (37%), Gaps = 11/75 (14%)
Query: 17 DLETYARYRYPRSHERHCARITSNRENRDHILKCGVQNVAQVWNLCFLRFPSALFSTYLF 76
L+ Y Y ++ R+ + D + K +N+ LR AL +
Sbjct: 526 QLKFYKPYICD--NDPKYERLVNAIL--DFLPKIE-ENLICSKYTDLLRI--ALMAEDEA 578
Query: 77 YYDSAPKNTYKTVEK 91
++ A +K V++
Sbjct: 579 IFEEA----HKQVQR 589
>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 = 49.7 bits (118), Expect = 1e-06
Identities = 43/258 (16%), Positives = 81/258 (31%), Gaps = 92/258 (35%)
Query: 78 YDSAP--KNTYKTVEK---KTLGIFS-----WKNP-----HLTGLSSNRGEKFFTQIQKY 122
Y ++ ++ + + T G FS NP H G R + ++ + +
Sbjct: 1636 YKTSKAAQDVWNRADNHFKDTYG-FSILDIVINNPVNLTIHFGGEKGKRIRENYSAM-IF 1693
Query: 123 PKEKEGKAKLRNWVFK---EKLSNRTFF--AGTRDLTETTESPAIMTSVSVKLTDAQKAK 177
+GK K +FK E ++ TF G T+ T PA+ + + K+K
Sbjct: 1694 ETIVDGKLKTEK-IFKEINEHSTSYTFRSEKGLLSATQFT-QPALTL-MEKAAFEDLKSK 1750
Query: 178 ----IDDILNGF------------QVNWMNLRD-VDT----GELLWQ-------GNDDLS 209
D G V M++ V+ G + G +
Sbjct: 1751 GLIPADATFAGHSLGEYAALASLADV--MSIESLVEVVFYRGMTMQVAVPRDELGRSNYG 1808
Query: 210 LA-----------DSEHEARVPKKI------------LNC-----------RAV---SRE 232
+ E V +++ N RA+ +
Sbjct: 1809 MIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNV 1868
Query: 233 LNFSSVQPIQMLKLKQKV 250
LNF +Q I +++L++ +
Sbjct: 1869 LNFIKLQKIDIIELQKSL 1886
Score = 47.0 bits (111), Expect = 1e-05
Identities = 76/417 (18%), Positives = 130/417 (31%), Gaps = 151/417 (36%)
Query: 10 ELLVVSCDLETYARYRYP-----RSHERHCARITSNRENRDHILKCGVQNVAQVWNLCFL 64
EL + Y Y + + + + + + G+ N+ + W L
Sbjct: 172 ELR------DLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGL-NILE-W----L 219
Query: 65 RFPSALFSTYLFYYDSAPKNTYKTVEKKTLGIFSWKNPHLTGLSSNRGEKFFTQIQKYPK 124
PS Y S P S P L G+ Q+ Y
Sbjct: 220 ENPSNTPDKD--YLLSIP--------------ISC--P-LIGV---------IQLAHY-- 249
Query: 125 EKEGKAKLRNWVFKEKLSNRTFFAGTRDLTETTESPAIMTSVSVKLTDAQKAKIDDILNG 184
AKL + E R++ G T S ++T+V++ TD+ ++ +
Sbjct: 250 --VVTAKLLGFTPGEL---RSYLKGA-----TGHSQGLVTAVAIAETDSWESFFVSVRKA 299
Query: 185 FQVNWMNLRDVDTGELLWQG--------NDDLS---LADS-EHEARVPKKILNCRAVSRE 232
V L + G N L L DS E+ VP +L+ +++E
Sbjct: 300 ITV------------LFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQE 347
Query: 233 LNFSSVQPIQMLKLKQKVLFKNRVLEEWNFDFGFVIPAS-VNTWQSIIESAPESQMMPAK 291
Q+ K N L G + S VN ++++ S P
Sbjct: 348 ---------QVQDYVNKT---NSHLPA-----GKQVEISLVNGAKNLVVSGP-------- 382
Query: 292 VLNNTTEPPPLHDWLLVGQIKFKSWKVGKFEVESFCQDQEQTPGYTKQTLS-QGR----- 345
P L+ L ++ K + S DQ + P ++++ L R
Sbjct: 383 -------PQSLY--GLNLTLR-------KAKAPSGL-DQSRIP-FSERKLKFSNRFLPVA 424
Query: 346 ----SNLL-------MADLWRNTSLLELKGIRNIAFLHIP---SEVGSNIYFQSSSV 388
S+LL DL +N + + IP + GS++ S S+
Sbjct: 425 SPFHSHLLVPASDLINKDLVKNN--VSFNA----KDIQIPVYDTFDGSDLRVLSGSI 475
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 39.2 bits (90), Expect = 7e-04
Identities = 7/30 (23%), Positives = 14/30 (46%), Gaps = 9/30 (30%)
Query: 276 QSI--IES-----APESQMMPAKVLNNTTE 298
Q++ +++ A +S PA + T E
Sbjct: 20 QALKKLQASLKLYADDSA--PALAIKATME 47
Score = 28.8 bits (63), Expect = 2.0
Identities = 9/27 (33%), Positives = 14/27 (51%), Gaps = 4/27 (14%)
Query: 65 RFPSALFSTYLFYYDSAPKNTYK-TVE 90
+ ++L L+ DSAP K T+E
Sbjct: 24 KLQASL---KLYADDSAPALAIKATME 47
>3chm_A COP9 signalosome complex subunit 7; heat/ARM repeats, winged helix
motif, developmental protein, phosphoprotein; 1.50A
{Arabidopsis thaliana}
Length = 169
Score = 28.4 bits (63), Expect = 3.2
Identities = 10/43 (23%), Positives = 19/43 (44%), Gaps = 3/43 (6%)
Query: 158 ESPAIMTSVSVKLTDAQKAKIDDILNGFQVNWMNLRDVDTGEL 200
E I + + + K+D + F+V + RD+ G+L
Sbjct: 128 EDFLINECMYAGIV---RGKLDQLKRCFEVPFAAGRDLRPGQL 167
>3rlb_A THIT; S-component, ECF transporter, ABC transporter, substrate-BIN
domain, membrane, thiamine-binding protein; HET: BNG
VIB; 2.00A {Lactococcus lactis subsp}
Length = 192
Score = 27.1 bits (60), Expect = 7.8
Identities = 4/24 (16%), Positives = 9/24 (37%)
Query: 62 CFLRFPSALFSTYLFYYDSAPKNT 85
L++ + +F+ A K
Sbjct: 128 VLLKYFFHFIAGIIFWSQYAWKGW 151
>3oeo_A Spheroplast protein Y; LTXXQ, extracytoplasmic stress
response-related, signaling P; 2.70A {Escherichia coli}
Length = 138
Score = 26.5 bits (58), Expect = 8.8
Identities = 11/52 (21%), Positives = 23/52 (44%), Gaps = 5/52 (9%)
Query: 168 VKLTDAQKAKIDDILNGFQVNWMNLRDVDTGELLWQGNDDLSLADSEHEARV 219
+ LTDAQK +I +I+ G + + + D+ +D+ + +
Sbjct: 32 LNLTDAQKQQIREIMKGQRDQMKRPPLEERRAM-----HDIITSDTFDKVKA 78
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 0.133 0.404
Gapped
Lambda K H
0.267 0.0524 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,867,546
Number of extensions: 325899
Number of successful extensions: 511
Number of sequences better than 10.0: 1
Number of HSP's gapped: 508
Number of HSP's successfully gapped: 13
Length of query: 398
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 302
Effective length of database: 4,021,377
Effective search space: 1214455854
Effective search space used: 1214455854
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: 58 (26.6 bits)