RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy980
(587 letters)
>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 = 40.0 bits (93), Expect = 0.003
Identities = 37/225 (16%), Positives = 64/225 (28%), Gaps = 51/225 (22%)
Query: 385 EEKKDGSFDRGATNEEKKDGSEALLVIFDYKF-SSHDIVCFIVCSVFGSW---YLVKKHW 440
E K G FD+ L F+ + +DI + + K
Sbjct: 73 EPSKVGQFDQVL---------NLCLTEFENCYLEGNDIHAL-AAKLLQENDTTLVKTKEL 122
Query: 441 IANNLFGLAFAVNGIELLH----LNNVMIGVILLCGLF---------------IYDIFWV 481
I N + A + V G L +F +Y + V
Sbjct: 123 IKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHV 182
Query: 482 FGTNVMVTVAKSFEAPIKYVHESFKGLTQWFSNFFAWHLGLMATIFVMHVFKHAQPALLY 541
+++ A++ I+ ++ K TQ N W L P Y
Sbjct: 183 LVGDLIKFSAETLSELIRTTLDAEKVFTQGL-NILEW---LENP--------SNTPDKDY 230
Query: 542 LVPACLGLPLLVALVKGDLSALINVVVSEVDMGLAVGWWFDTMSS 586
L+ + PL+ + L + VV+ +G G +
Sbjct: 231 LLSIPISCPLIG------VIQLAHYVVTAKLLGFTPGELRSYLKG 269
Score = 39.3 bits (91), Expect = 0.004
Identities = 53/279 (18%), Positives = 84/279 (30%), Gaps = 75/279 (26%)
Query: 217 VMHVFKHAQPALLYLVPACLGLPLLIIARISLMDNRYPTA------GQRSHLHFSI-EFY 269
V+ A G +L I +N P G++ I E Y
Sbjct: 1642 AQDVWNRADNHFK----DTYGFSILDIVI----NN--PVNLTIHFGGEKGK---RIRENY 1688
Query: 270 PDHLLKRRNNNNRFCAISISSLNRRSNTYFNTAFLAYFLG----LMATIFVMHVFKHAQP 325
+ + + +N S +Y F L AT F QP
Sbjct: 1689 SAMIFETIVDGKLKTEKIFKEINEHSTSYT-------FRSEKGLLSATQF-------TQP 1734
Query: 326 ALL---YLFFSKDMIN--LLLTGYFFL---LG-VLALCYLLSPVISPLVPAAIPNIPFHL 376
AL F +D+ + L+ F LG AL L+ V+S + + + +
Sbjct: 1735 ALTLMEKAAF-EDLKSKGLIPADATFAGHSLGEYAALAS-LADVMS--IESLV-----EV 1785
Query: 377 KFDRGAT------NEEKKDGSFDRGATNEEK---KDGSEALLVIFDYKFSSHDIVCFIV- 426
F RG T +E ++ A N + EAL + + + IV
Sbjct: 1786 VFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVN 1845
Query: 427 --CSVFGSWYLVKKHWIANNLFGLAFAVNGIELLHLNNV 463
Y V A +L L N + + L +
Sbjct: 1846 YNVE--NQQY-V----AAGDLRALDTVTNVLNFIKLQKI 1877
Score = 36.2 bits (83), Expect = 0.036
Identities = 81/529 (15%), Positives = 145/529 (27%), Gaps = 147/529 (27%)
Query: 35 PNIPFHL--KF----DRGATNEEKKDGSEALLVIFDYKFSS--------HDIVCFIVCSV 80
P P L KF + + L + F + H + ++
Sbjct: 54 PTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTE-FENCYLEGNDIHALAAKLLQEN 112
Query: 81 FGSWYLVKKHWIANNLFGLAFAVNGIELLH----LNNVMIGVILLCGLF----------- 125
+ + K I N + A + V G L +F
Sbjct: 113 DTT-LVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFE 171
Query: 126 ----IYDIFWVFGTNVMVTVAKSFEAPIKL------VFPQ--DL---LEHGVSANNFAML 170
+Y + V +++ A++ I+ VF Q ++ LE+ + + L
Sbjct: 172 ELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYL 231
Query: 171 GLGDIVVPGIFIALLLRFDLSLNRRSNTYFNTAFLAYFLGL---MATIFVMHVFKHAQ-- 225
I P I + L + ++ T +Y G +
Sbjct: 232 LSIPISCPLIGVIQLAHYVVTAKLLGFTPGE--LRSYLKGATGHSQGLVTAVAIAETDSW 289
Query: 226 PALLYLVPACLGLPLLIIARISLMDNRYPTAGQRSHLHFSIEFYPDHLLKRRNNNNRFCA 285
+ V + + L I G R + + P +L+ NN
Sbjct: 290 ESFFVSVRKAITV-LFFI-------------GVRCYEAYPNTSLPPSILEDSLENNEGVP 335
Query: 286 ---ISISSLNR--------RSNTYFNTAFLAYFLGLM--ATIFVM--HVFKHAQPALLYL 330
+SIS+L + ++N++ + L+ A V+ P LY
Sbjct: 336 SPMLSISNLTQEQVQDYVNKTNSHLPAGKQVE-ISLVNGAKNLVVSGP------PQSLYG 388
Query: 331 FFSKDMINLLLTGYFFLLG-------------VLALCYLLSPVISPLVPAAIPNIPFHLK 377
NL L G + +L PV PFH
Sbjct: 389 L------NLTLRKAKAPSGLDQSRIPFSERKLKFSNRFL--PV----------ASPFHSH 430
Query: 378 FDRGATNEEKKDGSFDRGATNEEKKDGSEALLVIF------DYKFSSHDIVCFIVCSVFG 431
A++ KD N + + + ++ D + S I IV
Sbjct: 431 LLVPASDLINKD-----LVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIV----- 480
Query: 432 SWYLVKK-HWIANNLFG----LAF---AVNGIELLHLNNVM---IGVIL 469
+ W F L F +G+ +L N + VI+
Sbjct: 481 DCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRVIV 529
Score = 33.5 bits (76), Expect = 0.27
Identities = 16/60 (26%), Positives = 25/60 (41%), Gaps = 23/60 (38%)
Query: 136 NVMVTVAKSFEAPIKLVF----------PQDLLEHGVSANNFAMLGLGDIVVPGIFIALL 185
+VM S E+ +++VF P+D E G S N+ M+ + PG A
Sbjct: 1775 DVM-----SIESLVEVVFYRGMTMQVAVPRD--ELGRS--NYGMIA----INPGRVAASF 1821
Score = 30.8 bits (69), Expect = 1.6
Identities = 32/158 (20%), Positives = 50/158 (31%), Gaps = 46/158 (29%)
Query: 433 WYLVKKHWIANNLFGLAFAVNGIELLHLNNVMIGVILLC---GLFIYDIFWVFGTNVMVT 489
W H+ +G F++ I +NN + I G I + + +V
Sbjct: 1646 WNRADNHFKDT--YG--FSILDI---VINNPVNLTIHFGGEKGKRIRENYSAMIFETIVD 1698
Query: 490 VAKSFEAPIKYVHESFKGLTQWFSNFFAWHLGLMATIFVMHVFKHAQPALL--------- 540
E K ++E T F + L AT F QPAL
Sbjct: 1699 GKLKTEKIFKEINEHSTSYT-----FRSEKGLLSATQF-------TQPALTLMEKAAFED 1746
Query: 541 ----YLVP---ACLGLPLLVALVKGDLSALINVVVSEV 571
L+P G L G+ +AL +++V
Sbjct: 1747 LKSKGLIPADATFAGHSL------GEYAAL--ASLADV 1776
>2kr6_A Presenilin-1; protease, alternative splicing, alzheimer disease,
amyloidos apoptosis, cell adhesion, disease mutation;
NMR {Homo sapiens}
Length = 176
Score = 33.7 bits (76), Expect = 0.080
Identities = 19/60 (31%), Positives = 29/60 (48%), Gaps = 4/60 (6%)
Query: 169 MLGLGDIVVPGIFIALLLRFDLSLNRRSNTYFNTAFLAYFLGLMATIFVMHVFKHAQPAL 228
LGLGD IF ++L+ + F+A +GL T+ ++ +FK A PAL
Sbjct: 89 KLGLGDF----IFYSVLVGKASATASGDWNTTIACFVAILIGLCLTLLLLAIFKKALPAL 144
Score = 27.6 bits (60), Expect = 9.8
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 301 TAFLAYFLGLMATIFVMHVFKHAQPAL 327
F+A +GL T+ ++ +FK A PAL
Sbjct: 118 ACFVAILIGLCLTLLLLAIFKKALPAL 144
>1pw4_A Glycerol-3-phosphate transporter; transmembrane, inner membrane,
major facilitator superfamily, secondary active membrane
transporter; 3.30A {Escherichia coli} SCOP: f.38.1.1
Length = 451
Score = 30.8 bits (70), Expect = 1.2
Identities = 20/146 (13%), Positives = 46/146 (31%), Gaps = 15/146 (10%)
Query: 422 VCFIVCSVFGSW---YLVKKHWIANNLF---GLAFAVNGIELLHLNNVMIGVILLC--GL 473
I ++ W + + + A +F + A + N + +I + G
Sbjct: 299 YAGIPGTLLCGWMSDKVFRGNRGATGVFFMTLVTIATIVYWMNPAGNPTVDMICMIVIGF 358
Query: 474 FIYDIFWVFGTNVMVTVAKSFEAPIKYVHESFKGLTQWFSNFFAWHLGLMATIFVMHVFK 533
IY + G + + K + G T F + + F
Sbjct: 359 LIYGPVMLIGLHALELAPKKAAG-------TAAGFTGLFGYLGGSVAASAIVGYTVDFFG 411
Query: 534 HAQPALLYLVPACLGLPLLVALVKGD 559
++ + + L + LL+ ++ G+
Sbjct: 412 WDGGFMVMIGGSILAVILLIVVMIGE 437
>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 = 29.4 bits (65), Expect = 4.1
Identities = 48/337 (14%), Positives = 94/337 (27%), Gaps = 106/337 (31%)
Query: 271 DHLLKRRNNNNRFCAISISSLNRRSNTY--F-------NTAFLAYFL-------GLMATI 314
DH++ ++ + + + L+++ F N FL + +M +
Sbjct: 52 DHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRM 111
Query: 315 FV---------------MHV-----FKHAQPALLYLFFSKDMINLLLTGYFFLLG----V 350
++ +V + + ALL L + N+L+ G +LG
Sbjct: 112 YIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLEL---RPAKNVLIDG---VLGSGKTW 165
Query: 351 LALCYLLSPVISPLVPAAIPNIPFHLKFDRGATNEEKKDGSFDRGATNEEKKDGSEALLV 410
+AL LS + + I F L N E + + LL
Sbjct: 166 VALDVCLSYKVQCKMDFKI----FWLNL--KNCNSP------------ETVLEMLQKLLY 207
Query: 411 IFDYKFSSHDIVCFIVCSVFGSWYLVKKHWIANNLFGLAFAVNGIELLHLNNVMIGVILL 470
D ++S + S + + + + LL L NV
Sbjct: 208 QIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENC-------LLVLLNV------- 253
Query: 471 CGLFIYDIFWVFGTNVMVT-----VAKSFEAPIKYVHESF----KGLTQWFSNFFAWHLG 521
++ F +++T V F + H S LT
Sbjct: 254 QNAKAWNAF-NLSCKILLTTRFKQVT-DFLSAATTTHISLDHHSMTLTPDEV------KS 305
Query: 522 LMATIFVMHVFKHAQPALLYLVP--ACLGLPLLVALV 556
L+ +P P ++++
Sbjct: 306 LLLKYLDCRPQD---------LPREVLTTNPRRLSII 333
Score = 29.1 bits (64), Expect = 5.9
Identities = 63/438 (14%), Positives = 102/438 (23%), Gaps = 181/438 (41%)
Query: 58 ALLVIFDYKFSSHDIVCFIVCSVFGSWYLVKKHWIANNLFGLAFAVNGIELLHLNNVMIG 117
AL V YK + C + +F W+ + + L L
Sbjct: 167 ALDVCLSYK-----VQCKMDFKIF---------WLN---LKNCNSPETV-LEMLQK---- 204
Query: 118 VILLCGLFIYDIFWVFGTNVMVTVAKSFEAPIKLVFPQDLLEHGVSANNF--AMLGLGDI 175
L Y I N S +++ Q L + + + +L L ++
Sbjct: 205 ---LL----YQI----DPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNV 253
Query: 176 VVPGIFIALLLRFDLSLNRRSNTYFNTAFLAYFLGLMATIFVMHVFKHAQPAL------- 228
+ A F+L T F L A H L
Sbjct: 254 QNAKAWNA----FNL----SCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKS 305
Query: 229 ---LYL------VP--ACLGLPL---LIIARISLMDNRYPTAGQRSHLHFSIEFYPDHLL 274
YL +P P +I I + +
Sbjct: 306 LLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLAT-------------WDNW----- 347
Query: 275 KRRNNNNRFCAISISSLNRRSNTYFNTAF--LAYF----------LGL----MATIFVMH 318
+ N ++ I SSLN + F L+ F L L + VM
Sbjct: 348 -KHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMV 406
Query: 319 ----------VFKHAQPALLYL------------------------------FFSKDMIN 338
V K + + + + F S D+I
Sbjct: 407 VVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIP 466
Query: 339 LLLTGYFFLLGVLALCYLLSPVISPLVPAAIPNIPFHLKFDRGATNEEKKDGSFDRGATN 398
L YF+ + I HLK +
Sbjct: 467 PYLDQYFY-------SH----------------IGHHLK-----------------NIEH 486
Query: 399 EEKKDGSEALLVIFDYKF 416
E+ + D++F
Sbjct: 487 PERMTLFRMVF--LDFRF 502
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
0.331 0.145 0.458
Gapped
Lambda K H
0.267 0.0537 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 9,116,220
Number of extensions: 557612
Number of successful extensions: 1074
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1066
Number of HSP's successfully gapped: 29
Length of query: 587
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 488
Effective length of database: 3,937,614
Effective search space: 1921555632
Effective search space used: 1921555632
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 60 (27.3 bits)