RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7467
(295 letters)
>4aw6_A CAAX prenyl protease 1 homolog; hydrolase, M48 peptidase, integral
membrane protein, prelami processing, ageing, progeria;
HET: PC1; 3.40A {Homo sapiens}
Length = 482
Score = 135 bits (340), Expect = 1e-36
Identities = 119/330 (36%), Positives = 166/330 (50%), Gaps = 77/330 (23%)
Query: 43 AVNLKMEFTLEFQIFYGIIGFSWIVFLFEFYLSIRQRRVYHETTIVPHQIAHGMDAESFE 102
+++ E E +IF ++ FSW V+L+E +L+ RQRR+Y TT VP ++ MD+E+FE
Sbjct: 6 SLDALWEMPAEKRIFGAVLLFSWTVYLWETFLAQRQRRIYKTTTHVPPELGQIMDSETFE 65
Query: 103 KSRRYSLDKNVFSMFKETVSNVMN---TTYGFFVKDQIKS-------------------- 139
KSR Y LDK+ FS + S +G S
Sbjct: 66 KSRLYQLDKSTFSFWSGLYSETEGTLILLFGGIPYLWRLSGRFCGYAGFGPEYEITQSLV 125
Query: 140 -----FIVSLILSIPLTGAVVYIIQ--------------------------VGGNMVFLY 168
+ S + +P + ++I+ + + L
Sbjct: 126 FLLLATLFSALAGLPWSLYNTFVIEEKHGFNQQTLGFFMKDAIKKFVVTQCILLPVSSLL 185
Query: 169 LWVFIILMSLF--------------LMTIYPEFIAPLFDKYTPLPDGELKSRIEQLSASV 214
L++ I F L+TIY ++IAPLFDK+TPLP+G+LK IE ++ S+
Sbjct: 186 LYIIKIGGDYFFIYAWLFTLVVSLVLVTIYADYIAPLFDKFTPLPEGKLKEEIEVMAKSI 245
Query: 215 KFPLKKLYVVEGSKRSEHSNAYFYGFFKNKRIVLFDTLLKDYVPLNADKKDKS------- 267
FPL K+YVVEGSKRS HSNAYFYGFFKNKRIVLFDTLL++Y LN D ++ S
Sbjct: 246 DFPLTKVYVVEGSKRSSHSNAYFYGFFKNKRIVLFDTLLEEYSVLNKDIQEDSGMEPRNE 305
Query: 268 --GDSEPLISTEGANKKGCDTEEVLAVLAH 295
G+SE + + K+GC EEVLAVL H
Sbjct: 306 EEGNSEEIKAKVKNKKQGCKNEEVLAVLGH 335
>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 = 36.8 bits (84), Expect = 0.009
Identities = 30/166 (18%), Positives = 59/166 (35%), Gaps = 38/166 (22%)
Query: 90 HQIAHGMDAESFEKSRRYSLDKNVFSMFKET------VSNVMNTTYGFFVKDQIKSFIVS 143
H H MD E+ E +Y K++ S+F++ +V + K++I I+S
Sbjct: 1 HHHHHHMDFETGEHQYQY---KDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMS 57
Query: 144 ---------LILSIPLTGAVVYIIQVGGNMVFLYLWVFIILMSLF---------LMTIYP 185
L ++ + V + Y + LMS + +Y
Sbjct: 58 KDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKF----LMSPIKTEQRQPSMMTRMYI 113
Query: 186 EFIAPLFDKYTPLPDGELKSRIEQLSASVKFPLKKL----YV-VEG 226
E L++ + SR++ ++ L +L V ++G
Sbjct: 114 EQRDRLYNDNQVFAKYNV-SRLQPYLK-LRQALLELRPAKNVLIDG 157
Score = 36.0 bits (82), Expect = 0.016
Identities = 33/282 (11%), Positives = 79/282 (28%), Gaps = 101/282 (35%)
Query: 28 NVPRLIVDSLIRQYWAVNLKMEFTLEFQIFYGIIGF--SWIV------------FLFE-F 72
NV RL +RQ + L+ + + G++G +W+ F+ F
Sbjct: 130 NVSRLQPYLKLRQ-ALLELRPA---KNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIF 185
Query: 73 YLSIRQRR-----------VYHETTIVPHQIAHGMDAESFE------------KSRRY-- 107
+L+++ + ++ + KS+ Y
Sbjct: 186 WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYEN 245
Query: 108 SL-------DKNVFSMFK-----------ETVSNVMN--TTYGFFVKDQIKSF------- 140
L + ++ F + V++ ++ TT + +
Sbjct: 246 CLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKS 305
Query: 141 IVSLILSI-------------PLTGAVV-YIIQVGGNMV--FLYL--WVFIILMSLFLMT 182
++ L P +++ I+ G + ++ ++ L
Sbjct: 306 LLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNV 365
Query: 183 IYPEFIAPLFDKYTPLPDGELKSRIEQLSASVKFPLKKLYVV 224
+ P +FD+ + P S P L ++
Sbjct: 366 LEPAEYRKMFDRLSVFPP------------SAHIPTILLSLI 395
>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 = 32.2 bits (72), Expect = 0.083
Identities = 12/61 (19%), Positives = 15/61 (24%), Gaps = 38/61 (62%)
Query: 215 KFPLKKLYVVEGSKRSEHSNAYFYGFFKNKRIVLFDTLLKDYVPLNADKKDKSGDSEPLI 274
K LKKL + S LK Y DS P +
Sbjct: 19 KQALKKL---QAS-------------------------LKLYAD----------DSAPAL 40
Query: 275 S 275
+
Sbjct: 41 A 41
Score = 29.5 bits (65), Expect = 0.68
Identities = 7/19 (36%), Positives = 11/19 (57%), Gaps = 5/19 (26%)
Query: 204 KSRIEQLSASVKFPLKKLY 222
K +++L AS+ KLY
Sbjct: 19 KQALKKLQASL-----KLY 32
>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 = 31.2 bits (70), Expect = 0.46
Identities = 39/251 (15%), Positives = 68/251 (27%), Gaps = 88/251 (35%)
Query: 54 FQIFYGIIGFSWIV----FLF------EFYLSIRQR-RVY---HETTIVPHQIAH--GMD 97
+ +G + +V F +F + + + E T + G
Sbjct: 9 LTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYV 68
Query: 98 AESFEKSRRYSLD---KNVFSMFKETV---SNV---------MNTTYGFFVKDQIKSFIV 142
+ E S+ D + F+ +++ N T K+ IK++I
Sbjct: 69 SSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYIT 128
Query: 143 SLILS-IPLT--------------GAVVYII---QVGGNMVFLYLWVFIILMSLFLMTIY 184
+ I++ P A + I Q GN Y F L L+ Y
Sbjct: 129 ARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQ--GN-TDDY---FEELRDLY--QTY 180
Query: 185 PEFIAPLFDKYTPL---------------PDG-ELKSRIEQ----------LSASVKFPL 218
+ L G + +E LS + PL
Sbjct: 181 HVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPL 240
Query: 219 KKL-----YVV 224
+ YVV
Sbjct: 241 IGVIQLAHYVV 251
>4f82_A Thioredoxin reductase; structural genomics, niaid, national
institute of allergy AN infectious diseases; 1.85A
{Burkholderia cenocepacia}
Length = 176
Score = 27.2 bits (61), Expect = 4.7
Identities = 10/52 (19%), Positives = 15/52 (28%), Gaps = 14/52 (26%)
Query: 198 LPDGELKSRIEQLSASVKFPLKKLYVVEGSKRSEHSNAYFYGFFKNKRIVLF 249
LPD +L I+ V + KR+V+F
Sbjct: 16 LPDAQLFEFIDDAREGCTLGPNACSVRD--------------QVAGKRVVIF 53
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
0.325 0.141 0.423
Gapped
Lambda K H
0.267 0.0762 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,443,488
Number of extensions: 261202
Number of successful extensions: 582
Number of sequences better than 10.0: 1
Number of HSP's gapped: 573
Number of HSP's successfully gapped: 15
Length of query: 295
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 202
Effective length of database: 4,105,140
Effective search space: 829238280
Effective search space used: 829238280
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 57 (25.7 bits)