RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8200
(530 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 = 50.8 bits (121), Expect = 9e-07
Identities = 79/469 (16%), Positives = 121/469 (25%), Gaps = 181/469 (38%)
Query: 118 LIP--LLVGCEVLSDE----TSEDTSERITERRFKLIVEAPYLIKKIIGVDFVYFLQRNE 171
L+P L ++ E T + E L+ K +G +V
Sbjct: 21 LVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAE---LVGKFLG--YV------- 68
Query: 172 LDWRNRTLEIESKNETFSNRVIVLEKCRYFVHPENPDWTCFEQN--AELDVKSF---FGF 226
+ +E SK F VL C T FE D+ +
Sbjct: 69 ----SSLVE-PSKVGQFDQ---VLNLC----------LTEFENCYLEGNDIHALAAKLLQ 110
Query: 227 ENTIEKLAMKQYITN-----------ISKGKE-ILEHHVE--------VLKGEGITHVPQ 266
EN + K+ I N K L V + G+G
Sbjct: 111 ENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQG------ 164
Query: 267 WQPPKNMEIC-DELNKL-----DLKTD-ISVEENHLDRMRRQGSMSPS--GTSLSLIDKN 317
N + +EL L L D I L + R + L++++
Sbjct: 165 -----NTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILE-- 217
Query: 318 WTEGADYERVESPILCHDGESIQGSHVTSRDELSFMFLLVWYYCTLTIRESILKVNG--- 374
W E + L S V L Y T K+ G
Sbjct: 218 WLENPS-NTPDKDYLLSIPISCPLIGVIQ---------LAHYVVTA-------KLLGFTP 260
Query: 375 ----SRIKGWWRMHHFISTVC-----SAVLLIWPNSVTWHLFRPQFMVFNVYISVVQALQ 425
S +KG +T +AV + + +W F ++SV +A+
Sbjct: 261 GELRSYLKG--------ATGHSQGLVTAVAI--AETDSWESF---------FVSVRKAIT 301
Query: 426 --FWYQQGVLYRLKALGERHNMDITIEGQNPIPPDELPP-PYQAS------QPGQVPMVT 476
F+ I + P LPP + S P PM++
Sbjct: 302 VLFF-------------------IGVRCYEAYPNTSLPPSILEDSLENNEGVPS--PMLS 340
Query: 477 CRVCQAMIDISGKRDQHVVKCV-HCNEATP--------VKNAPAGKKYV 516
+ V V N P + N K V
Sbjct: 341 IS---------NLTQEQVQDYVNKTNSHLPAGKQVEISLVNGA--KNLV 378
>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 = 35.6 bits (81), Expect = 0.043
Identities = 47/368 (12%), Positives = 113/368 (30%), Gaps = 89/368 (24%)
Query: 150 EAPYLIKKIIGV---DFVYFLQRNELDWRNRTLEIESKNETFSNRVIVLEKCRYFVHPEN 206
E Y K I+ V FV + D + +++ ++ E+ + + ++
Sbjct: 13 EHQYQYKDILSVFEDAFV-----DNFDCK----DVQD----MPKSILSKEEIDHIIMSKD 59
Query: 207 PD------WTCFEQNAELDVKSFFG---------------FENTIEKLAMKQYITNISKG 245
+ E V+ F E + + YI +
Sbjct: 60 AVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDR- 118
Query: 246 KEILEHHVEVLKGEGITHVPQWQPPKNMEICDELNKLDLKTDISVEENHLDRMRRQGSMS 305
L + +V +V + +++ L +L ++ + G +
Sbjct: 119 ---LYNDNQVFAKY---NVSR--LQPYLKLRQALLELRPAKNVLI----------DG-VL 159
Query: 306 PSG-TSLSLIDKNWTEGADYERVESPILCHDGES--IQGSHVTSRDELSFMFLLVWY--- 359
SG T ++L + +V+ D + + + S + + M + Y
Sbjct: 160 GSGKTWVAL------DVCLSYKVQC---KMDFKIFWLNLKNCNSPETVLEMLQKLLYQID 210
Query: 360 --YCTLTIRESILKVNGSRIKGWWRMHHFISTVCSAVLLI----WPNSVTWHLF--RPQF 411
+ + + S +K+ I+ R S LL+ N+ W+ F +
Sbjct: 211 PNWTSRSDHSSNIKLRIHSIQAELR-RLLKSKPYENCLLVLLNVQ-NAKAWNAFNLSCKI 268
Query: 412 MVFNVYISVVQALQFWYQQGVL--YRLKALGERHNMDITIEGQNPIPPDELPPPYQASQ- 468
++ + V L + + L + ++ + P +LP +
Sbjct: 269 LLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLD-CRPQDLPR--EVLTT 325
Query: 469 -PGQVPMV 475
P ++ ++
Sbjct: 326 NPRRLSII 333
Score = 32.5 bits (73), Expect = 0.44
Identities = 37/249 (14%), Positives = 78/249 (31%), Gaps = 53/249 (21%)
Query: 68 GLIPKSLYMSEADWERGTHAMTEDTVYHSVSVSRNHPVHEAYERR--------FPTCPLI 119
+I +S+ A W+ H + D + + S N V E E R FP I
Sbjct: 331 SIIAESIRDGLATWDNWKH-VNCDKLTTIIESSLN--VLEPAEYRKMFDRLSVFPPSAHI 387
Query: 120 PLLVGCEVLSDETSEDTSERITE--RRFKLIVEAPYLIKKIIGVDFVYFLQRNELDWRNR 177
P ++ ++ + + + ++ L+ + P + + L+
Sbjct: 388 PTIL-LSLIWFDVIKSDVMVVVNKLHKYSLVEKQPK--------ESTISIPSIYLE---- 434
Query: 178 TLEIESKNETFSNRVIVLEKCRYFVHPENPDWTCFEQNAELDVKSFFGF-----ENTIEK 232
L+++ +NE +R IV Y + + S G E+
Sbjct: 435 -LKVKLENEYALHRSIV---DHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERM 490
Query: 233 LAMKQYITNIS--KGKEILEHHVEVLKGEGITHVPQWQPPKNMEICDELNKLDL-KTDIS 289
+ + + K ++ + W + I + L +L K I
Sbjct: 491 TLFRMVFLDFRFLEQK---------IRHDS----TAWNASGS--ILNTLQQLKFYKPYIC 535
Query: 290 VEENHLDRM 298
+ +R+
Sbjct: 536 DNDPKYERL 544
Score = 30.2 bits (67), Expect = 2.3
Identities = 24/240 (10%), Positives = 60/240 (25%), Gaps = 83/240 (34%)
Query: 110 ERRFPTCPLI-----------PLLVGCEVLSDETSEDTSERITERRFKLIVEAPYLIKKI 158
+ + C L+ + C++L T+ +T+ + I
Sbjct: 240 SKPYENCLLVLLNVQNAKAWNAFNLSCKILL--TTRFKQ--VTD------FLSAATTTHI 289
Query: 159 IGVDFVYFLQRNELDWRNRTLEIESKNETFSNRVIVL--EKCRYFVHP-----------E 205
L +E + K R L E +P +
Sbjct: 290 SLDHHSMTLTPDE------VKSLLLKY--LDCRPQDLPREVLT--TNPRRLSIIAESIRD 339
Query: 206 NPD-WTCFEQNAELDVKSFFGFENTIEKLA---MKQYITNISKGKEILEHHVEVLKGEGI 261
W ++ + + E+++ L ++ +S + +
Sbjct: 340 GLATWDNWKHVNCDKLTTII--ESSLNVLEPAEYRKMFDRLS----VFPPSAHI------ 387
Query: 262 THVPQWQPPKNMEICDELNKLDLKTDISVEENHLDRMRRQGSMSPSGTSLSLIDKNWTEG 321
P + + + S ++++ + SL++K E
Sbjct: 388 -------PTILLSL------IWFDVIKSDVMVVVNKLHKY----------SLVEKQPKES 424
>2g2k_A EIF-5, eukaryotic translation initiation factor 5; EIF125 fold; NMR
{Homo sapiens}
Length = 170
Score = 32.0 bits (72), Expect = 0.30
Identities = 9/54 (16%), Positives = 15/54 (27%), Gaps = 14/54 (25%)
Query: 475 VTCRVCQA---MIDISGKRDQHVVKCVHCNEATPV-----------KNAPAGKK 514
V C C+ + ++ K+ C C + KN P
Sbjct: 97 VLCPECENPETDLHVNPKKQTIGNSCKACGYRGMLDTHHKLCTFILKNPPENSD 150
>2e9h_A EIF-5, eukaryotic translation initiation factor 5; zinc binding, C4
type zinc finger, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 157
Score = 31.1 bits (70), Expect = 0.39
Identities = 6/37 (16%), Positives = 12/37 (32%), Gaps = 3/37 (8%)
Query: 475 VTCRVCQA---MIDISGKRDQHVVKCVHCNEATPVKN 508
V C C+ + ++ K+ C C +
Sbjct: 104 VLCPECENPETDLHVNPKKQTIGNSCKACGYRGMLDT 140
>1jyk_A LICC protein, CTP:phosphocholine cytidylytransferase; 3D structure,
CTP:phosphocholine cytidylyltransferase; 1.50A
{Streptococcus pneumoniae} SCOP: c.68.1.13 PDB: 1jyl_A*
Length = 254
Score = 28.6 bits (64), Expect = 4.8
Identities = 11/70 (15%), Positives = 24/70 (34%), Gaps = 19/70 (27%)
Query: 214 QNAELDVKSFFGFENTIEKLAMKQYI-------------TNISK------GKEILEHHVE 254
+ + ++++ +K I N K K ++E+ +E
Sbjct: 5 HHHHHHSSGLVPRGSHMKEIRVKAIILAAGLGTRLRPLTENTPKALVQVNQKPLIEYQIE 64
Query: 255 VLKGEGITHV 264
LK +GI +
Sbjct: 65 FLKEKGINDI 74
>3rsb_A Adenosylcobinamide-phosphate guanylyltransferase; pyrophosphorylase
binding motif, pyrophosphorylase; HET: GTP; 2.80A
{Methanocaldococcus jannaschii}
Length = 196
Score = 28.2 bits (63), Expect = 5.9
Identities = 3/20 (15%), Positives = 11/20 (55%)
Query: 245 GKEILEHHVEVLKGEGITHV 264
G+ ++++ V L + ++
Sbjct: 26 GRCLIDYVVSPLLKSKVNNI 45
>1kqf_B FDH-N beta S, formate dehydrogenase, nitrate-inducible, iron-SU
subunit; oxidoreductase, selenium, selenocysteine,
seCys, molybdenum; HET: MGD HEM CDL; 1.60A {Escherichia
coli} SCOP: d.58.1.5 f.23.22.1 PDB: 1kqg_B*
Length = 294
Score = 27.5 bits (61), Expect = 9.8
Identities = 6/26 (23%), Positives = 13/26 (50%)
Query: 497 CVHCNEATPVKNAPAGKKYVRCPYGV 522
C+HC + +K P+ ++ G+
Sbjct: 100 CMHCEDPGCLKACPSAGAIIQYANGI 125
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
0.323 0.137 0.442
Gapped
Lambda K H
0.267 0.0420 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,501,966
Number of extensions: 507461
Number of successful extensions: 939
Number of sequences better than 10.0: 1
Number of HSP's gapped: 938
Number of HSP's successfully gapped: 13
Length of query: 530
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 432
Effective length of database: 3,965,535
Effective search space: 1713111120
Effective search space used: 1713111120
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 (21.9 bits)
S2: 60 (27.7 bits)