RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15324
(363 letters)
>3h90_A Ferrous-iron efflux pump FIEF; membrane protein, zinc transporter,
cell inner membrane, cell membrane, ION transport, iron
transport; 2.90A {Escherichia coli k-12} PDB: 2qfi_A
Length = 283
Score = 75.3 bits (186), Expect = 1e-15
Identities = 26/121 (21%), Positives = 56/121 (46%), Gaps = 2/121 (1%)
Query: 131 IQKCRLISMFWLTAFFFLVEIVVGYVTNSMALVADSFHMLSDVAALVVAFLSVKMSPKKW 190
+ + + + + + L++I + T S++++A L D+ A + L V+ S +
Sbjct: 2 VSRAAIAATA-MASLLLLIKIFAWWYTGSVSILAALVDSLVDIGASLTNLLVVRYSLQPA 60
Query: 191 SKN-TFGWARAEVLGALVNAVFLVALCFSITVEACKRFIEVETIHDPWLIVVVGALGLLV 249
N +FG +AE L AL ++F+ + + + I + DP + V+V + L+
Sbjct: 61 DDNHSFGHGKAESLAALAQSMFISGSALFLFLTGIQHLISPTPMTDPGVGVIVTIVALIC 120
Query: 250 N 250
Sbjct: 121 T 121
Score = 52.6 bits (127), Expect = 6e-08
Identities = 42/231 (18%), Positives = 74/231 (32%), Gaps = 33/231 (14%)
Query: 66 LHILADALGSVIVIISATVIATTE--WEYRY-H--IDPALSLLMVMLILRSVWPLLQESA 120
+ L D S+ ++ + + + H + +L M I S L
Sbjct: 37 VDSLVDIGASLTNLLVVR-YSLQPADDNHSFGHGKAESLAALAQSMFISGSALFLFLTGI 95
Query: 121 LILLQTVPTHIQKCRLISMFW---LTAFFFLVEIVVGYVTNSMALVADSFHMLSDVAALV 177
L+ P +I T + V T S A+ AD H SDV
Sbjct: 96 QHLISPTPMTDPGVGVIVTIVALICTIILVSFQRWVVRRTQSQAVRADMLHYQSDVMMNG 155
Query: 178 VAFLSVKMSPKKWSKNTFGWARAEVLGALVNAVFLVALCFSITVEACKRFIEVETIHDPW 237
L++ +S +GW RA+ L AL ++++ + EA + ++
Sbjct: 156 AILLALGLS-------WYGWHRADALFALGIGIYILYSALRMGYEAVQSLLDRA------ 202
Query: 238 LIVVVGALGLLVNVVDAIQRRLLENVDGVLAVHEFHVWQLAGDRIIASAHI 288
L I ++ + GV H+ Q +G H+
Sbjct: 203 ---------LPDEERQEI-IDIVTSWPGVSGAHDLRTRQ-SGPTRFIQIHL 242
>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 = 47.4 bits (112), Expect = 6e-06
Identities = 57/323 (17%), Positives = 96/323 (29%), Gaps = 124/323 (38%)
Query: 9 LTQLVSVGAASASATDDNDNDDHYVPPVPTAPPLPSEQGHGHGHSHDTSQMNMRGVFLHI 68
+ QL HYV TA G + G
Sbjct: 243 VIQLA-----------------HYVV---TA--------KLLGFTP--------GELRSY 266
Query: 69 LADALGSVIVIISATVIA-TTEWE-YRYHIDPALSLLMVMLI-LRS--------VWPLLQ 117
L A G +++A IA T WE + + A+++L I +R + P +
Sbjct: 267 LKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVL--FFIGVRCYEAYPNTSLPPSIL 324
Query: 118 ESALILLQTVPTHIQKCRLISMFWLTAFFFLVEIVVGYV--TN---------SMALV--A 164
E +L + VP+ + ++ E V YV TN ++LV A
Sbjct: 325 EDSLENNEGVPSPMLSISNLTQ----------EQVQDYVNKTNSHLPAGKQVEISLVNGA 374
Query: 165 DSFHMLS----DVAALVVAFLSVKMSPKKW-SKNTFGWARAEVLGALVNAVFLVALCFSI 219
+ ++S + L + K S+ F R FL +
Sbjct: 375 KNL-VVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFS-ERKLKFS----NRFLP-----V 423
Query: 220 TVEACKRFIEVETIHDPWLIVVVGALGLLVNVVDAIQRRLLENVDGV------LAVHEFH 273
F H LLV D I + L++ + V + + +
Sbjct: 424 AS----PF------HSH----------LLVPASDLINKDLVK--NNVSFNAKDIQIPVYD 461
Query: 274 VW------QLAGDRIIASAHIRC 290
+ L+G I+ + C
Sbjct: 462 TFDGSDLRVLSGS--ISERIVDC 482
Score = 41.2 bits (96), Expect = 5e-04
Identities = 47/311 (15%), Positives = 109/311 (35%), Gaps = 89/311 (28%)
Query: 109 LRSVW--------PLLQESALILLQTVPTHIQKCRLIS-----MFWLT------AFFFLV 149
LR ++ L++ SA L + + T + ++ + + WL +L+
Sbjct: 173 LRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLL 232
Query: 150 EIVVGYVTNSMALVADSFHMLSDVAALVVAFLSVKMSP---KKWSKNTFGWARAEVLGAL 206
I + S L+ + +A VV + +P + + K G ++ ++ A+
Sbjct: 233 SIPI-----SCPLIG-----VIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQG-LVTAV 281
Query: 207 V------------NAVFLVALCFSITVEACKRF----IEVETIHDPWLIVVVGALGLLVN 250
+ + + F I V + + + + D L G +++
Sbjct: 282 AIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDS-LENNEGVPSPMLS 340
Query: 251 VVDAIQRRLLENVDGV---LAVHEFHVWQLA---GDR--IIA-------SAHIRCRNLSE 295
+ + Q ++ + V+ L + V +++ G + +++ ++ R
Sbjct: 341 ISNLTQEQVQDYVNKTNSHLPAGK-QV-EISLVNGAKNLVVSGPPQSLYGLNLTLRKAKA 398
Query: 296 YMKL--------AEKVKEFFHNEGI------HSTTIQP--EFVELTEFAENKVSEDPSED 339
L K+K F N + HS + P + + + +N VS + +
Sbjct: 399 PSGLDQSRIPFSERKLK--FSNRFLPVASPFHSHLLVPASDLI-NKDLVKNNVSFNAKD- 454
Query: 340 CVLDCPKYDTE 350
+ P YDT
Sbjct: 455 --IQIPVYDTF 463
Score = 40.8 bits (95), Expect = 8e-04
Identities = 38/195 (19%), Positives = 63/195 (32%), Gaps = 60/195 (30%)
Query: 142 LTAF----FFLVEIVVGYVTNSMALV-ADSF---HMLSDVAALVVAFLSVKMSPKKWSKN 193
T F L+E S L+ AD+ H L + AAL
Sbjct: 1728 ATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALA---------------- 1771
Query: 194 TFGWARAEVLGALVNAVFLVALCFSITVEACKRFIEVETIH-----DPWLIVVVGALGLL 248
+ A+V+ ++ + V +V A R + + +P + + L
Sbjct: 1772 ----SLADVM-SIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEAL 1826
Query: 249 VNVVDAIQRR---LLE----NVDGVLAVHEFHVWQLAGD-----------RIIASAHIRC 290
VV+ + +R L+E NV+ V AGD I I
Sbjct: 1827 QYVVERVGKRTGWLVEIVNYNVENQQYV-------AAGDLRALDTVTNVLNFIKLQKIDI 1879
Query: 291 RNLSEYMKLAEKVKE 305
L + + L E+V+
Sbjct: 1880 IELQKSLSL-EEVEG 1893
>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 = 42.9 bits (100), Expect = 2e-04
Identities = 40/318 (12%), Positives = 85/318 (26%), Gaps = 112/318 (35%)
Query: 49 GHGHSHDTSQMNMRGVFLHILADALGSVIVIISATVIATTEWEYRYHIDPALSLLMV--- 105
+ +S + + + M L+ + D + S+ + I L L+
Sbjct: 190 KNCNSPE-TVLEMLQKLLYQI-DPNWTSRSDHSSNIKLRIHS-----IQAELRRLLKSKP 242
Query: 106 ----MLILRSVWPLLQESALILLQTVPTHIQ----KCRLISMFWLTAFFFLVEIVVGYVT 157
+L+L +V C+++ +T
Sbjct: 243 YENCLLVLLNVQN-------------AKAWNAFNLSCKIL------------------LT 271
Query: 158 NSMALVADSFHMLSDVAALVVAFLSVKMSPKKWSKNTFGWARAEVLGALVNAVFLVALCF 217
V D ++A +S+ EV L+
Sbjct: 272 TRFKQVTDF------LSAATTTHISLDHHSM-------TLTPDEVKS-------LLLKYL 311
Query: 218 SITVEACKRFIEVETIHDPWLIVVVGALGLLVNVVDAIQRRLLENVDGVLAVHEFHVWQL 277
+ R EV T + P + ++ + D + +N W+
Sbjct: 312 DCRPQDLPR--EVLTTN-PRRLSIIAES-----IRDGLAT--WDN------------WK- 348
Query: 278 AGDRIIASAHIRCRNLSEYMKLA------EKVKEFFHNEGI--HSTTIQPEFVELTEFAE 329
H+ C L+ ++ + + ++ F + S I P + L+
Sbjct: 349 ---------HVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHI-PTIL-LSLIWF 397
Query: 330 NKVSEDPSEDCVLDCPKY 347
+ + D V KY
Sbjct: 398 DVIKSDV-MVVVNKLHKY 414
>3dor_A Protein CT_858, CPAF; mature CPAF, dimer, transferase; 2.20A
{Chlamydia trachomatis} PDB: 3dpm_A* 3dpn_A 3dja_A
Length = 583
Score = 29.0 bits (64), Expect = 2.5
Identities = 14/69 (20%), Positives = 30/69 (43%), Gaps = 6/69 (8%)
Query: 169 MLSDVAALVVAFLSVKMSPKKWSKNTFGWARAEVLGALVNAVFLVALCFSITVEACKRFI 228
L D++ L VK +PK W + GW + + V+A + + + C++ +
Sbjct: 7 ALQDLSFLEHLL-QVKYAPKTWKEQYLGWDLVQ---SSVSAQQKLRTQENPSTSFCQQVL 62
Query: 229 E--VETIHD 235
+ ++D
Sbjct: 63 ADFIGGLND 71
>2bhw_A Chlorophyll A-B binding protein AB80; LHC-II, photosynthesis,
light-harvesting, membrane protein, chloroplast,
chromophore, membrane; HET: LUX NEX XAT CLA CHL LHG DGD;
2.50A {Pisum sativum} PDB: 1vcr_A* 1rwt_A*
Length = 232
Score = 28.0 bits (61), Expect = 4.6
Identities = 20/101 (19%), Positives = 33/101 (32%), Gaps = 12/101 (11%)
Query: 188 KKWSKNTFGWARAEVLGALVNAVFLVALCFSITVEACKRFIEVETIHDPWLIVVVGALGL 247
K+ G + + + G S E + E+E IH W ++GALG
Sbjct: 22 VKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFSKNRELEVIHSRW--AMLGALGS 79
Query: 248 LVNVVDAIQRRLLENVDGVLAVHEFHVWQLAGDRIIASAHI 288
+ E + VW AG +I + +
Sbjct: 80 VF----------PELLSRNGVKFGEAVWFKAGSQIFSEGGL 110
>1uc8_A LYSX, lysine biosynthesis enzyme; alpha-aminoadipate pathway, riken
structural genomics/proteomics initiative, RSGI,
structural genomics; 2.00A {Thermus thermophilus} SCOP:
c.30.1.6 d.142.1.7 PDB: 1uc9_A*
Length = 280
Score = 27.8 bits (62), Expect = 5.0
Identities = 13/86 (15%), Positives = 28/86 (32%), Gaps = 7/86 (8%)
Query: 221 VEAC-KRFIEVETIHDPWLIVVVGALGLLVNVVDAIQRRLLENVDGVLAVHEFHVWQLAG 279
E + + ++ P L +V+G + V R + G+ A G
Sbjct: 17 FERAEALGLPYKKVYVPALPMVLGERPKELEGVTVALERCVSQSRGLAAARYL---TALG 73
Query: 280 DRIIASAH--IRCRN-LSEYMKLAEK 302
++ C + + + LA+
Sbjct: 74 IPVVNRPEVIEACGDKWATSVALAKA 99
>1uf2_A Core protein P3; virus components, icosahedral virus; 3.50A {Rice
dwarf virus} SCOP: e.28.1.2
Length = 1019
Score = 27.4 bits (60), Expect = 8.5
Identities = 30/138 (21%), Positives = 54/138 (39%), Gaps = 21/138 (15%)
Query: 60 NMRGVFLHILADALGSVIVIISATVIAT---TEWEYRYHIDPALSLLMVMLILRSVWPLL 116
N+ G++ ILA+ + + + +V EW+ +DP L V I+ P
Sbjct: 597 NLLGIYEAILANTYANAVNVYCDSVYRADIPIEWKLHQSVDPQDLLFGVFGIV----PQY 652
Query: 117 QESALILLQTVPTHIQKCRLISMFWLTAFFFLVEIVVGYVTNSMALV-ADSFHM---LSD 172
Q IL + VP I + L+ V ++N + AD FH+
Sbjct: 653 Q----ILNEAVPDFFAGGEDILILQ------LIRAVYDTLSNKLGRNPADIFHLEEVFKV 702
Query: 173 VAALVVAFLSVKMSPKKW 190
+ +V + K+ +K+
Sbjct: 703 IEEIVSVLVQQKIDVRKY 720
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 0.135 0.411
Gapped
Lambda K H
0.267 0.0675 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,579,626
Number of extensions: 341363
Number of successful extensions: 627
Number of sequences better than 10.0: 1
Number of HSP's gapped: 615
Number of HSP's successfully gapped: 15
Length of query: 363
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 268
Effective length of database: 4,049,298
Effective search space: 1085211864
Effective search space used: 1085211864
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 (22.0 bits)
S2: 58 (26.2 bits)