RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15182
(366 letters)
>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 = 50.2 bits (119), Expect = 8e-07
Identities = 43/308 (13%), Positives = 97/308 (31%), Gaps = 97/308 (31%)
Query: 15 FLSGFQSRRE--SHVNVNVTPTCQDLSS---DTPEIRKYKKKFG---------SEILCAA 60
+ + + HVN + T + S + E RK + + +L
Sbjct: 336 SIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSL- 394
Query: 61 LWGVNLLIGTETGLM---LLDRSGQGKVYQLVNRRRFQQMEVLEGQNILVTISGKRNRVR 117
+W +I ++ ++ L S LV ++ K + +
Sbjct: 395 IWFD--VIKSDVMVVVNKLHKYS-------LVEKQP------------------KESTIS 427
Query: 118 V--FYLSWLKSKILKMDGQVERRNGWINVGDLQGAVHFRIV-KYERIKFLVI--ALKDSI 172
+ YL LK K+ + + A+H IV Y K + +
Sbjct: 428 IPSIYLE-LKVKL-----------------ENEYALHRSIVDHYNIPKTFDSDDLIPPYL 469
Query: 173 EIYAWAPKPYHKFMAFKSFGEL--GYRPLLVDLTVEEGTRLKVIY-GSADGFHAVDLDSA 229
+ Y ++ +H + E +R + +D E K+ + +A L++
Sbjct: 470 DQYFYSHIGHH--LKNIEHPERMTLFRMVFLDFRFLEQ---KIRHDSTAWNASGSILNTL 524
Query: 230 MVYDIYLPKHIQGPICP------------------HCIVALPNSNGMQLLLCYDNEGVYV 271
Y +I P + I + ++ +++ L ++E ++
Sbjct: 525 QQLKFYK-PYIC-DNDPKYERLVNAILDFLPKIEENLICS-KYTDLLRIALMAEDEAIFE 581
Query: 272 NTYGKVSK 279
+ +V +
Sbjct: 582 EAHKQVQR 589
Score = 36.0 bits (82), Expect = 0.019
Identities = 20/176 (11%), Positives = 49/176 (27%), Gaps = 55/176 (31%)
Query: 83 GKVYQLVNRRRFQQMEVLE--------GQNILV---TISGKRNRVRVFYLSWLKSKILKM 131
+V+ N R Q L +N+L+ SGK +W+ +
Sbjct: 123 NQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGK---------TWVALDVCL- 172
Query: 132 DGQVERRNG----WINVGDLQGAVHFRIVKYERIKFLVIALKDSIEIYAWAPKPYHKFMA 187
+V+ + W+N+ + ++ L+ ++
Sbjct: 173 SYKVQCKMDFKIFWLNLK-----------NCNSPETVLEMLQKL----------LYQID- 210
Query: 188 FKSFGELGYRPLLVDLTVEEG-TRLKVIYGSADGFHA-VDLDSAMVYDIYLPKHIQ 241
++ + L + L+ + S + + L ++ K
Sbjct: 211 -PNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLL-----NVQNAKAWN 260
>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 = 38.5 bits (89), Expect = 0.004
Identities = 46/325 (14%), Positives = 90/325 (27%), Gaps = 126/325 (38%)
Query: 76 LLDRSGQGKVYQLVNR--RRFQQMEVLEGQNI--LV---------TISGKRNRVRVFYLS 122
L++ S G+ Q++N F+ LEG +I L T+ + ++ + +
Sbjct: 71 LVEPSKVGQFDQVLNLCLTEFEN-CYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITA 129
Query: 123 WLKSKILKMDGQVERRNGWINVGDLQGAVHFRIVKYERIKFLVIALKDSIEIYAW----- 177
+ K + + ++ A
Sbjct: 130 -------------------------RIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQG 164
Query: 178 APKPYHKFMAFKSFGEL-----GYRPLLVDLTVEEGTRLKVIYGSADGFHAVDLDSAMVY 232
Y F EL Y L+ DL L LD+ V+
Sbjct: 165 NTDDY--------FEELRDLYQTYHVLVGDLIKFSAETLS-------ELIRTTLDAEKVF 209
Query: 233 ----DIYLPKHIQGPICPHCIVALPNSNGMQLLLCYDNEGVYVNTYGKVSKNI--LLQWG 286
+I + ++ P P+ + Y+ + +S + ++Q
Sbjct: 210 TQGLNIL--EWLENP------SNTPDKD-------------YLLSIP-ISCPLIGVIQL- 246
Query: 287 EMPTSVAYIGTGQIMGW--GNKAIEIRSVETGHLDGV--------------FMHKKSQRL 330
Y+ T +++G+ G ++ TGH G+ F + +
Sbjct: 247 -----AHYVVTAKLLGFTPGELRSYLKGA-TGHSQGLVTAVAIAETDSWESFFVSVRKAI 300
Query: 331 KFLCERNDKVFFSSAKGGGHCQIYF 355
L FF G C +
Sbjct: 301 TVL-------FFI----GVRCYEAY 314
>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 = 33.4 bits (75), Expect = 0.057
Identities = 12/52 (23%), Positives = 21/52 (40%), Gaps = 26/52 (50%)
Query: 159 ER--IKFLVIALKDSIEIYA--WAPKPYHKFMAFKSFGELGYRPLLVDLTVE 206
E+ +K L+ S+++YA AP +A K+ T+E
Sbjct: 18 EKQALK----KLQASLKLYADDSAPA-----LAIKA-------------TME 47
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 31.6 bits (71), Expect = 0.29
Identities = 12/61 (19%), Positives = 25/61 (40%), Gaps = 15/61 (24%)
Query: 20 QSRRESHVNVNVTPTCQDLSSDTPEIRK-YKKKFGSEILCAALWGVNLLIGTETGLMLLD 78
+ N+N+ TC + P+I + + + G +++C GL+L D
Sbjct: 9 KRAGRRGPNLNIVLTCPECKVYPPKIVERFSE--G-DVVC-----------ALCGLVLSD 54
Query: 79 R 79
+
Sbjct: 55 K 55
>2g29_A Nitrate transport protein NRTA; solute-binding protein, alpha-beta
protein; 1.50A {Synechocystis SP}
Length = 417
Score = 30.8 bits (69), Expect = 0.66
Identities = 21/86 (24%), Positives = 34/86 (39%), Gaps = 4/86 (4%)
Query: 201 VDLTVEEG---TRLKVIYGSADG-FHAVDLDSAMVYDIYLPKHIQGPICPHCIVALPNSN 256
V++ + TR ++ GSA G + + M Y I + G P I+A N N
Sbjct: 65 VEVLKQASWGTTRDNLVLGSASGGIDGAHILTPMPYLITMGTVTDGKPTPMYILARLNVN 124
Query: 257 GMQLLLCYDNEGVYVNTYGKVSKNIL 282
G + L + + + V T K
Sbjct: 125 GQGIQLGNNYKDLKVGTDAAPLKEAF 150
>3ei3_A DNA damage-binding protein 1; UV-damage, DDB, nucleotide excision
repair, xeroderma pigmentosum, cytoplasm, DNA repair;
HET: DNA PG4; 2.30A {Homo sapiens} PDB: 3ei1_A* 3ei2_A*
3ei4_A* 4a0l_A* 3e0c_A* 3i7k_A* 3i7h_A* 3i7l_A* 3i7n_A*
3i7o_A* 3i7p_A* 3i89_A* 3i8c_A* 3i8e_A* 2b5l_A 2b5m_A
2hye_A* 4a11_A* 4a0k_C* 4a0a_A* ...
Length = 1158
Score = 30.7 bits (68), Expect = 0.99
Identities = 28/205 (13%), Positives = 63/205 (30%), Gaps = 24/205 (11%)
Query: 66 LLIGTETGLMLLDRSGQGKVYQL-VNRRRFQQM--EVLEG--------QNILVTISGKRN 114
++GT QG++ + + Q + + ++G L+
Sbjct: 847 FIVGTAMVYPEEAEPKQGRIVVFQYSDGKLQTVAEKEVKGAVYSMVEFNGKLLASINSTV 906
Query: 115 RVRVFYLSWLKSKILKMDGQ-----VERRNGWINVGDLQGAVHFRIVKYERIKFLVIA-L 168
R+ + ++ + +I VGDL +V K F IA
Sbjct: 907 RLYEWTTEKELRTECNHYNNIMALYLKTKGDFILVGDLMRSVLLLAYKPMEGNFEEIARD 966
Query: 169 KDSIEIYAWAPKPYHKFMAFKSFGEL-GYRPLLVDLTVEEGTRLKVIYGSADGFHAVDLD 227
+ + A F+ ++ L + T EE L+ + FH +
Sbjct: 967 FNPNWMSAVEILDDDNFLGAENAFNLFVCQKDSAATTDEERQHLQEVG----LFHLGEFV 1022
Query: 228 SAMVYDIYLPKHIQGPICP--HCIV 250
+ + + +++ P ++
Sbjct: 1023 NVFCHGSLVMQNLGETSTPTQGSVL 1047
>3d54_D Phosphoribosylformylglycinamidine synthase 1; alpha-beta structure,
ATP-binding, cytoplasm, ligase, nucleotide-binding,
purine biosynthesis; HET: CYG ADP; 3.50A {Thermotoga
maritima}
Length = 213
Score = 27.8 bits (63), Expect = 4.3
Identities = 13/43 (30%), Positives = 19/43 (44%), Gaps = 9/43 (20%)
Query: 313 VETGHLDGVFMHKKSQRLKFLC-------ERNDKVFFSSAKGG 348
+E G L G + S KF+C E ND F ++ + G
Sbjct: 93 IEMGLLKGALLQNSS--GKFICKWVDLIVENNDTPFTNAFEKG 133
>3jz0_A Lincosamide nucleotidyltransferase; alpha-beta structure,
transferase-antibiotic CO; HET: APC CLY; 2.00A
{Enterococcus faecium} PDB: 3jyy_A*
Length = 287
Score = 27.9 bits (61), Expect = 5.5
Identities = 13/82 (15%), Positives = 27/82 (32%), Gaps = 8/82 (9%)
Query: 158 YERIKFLVIALKDSIEIYAWAPKPYHKFMAFKSFGELGYRPLL------VDLTVEEGTRL 211
E FL ++ + + W M +K E G ++ + +
Sbjct: 61 IEFYIFLKHSITSNFDSSNWLFDVAPYLMLYK--NEYGTEVVIFDNLIRGEFHFLSEKDM 118
Query: 212 KVIYGSADGFHAVDLDSAMVYD 233
+I D + D + ++YD
Sbjct: 119 NIIPSFKDSGYIPDTKAMLIYD 140
>2nn6_C Exosome complex exonuclease RRP43; RNA, exosome, PM/SCL,
phosphorolytic, hydrolase/transferase complex; 3.35A
{Homo sapiens} SCOP: d.14.1.4 d.101.1.1
Length = 278
Score = 27.2 bits (60), Expect = 9.4
Identities = 9/58 (15%), Positives = 16/58 (27%), Gaps = 4/58 (6%)
Query: 171 SIEIYAWAPKPYHKFMAFKSFGELGYRPLLVDLTVEE----GTRLKVIYGSADGFHAV 224
+ + + SF L+VD T EE L ++ +
Sbjct: 180 EVNLKKKSYLNIRTHPVATSFAVFDDTLLIVDPTGEEEHLATGTLTIVMDEEGKLCCL 237
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 0.139 0.431
Gapped
Lambda K H
0.267 0.0541 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,632,946
Number of extensions: 341656
Number of successful extensions: 554
Number of sequences better than 10.0: 1
Number of HSP's gapped: 552
Number of HSP's successfully gapped: 11
Length of query: 366
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 271
Effective length of database: 4,049,298
Effective search space: 1097359758
Effective search space used: 1097359758
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 58 (26.6 bits)