RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4359
(220 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 = 42.7 bits (100), Expect = 5e-05
Identities = 39/247 (15%), Positives = 67/247 (27%), Gaps = 84/247 (34%)
Query: 30 VSAAF------WSPDFSFKVKLNPLLSICNAELMAILYAVYFILANCLSEARNSSF---- 79
V+A W SF + + ++FI C N+S
Sbjct: 278 VTAVAIAETDSWE---SF---------FVSVRKA--ITVLFFIGVRCYEAYPNTSLPPSI 323
Query: 80 ---------------LLCTD-SLSALQSLQDIFSPNLHTLRQI-MSLWHEDWNY------ 116
L ++ + +Q + + +L +Q+ +SL + N
Sbjct: 324 LEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPP 383
Query: 117 --LIGNKLRLIKEENKPWHPPQT---FSRRDQVTLTR-LRIG---HTNLTHVHLMKKEQP 167
L G L L K + Q+ FS R R L + H+ HL+
Sbjct: 384 QSLYGLNLTLRKAKAPS-GLDQSRIPFSERKLKFSNRFLPVASPFHS-----HLLVPASD 437
Query: 168 --------PECEICSCNL--TVKH------------LLKYCLKYQNIRDPNDLYACLNDD 205
+ ++ V + + IR P
Sbjct: 438 LINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFK 497
Query: 206 TTPVLDF 212
T +LDF
Sbjct: 498 ATHILDF 504
Score = 35.8 bits (82), Expect = 0.010
Identities = 49/267 (18%), Positives = 75/267 (28%), Gaps = 98/267 (36%)
Query: 5 SFLEIVSKYPQSTKIYTDASK------NDSSVSAAFWSPDFSFKVK-----LNPLLSIC- 52
S L+IV P + I+ K N S++ D K + +N +
Sbjct: 1660 SILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFET-IVDGKLKTEKIFKEINEHSTSYT 1718
Query: 53 ----NAELM-------AIL---YAVYFILANCLSEARNSSFLLCTD------SL---SAL 89
L A+ A + L S L+ D SL +AL
Sbjct: 1719 FRSEKGLLSATQFTQPALTLMEKAAFEDLK--------SKGLIPADATFAGHSLGEYAAL 1770
Query: 90 QSLQDIFSPNLHTLRQIMSLWHEDWNYLIGNKLR--LIKEENKPWHPPQTFSRRDQVTLT 147
SL D+ S E ++ R ++ P+ R +
Sbjct: 1771 ASLADVMSI-------------ESLVEVV--FYRGMTMQVA-----VPRDELGRSNYGMI 1810
Query: 148 RLRIGHTNLTH--------VHLMKKEQPPECEICSCNLTVKHLLKYCLKYQNIRDPNDLY 199
+ G + V + K EI N Y N+ N Y
Sbjct: 1811 AINPGRVAASFSQEALQYVVERVGKRTGWLVEIV--N------------Y-NV--ENQQY 1853
Query: 200 AC------LNDDTTPVLDFIKKTNLKM 220
L D T VL+FIK + +
Sbjct: 1854 VAAGDLRAL-DTVTNVLNFIKLQKIDI 1879
Score = 31.2 bits (70), Expect = 0.34
Identities = 23/116 (19%), Positives = 38/116 (32%), Gaps = 16/116 (13%)
Query: 78 SFLLCTDSLSALQSLQDIFSPNLHTLRQIMSLWHEDWNY----LIGNKLRLIKEENKPWH 133
L+ T S LQ+ F+ L + +D L+G L +
Sbjct: 19 VLLVPTASFFIASQLQEQFNKILPEPTE--GFAADDEPTTPAELVGKFLGYVSSLV---- 72
Query: 134 PPQTFSRRDQVTLTRLRIGHTN-LTH--VHLMKKEQPPECEICSCNLTVKHLLK-Y 185
P + DQV L L +H + + E + + + K L+K Y
Sbjct: 73 EPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQEND--TTLVKTKELIKNY 126
>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 = 39.5 bits (91), Expect = 7e-04
Identities = 30/156 (19%), Positives = 49/156 (31%), Gaps = 37/156 (23%)
Query: 61 YAVYFI-LANCLSEARNSSFLLCTDSLSALQSLQDIFSPNLHTLRQIMSLWHEDWNYLIG 119
+ ++++ L NC S L LQ L PN + S + +
Sbjct: 182 FKIFWLNLKNCNSP---------ETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQA 232
Query: 120 NKLRLIKEENKP---------WHPP--QTFSRRDQVTL-TRLR-----IGHTNLTHVHLM 162
RL+K + + F+ ++ L TR + + TH+ L
Sbjct: 233 ELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLD 292
Query: 163 KKEQPPECEICSCNLTVKHLLKYCLKYQNIRDPNDL 198
LT + LKY + R P DL
Sbjct: 293 HHSMT---------LTPDEVKSLLLKYLDCR-PQDL 318
Score = 35.6 bits (81), Expect = 0.010
Identities = 22/138 (15%), Positives = 46/138 (33%), Gaps = 22/138 (15%)
Query: 38 DFSFKVKLNPLLSI-CNAELMAILYAVYFILANCLSEARNSSFLLCTDSLSALQS-LQDI 95
+F K + SI E+ I+ + + +S + L + +Q ++++
Sbjct: 32 NFDCKDVQDMPKSILSKEEIDHII-----MSKDAVSGTLRLFWTLLSKQEEMVQKFVEEV 86
Query: 96 FSPNLHTLRQIMSLWHEDWNYLIGNKLRLIKEENKPWHPPQTF-----SRRDQVT----- 145
N L MS + I++ ++ ++ Q F SR
Sbjct: 87 LRINYKFL---MSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQA 143
Query: 146 LTRLRIGHTNLTHVHLMK 163
L LR N+ + +
Sbjct: 144 LLELR-PAKNVL-IDGVL 159
>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 = 33.8 bits (76), Expect = 0.019
Identities = 15/38 (39%), Positives = 18/38 (47%), Gaps = 12/38 (31%)
Query: 180 KHLLKYCLKYQN-IRDPNDLYACLNDDTTPVLDFIKKT 216
K LK K Q ++ LYA DD+ P L IK T
Sbjct: 19 KQALK---KLQASLK----LYA---DDSAPALA-IKAT 45
Score = 31.8 bits (71), Expect = 0.096
Identities = 12/54 (22%), Positives = 18/54 (33%), Gaps = 26/54 (48%)
Query: 3 KSSFLEIVSKYPQSTKIYTDASKNDSSVSAAFWSPDFSFKVKLNPLLSICNAEL 56
K + + K S K+Y D DS+ P L+I A +
Sbjct: 19 KQA----LKKLQASLKLYAD----DSA-----------------PALAI-KATM 46
>1wgh_A Ubiquitin-like 3, HCG-1 protein; ubiquitin-like fold, structural
genomics, riken structural genomics/proteomics
initiative, RSGI, unknown function; NMR {Mus musculus}
SCOP: d.15.1.1
Length = 116
Score = 26.9 bits (59), Expect = 2.7
Identities = 23/83 (27%), Positives = 32/83 (38%), Gaps = 21/83 (25%)
Query: 96 FSPN--LHTLRQ-IMSLWHEDWNYLIG---NKLRLIKEENKPWHPPQTFSRR---DQVTL 146
FSPN + + + W DW N LRLI + R VTL
Sbjct: 33 FSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLI------------YQGRFLHGNVTL 80
Query: 147 TRLRIGHTNLTHVHLMKKEQPPE 169
L++ T +HL+ +E PE
Sbjct: 81 GALKLPFGKTTVMHLVARETLPE 103
>3oc9_A UDP-N-acetylglucosamine pyrophosphorylase; structural genomics,
seattle structural genomics center for infectious
disease, ssgcid; 1.80A {Entamoeba histolytica}
Length = 405
Score = 27.4 bits (60), Expect = 3.6
Identities = 16/98 (16%), Positives = 31/98 (31%), Gaps = 1/98 (1%)
Query: 119 GNKLRLIKEENKPWHPPQTFSRRDQVTLTRLRIGHTNLTHVHLMKKEQPPECE-ICSCNL 177
G RL E K + +T R+ ++ + +
Sbjct: 44 GQGSRLGFEHPKGMFVLPFEIPKSIFQMTSERLLRLQELASEYSHQKNVMIHWFLMTNEE 103
Query: 178 TVKHLLKYCLKYQNIRDPNDLYACLNDDTTPVLDFIKK 215
T++ + Y ++Q ++ C PV+DF K
Sbjct: 104 TIEEINNYFKEHQYFGLSSEQIHCFPQGMLPVVDFNGK 141
>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase
activation, cytochrome C, procaspase-9, A nucleotide,
cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A*
3iyt_A* 3iza_A*
Length = 1249
Score = 27.5 bits (61), Expect = 5.0
Identities = 17/118 (14%), Positives = 41/118 (34%), Gaps = 17/118 (14%)
Query: 55 ELMAILYAVYFI--------LANCLSEARNSSFLLCTDSLSALQSLQDIFSPNLHTLRQ- 105
EL A+++++ +I A+ + E +L + ++ Q+ S N H L +
Sbjct: 499 ELCALMFSLDWIKAKTELVGPAHLIHEFVAYRHILDEKDCAVCENFQEFLSLNGHLLGRQ 558
Query: 106 ------IMSLWHEDWNYLIGNKLRLIKEENKPWHPPQTFSRRDQVTLTRLRI--GHTN 155
+ L + + + K+E + + + + HT+
Sbjct: 559 PFPNIVQLGLCEPETSEVYRQAKLQAKQEGDTGRLYLEWINKKTIKNLSRLVVRPHTD 616
>2hgk_A Hypothetical protein YQCC; helical bundle, structural genomics,
PSI-2, protein structure initiative, northeast
structural genomics consortium; NMR {Escherichia coli}
SCOP: a.29.17.1
Length = 117
Score = 25.9 bits (57), Expect = 6.2
Identities = 9/32 (28%), Positives = 15/32 (46%)
Query: 72 SEARNSSFLLCTDSLSALQSLQDIFSPNLHTL 103
NS+ D++ L+ LQ + P +H L
Sbjct: 31 PHQFNSTQPFFMDTMEPLEWLQWVLIPRMHDL 62
>2gow_A HCG-1 protein, ubiquitin-like protein 3; BC059385, structural
genomics, protein structure initiative, PSI; NMR {Homo
sapiens}
Length = 125
Score = 25.8 bits (56), Expect = 7.8
Identities = 23/83 (27%), Positives = 32/83 (38%), Gaps = 21/83 (25%)
Query: 96 FSPN--LHTLRQ-IMSLWHEDWNYLIG---NKLRLIKEENKPWHPPQTFSRR---DQVTL 146
FSPN + + + W DW N LRLI + R VTL
Sbjct: 34 FSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLI------------YQGRFLHGNVTL 81
Query: 147 TRLRIGHTNLTHVHLMKKEQPPE 169
L++ T +HL+ +E PE
Sbjct: 82 GALKLPFGKTTVMHLVARETLPE 104
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
0.321 0.134 0.414
Gapped
Lambda K H
0.267 0.0710 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,191,541
Number of extensions: 171418
Number of successful extensions: 406
Number of sequences better than 10.0: 1
Number of HSP's gapped: 405
Number of HSP's successfully gapped: 22
Length of query: 220
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 130
Effective length of database: 4,188,903
Effective search space: 544557390
Effective search space used: 544557390
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: 55 (25.0 bits)