RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy414
(176 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 = 42.1 bits (98), Expect = 4e-05
Identities = 35/187 (18%), Positives = 60/187 (32%), Gaps = 44/187 (23%)
Query: 1 MNKLRVLSQVKSLGKVLSLQQNSVRTAFVYTPDWLPGERPKTEEER---RKAAKKYNLLP 57
+NKL SL +++ + P + K E E R YN+ P
Sbjct: 408 VNKL----HKYSL-----VEKQPKESTI-SIPSIYLELKVKLENEYALHRSIVDHYNI-P 456
Query: 58 EEYE-----VQPDDGFATGDYPHLPHTHYDSRDPFYPWDYPMFRTNYGEPLPNDFAISHY 112
+ ++ D + Y H+ H H + + +FR + L DF
Sbjct: 457 KTFDSDDLIPPYLDQYF---YSHIGH-HLKNIEHPERMT--LFRMVF---L--DF----- 500
Query: 113 GMGFNEQPVNQRISVWEQLAYMVGILGTISLVLKYFCWEKRYY------YPKFDSPKYQK 166
F EQ + + W ++ L + Y C Y F PK ++
Sbjct: 501 --RFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDF-LPKIEE 557
Query: 167 GVVHYGY 173
++ Y
Sbjct: 558 NLICSKY 564
Score = 31.7 bits (71), Expect = 0.12
Identities = 48/260 (18%), Positives = 69/260 (26%), Gaps = 111/260 (42%)
Query: 2 NKLRVLSQVKS--------LG-KVLSLQQNSVRTAFVYTPDWLPGERPK----------- 41
N L VL V++ L K+L + T F D+L
Sbjct: 245 NCLLVLLNVQNAKAWNAFNLSCKIL------LTTRFKQVTDFLSAATTTHISLDHHSMTL 298
Query: 42 TEEERRKA-AKKYNL----LPEE-YEVQP----------DDGFATGDYPHLPHTHYD--- 82
T +E + K + LP E P DG AT D H + D
Sbjct: 299 TPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDN--WKHVNCDKLT 356
Query: 83 -----SRDPFYPWDYPMFRTNYGEPLPNDFAISHYGMGFNEQPVN---QRISV-WEQLAY 133
S + P +Y R + + ++ F + +S+ W +
Sbjct: 357 TIIESSLNVLEPAEY---RKMF-----DRLSV------FPPS-AHIPTILLSLIWFDVIK 401
Query: 134 -----MVGILGTISLVLKYFCWEKRYYYP----------------------------KFD 160
+V L SLV K E P FD
Sbjct: 402 SDVMVVVNKLHKYSLVEKQPK-ESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFD 460
Query: 161 ----SPKYQKGVV--HYGYH 174
P Y H G+H
Sbjct: 461 SDDLIPPYLDQYFYSHIGHH 480
Score = 27.1 bits (59), Expect = 4.2
Identities = 10/65 (15%), Positives = 25/65 (38%), Gaps = 12/65 (18%)
Query: 1 MNKLRVLSQVKSLGKVLSLQQ-----NSVRTAFVYTPDWLPGERPKTEEERRKAAKKYNL 55
M+ ++ + S+ + ++Q N + V+ + R + + R+A L
Sbjct: 95 MSPIKTEQRQPSMMTRMYIEQRDRLYNDNQ---VFAKYNVS--RLQPYLKLRQAL--LEL 147
Query: 56 LPEEY 60
P +
Sbjct: 148 RPAKN 152
Score = 26.4 bits (57), Expect = 6.7
Identities = 7/48 (14%), Positives = 16/48 (33%), Gaps = 1/48 (2%)
Query: 82 DSRDPFYPWDYPMFRTNYGEP-LPNDFAISHYGMGFNEQPVNQRISVW 128
+ Y + +T +P + I +N+ V + +V
Sbjct: 85 EVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVS 132
>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 = 30.8 bits (69), Expect = 0.26
Identities = 16/59 (27%), Positives = 23/59 (38%), Gaps = 14/59 (23%)
Query: 17 LSLQQNSVRTAF-VYTPDWLPGERPKTEEERRKAAKKYNLLPEEYEVQPDDGFATGDYP 74
L+L S+ V T + + + E+ K LPE P +GFA D P
Sbjct: 9 LTLSHGSLEHVLLVPTASFFIASQLQ--EQFNKI------LPE-----PTEGFAADDEP 54
>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 = 29.5 bits (65), Expect = 0.34
Identities = 7/29 (24%), Positives = 11/29 (37%), Gaps = 10/29 (34%)
Query: 9 QVKSLGKVLSLQQNSVRTAFVYTPDWLPG 37
+K L Q S++ +Y D P
Sbjct: 21 ALKKL-------QASLK---LYADDSAPA 39
>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP,
ribonucleoprotein, RNA binding protein/RNA complex;
2.38A {Homo sapiens} SCOP: c.10.2.4
Length = 176
Score = 28.9 bits (65), Expect = 0.67
Identities = 13/66 (19%), Positives = 22/66 (33%), Gaps = 13/66 (19%)
Query: 2 NKLRVLSQVKSLG-----KVLSLQQNSVRTAFVYTP---DWLPG-----ERPKTEEERRK 48
N L L + L L + +N V Y +P + +ER++
Sbjct: 98 NSLVELGDLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLDFQKVKLKERQE 157
Query: 49 AAKKYN 54
A K +
Sbjct: 158 AEKMFK 163
>2l2i_B Krueppel-like factor 1; transcription factor TFIIH, erythroid
kruppel-like factor EK activator, protein structure,
mutation; NMR {Homo sapiens}
Length = 42
Score = 24.8 bits (53), Expect = 3.4
Identities = 8/23 (34%), Positives = 10/23 (43%)
Query: 82 DSRDPFYPWDYPMFRTNYGEPLP 104
D R WD + TN+ P P
Sbjct: 17 DERGADATWDLDLLLTNFSGPEP 39
>3dnu_A Protein HIPA; persistence, MDT, multidrug resistance, unknown
function; 1.54A {Escherichia coli} PDB: 3dnt_A 3dnv_A*
3dnw_A* 3hzi_A* 2wiu_A 3fbr_A*
Length = 440
Score = 26.5 bits (58), Expect = 5.7
Identities = 18/69 (26%), Positives = 25/69 (36%), Gaps = 13/69 (18%)
Query: 1 MNKLRVLSQVKSLGKVLSLQQNSVRTAFVYTPDWL--PGERP-------KTEEERRKAAK 51
M KL + +G L+ N F Y P+WL RP + A
Sbjct: 1 MPKLVTWMNNQRVG-ELTKLANG-AHTFKYAPEWLASRYARPLSLSLPLQRGNITSDAVF 58
Query: 52 KY--NLLPE 58
+ NLLP+
Sbjct: 59 NFFDNLLPD 67
>2vzs_A CSXA, EXO-beta-D-glucosaminidase; hydrolase, GH2, glucosamine,
glycoside hydrolase; HET: GCS; 1.85A {Amycolatopsis
orientalis} SCOP: b.1.4.1 b.1.4.1 b.1.4.1 b.18.1.5
c.1.8.3 PDB: 2x05_A* 2x09_A* 2vzo_A 2vzt_A* 2vzv_A*
2vzu_A*
Length = 1032
Score = 25.8 bits (56), Expect = 9.1
Identities = 11/97 (11%), Positives = 23/97 (23%), Gaps = 4/97 (4%)
Query: 64 PDDGFATGDYPHLPHTHYDSRDPFYPWDYPMFRTNYG--EPLPNDFAISHYGMGFNEQPV 121
G Y ++P ++ + F + +P + +
Sbjct: 507 ASGMKMNGPYDYVPPVYWYDKSQKDRGGAWSFNSETSAGVDIPTMDTLKRMMSASELDTM 566
Query: 122 NQRISVWEQLAYMVGILGTISLVLKYFCWEKRYYYPK 158
+ S + G + L KRY
Sbjct: 567 WKNPSAKQYHRSSSDTFGNLKLFGDAL--TKRYGASA 601
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
0.319 0.139 0.447
Gapped
Lambda K H
0.267 0.0618 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,927,921
Number of extensions: 171755
Number of successful extensions: 372
Number of sequences better than 10.0: 1
Number of HSP's gapped: 371
Number of HSP's successfully gapped: 16
Length of query: 176
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 89
Effective length of database: 4,272,666
Effective search space: 380267274
Effective search space used: 380267274
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 (21.7 bits)
S2: 54 (24.8 bits)