RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17827
(299 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 = 45.2 bits (106), Expect = 2e-05
Identities = 24/212 (11%), Positives = 68/212 (32%), Gaps = 39/212 (18%)
Query: 113 DAFVCQKKNHFQD--RIFMESVGAVKEL-CKVTQNLENRIEDETTSNNMRKKGKPNPDQR 169
D + + ++D +F ++ V CK Q++ I + +++ +
Sbjct: 8 DFETGEHQYQYKDILSVFEDAF--VDNFDCKDVQDMPKSILSKEEIDHIIMS--KDAVSG 63
Query: 170 YFYL----------VVGLHAHCSDSNHYP-IVSHASERIIVRASNPGQFESDVELCWQRG 218
L +V +Y ++S + + + +
Sbjct: 64 TLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDN 123
Query: 219 S--SPESV-----FHSGRVGINTERPDEALVVHGNV---K--LTGHIIQPSDIRAKQ--- 263
+ +V + R + RP + +++ G + K + + ++ K
Sbjct: 124 QVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFK 183
Query: 264 ----HITKCNTKEQLRNVQQLNVVQFHYTPEF 291
++ CN+ E + ++ L + + P +
Sbjct: 184 IFWLNLKNCNSPETV--LEMLQKLLYQIDPNW 213
Score = 31.4 bits (70), Expect = 0.47
Identities = 25/144 (17%), Positives = 40/144 (27%), Gaps = 38/144 (26%)
Query: 34 ITCHTQLQGDPQ-FVKTPEGMRKITSFHLHFYGVKVESLTQTIKVEQSQSDRSKKAFHPV 92
I +L D Q F K Y V ++ + R
Sbjct: 113 IEQRDRLYNDNQVFAK---------------YNVSRLQPYLKLR-QALLELR-------- 148
Query: 93 LPVPIYTVDADKGFNFSN-ADDAFVCQK---KNHFQDRIFMESVGAVK---ELCKVTQNL 145
P +D G + A VC + +IF ++ + ++ Q L
Sbjct: 149 -PAKNVLIDGVLGSGKTWVA--LDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKL 205
Query: 146 ENRIEDETTSNNMRKKGKPNPDQR 169
+I+ TS R N R
Sbjct: 206 LYQIDPNWTS---RSDHSSNIKLR 226
Score = 30.6 bits (68), Expect = 0.77
Identities = 33/171 (19%), Positives = 55/171 (32%), Gaps = 45/171 (26%)
Query: 40 LQGDPQFVKT-PEGMRKITSFHLHFYG-VKVESLTQTIK--VEQSQSDRSKKAFHP--VL 93
L +P+ + E +R + + V + LT I+ + + +K F V
Sbjct: 323 LTTNPRRLSIIAESIRDGLA-TWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVF 381
Query: 94 P--VPI--------------YTVD--ADKGFNFSNADDAFVCQKKNHFQDRIFMESVGAV 135
P I V +K +S +K + I + S+ +
Sbjct: 382 PPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYS-------LVEKQPKESTISIPSI-YL 433
Query: 136 KELCKVT--QNLENRIEDETTSNNMRKK------GKPNPDQRYFYLVVGLH 178
+ K+ L I D N+ K P DQ YFY +G H
Sbjct: 434 ELKVKLENEYALHRSIVD---HYNIPKTFDSDDLIPPYLDQ-YFYSHIGHH 480
>1mnn_A NDT80 protein; IG fold, protein_DNA complex, transcription-DNA
complex; 1.40A {Saccharomyces cerevisiae} SCOP: b.2.5.7
PDB: 2evg_A 2euv_A 2euw_A 2etw_A 2eux_A 2evf_A 2euz_A
2evh_A 2evi_A 2evj_A 1mn4_A 1m6u_A 1m7u_A
Length = 340
Score = 42.5 bits (99), Expect = 9e-05
Identities = 35/259 (13%), Positives = 71/259 (27%), Gaps = 50/259 (19%)
Query: 1 MMPVPIYTVDADKGFNFSNADDAFVCQKKNHFQITCHTQLQGDPQFVKTPEGMRKITSFH 60
D+GF+ D+ +V K+N+F + + +
Sbjct: 85 RTLDLRIIPRIDRGFDH--IDEEWVGYKRNYFTLVSTFETANCDLDTFLKSSFDLLVEDS 142
Query: 61 LHFYGVKVESLTQTI---------KVE--QSQSDRSKKAFHPVLPVPIYTVDADKGFNFS 109
++V+ I ++ Q + R K P+ K
Sbjct: 143 SVEGRLRVQYFAIKIKAKNDDDDTEINLVQHTAKRDKGPQFCPSVCPLVPSPLPKHQTIR 202
Query: 110 NADDAFVCQKKNHFQDRIFMESVGAVKELCKVTQNLENRIEDE------------TTSNN 157
A + K + ++ E V L + ED +S +
Sbjct: 203 EASNVRNITKMKKYDSTFYLHRDHVNYEEYGVDSLLFSYPEDSIQKVARYERVQFASSIS 262
Query: 158 MRKKGKPNPDQRYFYLVVGLHA----------------------HCSDSNHYPIVSHASE 195
++ KP+ ++F L V L A + S + +
Sbjct: 263 VK---KPSQQNKHFSLHVILGAVVDPDTFHGENPGIPYDELALKNGSKGMFVYLQEMKTP 319
Query: 196 RIIVRASNPGQFESDVELC 214
+I+R +P + S +
Sbjct: 320 PLIIRGRSPSNYASSQRIT 338
>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 = 38.1 bits (88), Expect = 0.003
Identities = 52/313 (16%), Positives = 85/313 (27%), Gaps = 116/313 (37%)
Query: 41 QGDPQFVKTPEGM-----------RKITSFH---LHF---YGVKVESLTQTIKVEQSQSD 83
QG Q GM + + ++ HF YG S+ + ++
Sbjct: 1624 QGS-QEQ----GMGMDLYKTSKAAQDV--WNRADNHFKDTYGF---SILDIVI-----NN 1668
Query: 84 RSKKAFHPVLPVPIYTVDADKGFNFSNADDAFVCQKK------NHFQDRIFMESVGAVKE 137
H + F D + +K H F K
Sbjct: 1669 PVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSE----KG 1724
Query: 138 LCKVTQN-----LENRIEDETTS----NNMRKKGKPNPDQRYFYLVVGLH------AHCS 182
L TQ +++ KG D F G H A S
Sbjct: 1725 LLSATQFTQPALT-------LMEKAAFEDLKSKGLIPADA-TF---AG-HSLGEYAALAS 1772
Query: 183 DSNHYPIVSHASERIIVRASNPGQFESDVELCWQRGSSPESVFHSGRVG--------INT 234
++ ++S ES VE+ + RG + + +G IN
Sbjct: 1773 LAD---VMS---------------IESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINP 1814
Query: 235 ER-----PDEAL--VVHGNVKLTGHIIQPS-------------DIRAKQHITKCNTKEQL 274
R EAL VV K TG +++ D+RA +T +L
Sbjct: 1815 GRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKL 1874
Query: 275 RNVQQLNV-VQFH 286
+ + + +
Sbjct: 1875 QKIDIIELQKSLS 1887
Score = 36.2 bits (83), Expect = 0.012
Identities = 42/322 (13%), Positives = 80/322 (24%), Gaps = 129/322 (40%)
Query: 31 HFQITCHTQLQGDPQFVKTPEGMRKI---TSFHL----------------HFYGVKVESL 71
H+ +T G TP +R + H F+ S+
Sbjct: 248 HYVVTAKL--LG-----FTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFF----VSV 296
Query: 72 TQTIKVEQSQSDRSKKAFHPVLPVPI----YTVDADKG---------------------- 105
+ I V R +A+ P +P +++ ++G
Sbjct: 297 RKAITVLFFIGVRCYEAY-PNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNK 355
Query: 106 FNFS------------NADDAFVCQKKNHFQDRIFMESVGAVKELCKVTQNLENRIEDET 153
N N V G + L + L + + +
Sbjct: 356 TNSHLPAGKQVEISLVNGAKNLVV--------------SGPPQSLYGLNLTLR-KAKAPS 400
Query: 154 TSNNMRKKG---KPNPDQRYFYLVVGLHAHCS-----------DSNHYPIVSHASE-RII 198
+ R K R +L V H D + +A + +I
Sbjct: 401 GLDQSRIPFSERKLKFSNR--FLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIP 458
Query: 199 VRASNPGQ----FESDV--ELC---------WQRGSSPES----VFHSGRV-GINTERPD 238
V + G + + W+ + ++ F G G+
Sbjct: 459 VYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGL------ 512
Query: 239 EALVVHGNVKLTG-HIIQPSDI 259
++ H N TG +I +
Sbjct: 513 -GVLTHRNKDGTGVRVIVAGTL 533
Score = 35.0 bits (80), Expect = 0.028
Identities = 21/120 (17%), Positives = 35/120 (29%), Gaps = 43/120 (35%)
Query: 19 NADDAFVCQKKNHFQITCHTQ-LQG-DPQF--VKTPEGM---------RK---------I 56
N V ++ Q L G + K P G+ RK +
Sbjct: 372 NGAKNLV--------VSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPV 423
Query: 57 TS-FHLHFYGVKVESLTQTIKVEQSQSDRSKKAFHPV-LPVPIY-TVDADKGFNFSNADD 113
S FH H L + ++ +F+ + +P+Y T D G +
Sbjct: 424 ASPFHSHL-------LVPASDLINKDLVKNNVSFNAKDIQIPVYDTFD---GSDLRVLSG 473
>3m4u_A Tyrosine specific protein phosphatase, putative; protein tyrosine
phosphatase, hydrolase; 2.39A {Trypanosoma brucei}
Length = 306
Score = 30.0 bits (68), Expect = 0.82
Identities = 8/56 (14%), Positives = 17/56 (30%)
Query: 233 NTERPDEALVVHGNVKLTGHIIQPSDIRAKQHITKCNTKEQLRNVQQLNVVQFHYT 288
+ H +K+T ++ A+ I + + V+Q Y
Sbjct: 140 EEDSLSFPESGHDAIKVTRDAEASYEVDAELDIVRRPLVIHVPGKPMHRVLQVQYV 195
>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 99
Score = 27.2 bits (61), Expect = 2.7
Identities = 9/32 (28%), Positives = 17/32 (53%), Gaps = 3/32 (9%)
Query: 86 KKAFHPVLPVPIYTVDADKGF---NFSNADDA 114
+K F+ + P + V + + +FSN +DA
Sbjct: 33 EKEFNNIKPGAVERVKKIRDYAFVHFSNREDA 64
>1pko_A Myelin oligodendrocyte glycoprotein; IGV-domain, immune system;
1.45A {Rattus norvegicus} SCOP: b.1.1.1 PDB: 1pkq_E
3csp_A 1py9_A
Length = 139
Score = 27.2 bits (60), Expect = 3.7
Identities = 13/65 (20%), Positives = 26/65 (40%), Gaps = 10/65 (15%)
Query: 204 PGQFESDVELCWQRGSSPESV--FHSGRVGINTERPD--------EALVVHGNVKLTGHI 253
PG+ + +E+ W R V + +G+ + P+ + + G V L
Sbjct: 32 PGKNATGMEVGWYRSPFSRVVHLYRNGKDQDAEQAPEYRGRTELLKESIGEGKVALRIQN 91
Query: 254 IQPSD 258
++ SD
Sbjct: 92 VRFSD 96
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 0.134 0.403
Gapped
Lambda K H
0.267 0.0544 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,589,249
Number of extensions: 264019
Number of successful extensions: 521
Number of sequences better than 10.0: 1
Number of HSP's gapped: 518
Number of HSP's successfully gapped: 14
Length of query: 299
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 206
Effective length of database: 4,105,140
Effective search space: 845658840
Effective search space used: 845658840
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 (21.8 bits)
S2: 57 (26.2 bits)