RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11195
(346 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 = 40.0 bits (93), Expect = 0.001
Identities = 57/375 (15%), Positives = 108/375 (28%), Gaps = 148/375 (39%)
Query: 32 IYRTFE--FIFTN--------LVPGNTRHFTSVLGVYRAY--------------NSSKLY 67
FE ++ N L+ N + + Y ++S L+
Sbjct: 87 CLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALF 146
Query: 68 R-----DLKL------RGAIVRR-KELKMLPREHIYSQYQG------------VWNLSSD 103
R + +L +G +EL R+ +Y Y + L
Sbjct: 147 RAVGEGNAQLVAIFGGQGNTDDYFEEL----RD-LYQTYHVLVGDLIKFSAETLSELIRT 201
Query: 104 QGNLGVFMATNIRVV-WYADMNE--------SFNISLPYI---QIASIR----------- 140
+ + ++ W + + S IS P I Q+A
Sbjct: 202 TLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPG 261
Query: 141 -LRESKFGL---------ALVI------ESYEQSGGYVL------GFRIDPQETMQTVCK 178
LR G A+ I ES+ S + G R C
Sbjct: 262 ELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVR----------C- 310
Query: 179 ELQSYHRIHTTTPEYGVD-YVVSDVAILAEEAP-----VVQEDIAELEEDDNMLDLSNTL 232
+ P + ++ D E P + ++++ ++ +N+
Sbjct: 311 --------YEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQD---YVNKTNS- 358
Query: 233 TLYSADHMGGGTASAN--RKLVFS--PE-L-GLCVE----QPKPGFTMARLWEVIPSSDM 282
L + + + N + LV S P+ L GL + + G +R IP S+
Sbjct: 359 HLPAGKQV--EISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSR----IPFSER 412
Query: 283 NESFN-----ISLPY 292
F+ ++ P+
Sbjct: 413 KLKFSNRFLPVASPF 427
Score = 39.6 bits (92), Expect = 0.001
Identities = 47/345 (13%), Positives = 93/345 (26%), Gaps = 140/345 (40%)
Query: 2 W-----NSLSVLRINLSIGLACIQQVSTKVTFSPMIYRTFEFIFTNLVPGNTRHFTSVLG 56
W + + + IG+ C + + P I VP + +L
Sbjct: 289 WESFFVSVRKAITVLFFIGVRC-YEAYPNTSLPPSILEDSLEN-NEGVP------SPMLS 340
Query: 57 VYRAYNSSKLYRDLKLRGAIVRRKELKMLPREHIYSQYQGVWNLSSDQGNLGVFMATNIR 116
+ +L +++++ +++
Sbjct: 341 I----------SNL-------TQEQVQ----DYV-------------------------- 353
Query: 117 VVWYADMNESFNISLPYIQIASIRLRESKFGLALVIESYEQSGGYVLGFRIDPQETMQTV 176
N LP + I L LV+ SG P +++ +
Sbjct: 354 --------NKTNSHLPAGKQVEISLVNGA--KNLVV-----SG---------PPQSLYGL 389
Query: 177 CKELQSY--------HRI--------------------HT-----TTPEYGVDYVVSDVA 203
L+ RI H+ + D V ++V+
Sbjct: 390 NLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVS 449
Query: 204 ILAEE--APVVQ----EDIAELEED--DNMLDLSNTLTLY--SADHMGGGTASANRKLVF 253
A++ PV D+ L + ++D L + + A L F
Sbjct: 450 FNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQF-----KATHILDF 504
Query: 254 SP----ELGLCVEQPKPGFTMARLWEVIPSSDMNESFNISLPYIQ 294
P LG+ + K G T R VI + ++ + + + Q
Sbjct: 505 GPGGASGLGVLTHRNKDG-TGVR---VIVAGTLDINPDDDYGFKQ 545
Score = 32.3 bits (73), Expect = 0.29
Identities = 48/305 (15%), Positives = 91/305 (29%), Gaps = 129/305 (42%)
Query: 92 SQYQGVWNLSSDQGNLGVFMATN-------IRVVW-YAD--MNESFNISLPYI------Q 135
SQ QG M + + VW AD +++ S+ I
Sbjct: 1626 SQEQG--------------MGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVN 1671
Query: 136 IA-------SIRLRESKFGLALVIESYEQSGGYVLGFRIDPQETMQTVCKELQSYHRIH- 187
+ R+RE+ A++ E+ ++ ++ + + + SY
Sbjct: 1672 LTIHFGGEKGKRIRENY--SAMIFETIVDG-------KLKTEKIFKEINEHSTSYTFRSE 1722
Query: 188 ------T--TTPEYGVDYVVSDVAILA-EEAPVVQEDIAE---LEEDDNMLDLSNTLTL- 234
T T P A+ E+A ED+ + D S L
Sbjct: 1723 KGLLSATQFTQP-----------ALTLMEKAAF--EDLKSKGLIPADATFAGHS----LG 1765
Query: 235 -YSADHMGGGTASANRKLVFSPE------------LGLCVEQPKPGFTMARLWEVIPSSD 281
Y+A + A+ V S E + + V + + G + + + P
Sbjct: 1766 EYAAL-----ASLAD---VMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGR- 1816
Query: 282 MNESFNISLPYIQIASIRLRESKFGLALVIESYEQSGGYVLGFRIDPQVRTKKI---NCR 338
+ SF+ +E+ L V+E + G+++ +I N
Sbjct: 1817 VAASFS-------------QEA---LQYVVERVGKRTGWLV-----------EIVNYNVE 1849
Query: 339 GDVVV 343
V
Sbjct: 1850 NQQYV 1854
Score = 30.8 bits (69), Expect = 0.77
Identities = 51/301 (16%), Positives = 83/301 (27%), Gaps = 94/301 (31%)
Query: 114 NIRVVW---------YADMNESFNISLP---------------------YIQIASIRLRE 143
++ V + + E FN LP ++ S +
Sbjct: 15 SLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEP 74
Query: 144 SKFG-----LALVIESYEQS--GG-----YVLGFRIDPQETMQTVCKELQSYHRIHTTTP 191
SK G L L + +E G + T+ + +++Y
Sbjct: 75 SKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAK 134
Query: 192 EYGVDYVVSDV--AILAEEAPVV-----QEDIAE-LEEDDNMLDLSNTLTLYSADHMGGG 243
S + A+ A +V Q + + EE + DL T Y +G
Sbjct: 135 RPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEE---LRDLYQT---YHV-LVGDL 187
Query: 244 TASANRKLVFSPELGLCVEQPKPGFTMA---RLW----EVIPSSDMNESFNISLPYIQIA 296
+ L EL + FT W P D S IS P I +
Sbjct: 188 IKFSAETLS---ELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVI 244
Query: 297 SIRLRESKFGLALVIESYEQSGGYVLGFRIDP-QVRTKK---INCRGDVVV-------KT 345
LA Y + +LGF P ++R+ +V +
Sbjct: 245 Q---------LA----HYVVT-AKLLGF--TPGELRSYLKGATGHSQGLVTAVAIAETDS 288
Query: 346 W 346
W
Sbjct: 289 W 289
>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 = 39.1 bits (90), Expect = 0.002
Identities = 56/426 (13%), Positives = 108/426 (25%), Gaps = 139/426 (32%)
Query: 7 VLRINLSIGLACIQQVSTKVTFSPMIYRT-FEFIFTNL-----VP-GNTRHFTSVLGVYR 59
V +Q F + R ++F+ + + P TR + R
Sbjct: 61 VSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRD--R 118
Query: 60 AYNSSKLYRDLKLRGAIVRRKELKMLPREHIYSQYQGVW----------------NLSSD 103
YN ++++ V R + + R+ + ++
Sbjct: 119 LYNDNQVFAKYN-----VSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLS 173
Query: 104 QG-----NLGVF-------------------MATNIRVVWYADMNESFNISLPYIQIASI 139
+ +F + I W + + S NI L I
Sbjct: 174 YKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLR-IHSIQA 232
Query: 140 RLR----ESKFGLALVIESYEQSGGYVLGFRIDPQETMQTVCKELQSYHRIHTTTPEYGV 195
LR + L++ Q+ F + CK L TT
Sbjct: 233 ELRRLLKSKPYENCLLVLLNVQNAKAWNAF--NLS------CKIL-------LTTR---- 273
Query: 196 DYVVSDVAILAEEAPVVQEDIAELEEDDNMLDL-SNTLTLYSAD-----------HMGGG 243
V+D A + + + D + L L D +
Sbjct: 274 FKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSII 333
Query: 244 TAS----ANR----KLVFSPEL----GLCVEQPKPG-----------F---------TMA 271
S K V +L + +P F ++
Sbjct: 334 AESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLS 393
Query: 272 RLWEVIPSSD----MNESFN------------ISLPYIQIASIRLRESKFGL-ALVIESY 314
+W + SD +N+ IS+P I + E+++ L +++ Y
Sbjct: 394 LIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHY 453
Query: 315 EQSGGY 320
+
Sbjct: 454 NIPKTF 459
Score = 31.0 bits (69), Expect = 0.79
Identities = 19/107 (17%), Positives = 35/107 (32%), Gaps = 28/107 (26%)
Query: 14 IG--LACIQQVSTKVTFSPMIYRTFEFI--------FTNLVPGNTRHFTSVLGVYRAY-- 61
IG L I+ ++T M++ F F+ G+ + L Y+ Y
Sbjct: 477 IGHHLKNIEH-PERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYIC 535
Query: 62 -NS---SKLYRDLK--LRGA---IVRRKELKML------PREHIYSQ 93
N +L + L ++ K +L E I+ +
Sbjct: 536 DNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEE 582
>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 = 35.7 bits (81), Expect = 0.007
Identities = 11/44 (25%), Positives = 16/44 (36%), Gaps = 16/44 (36%)
Query: 221 EDDNMLDLSNTLTLYSADHMGGGTASANRKLVFSPELGL--CVE 262
E + L +L LY+ D SA P L + +E
Sbjct: 18 EKQALKKLQASLKLYADD-------SA-------PALAIKATME 47
>1zsq_A Myotubularin-related protein 2; protein-phospholipid complex,
hydrolase; HET: PIB; 1.82A {Homo sapiens} SCOP: b.55.1.8
c.45.1.3 PDB: 1zvr_A*
Length = 528
Score = 34.8 bits (79), Expect = 0.038
Identities = 13/66 (19%), Positives = 27/66 (40%), Gaps = 2/66 (3%)
Query: 76 IVRRKELKMLPREHIYSQYQGVWNLSSDQGNL-GVFMATNIRVVWYA-DMNESFNISLPY 133
+ +E +LP E+I + V + G + G TN R+ + + + + F +
Sbjct: 1 MASMEEPPLLPGENIKDMAKDVTYICPFTGAVRGTLTVTNYRLYFKSMERDPPFVLDASL 60
Query: 134 IQIASI 139
I +
Sbjct: 61 GVINRV 66
>1b7y_B Phers, protein (phenylalanyl-tRNA synthetase); enzyme, alpha/beta
homodimer, ligase; HET: FYA; 2.50A {Thermus
thermophilus} SCOP: a.6.1.1 a.6.1.1 b.40.4.4 b.153.1.1
d.58.13.1 d.104.1.1 PDB: 1b70_B* 1eiy_B 1jjc_B* 1pys_B
2akw_B* 2aly_B* 2amc_B* 3hfz_B* 3teh_B* 2iy5_B*
Length = 785
Score = 31.3 bits (72), Expect = 0.57
Identities = 7/28 (25%), Positives = 13/28 (46%)
Query: 204 ILAEEAPVVQEDIAELEEDDNMLDLSNT 231
E+A ++E ++ +LDL T
Sbjct: 134 EFPEDALPPGTPLSEAWPEEVVLDLEVT 161
>2eyz_A V-CRK sarcoma virus CT10 oncogene homolog isoform A; SH2, SH3,
signaling protein; NMR {Homo sapiens} PDB: 2l3s_A 2l3p_A
2l3q_A 2ggr_A
Length = 304
Score = 30.3 bits (67), Expect = 0.86
Identities = 15/48 (31%), Positives = 21/48 (43%)
Query: 294 QIASIRLRESKFGLALVIESYEQSGGYVLGFRIDPQVRTKKINCRGDV 341
Q A L+ + G+ LV +S G YVL + +V IN G
Sbjct: 21 QEAVALLQGQRHGVFLVRDSSTSPGDYVLSVSENSRVSHYIINSSGPR 68
>2atz_A H. pylori predicted coding region HP0184; structural genomics, PSI,
protein struc initiative, midwest center for structural
genomics, MCSG; HET: DGT; 2.00A {Helicobacter pylori}
SCOP: d.264.1.3
Length = 180
Score = 29.2 bits (65), Expect = 1.4
Identities = 10/24 (41%), Positives = 17/24 (70%), Gaps = 1/24 (4%)
Query: 270 MARLWEVIPSSDMNESFNI-SLPY 292
+ + W+V PS++ + FNI +LPY
Sbjct: 142 LPKEWKVFPSNEWPKEFNILALPY 165
>1pfj_A TFIIH basal transcription factor complex P62 subunit; PH/PTB
domain, structural proteomics in europe, spine,
structural genomics; NMR {Homo sapiens} SCOP: b.55.1.9
PDB: 2rnr_B
Length = 108
Score = 28.0 bits (62), Expect = 2.0
Identities = 8/33 (24%), Positives = 12/33 (36%)
Query: 108 GVFMATNIRVVWYADMNESFNISLPYIQIASIR 140
G R+ W + + F IS Y I +
Sbjct: 22 GALYLMAERIAWAPEGKDRFTISHMYADIKCQK 54
>1dip_A Delta-sleep-inducing peptide immunoreactive peptide; structure,
leucine zipper, PIG, acetylation; NMR {Sus scrofa} SCOP:
h.1.12.1
Length = 78
Score = 26.7 bits (58), Expect = 3.0
Identities = 11/26 (42%), Positives = 17/26 (65%)
Query: 207 EEAPVVQEDIAELEEDDNMLDLSNTL 232
EE +++E I EL E ++ L+ NTL
Sbjct: 15 EEVEILKEQIRELVEKNSQLERENTL 40
>2dvj_A V-CRK sarcoma virus CT10 oncogene homolog, isoform A; SH3, SH2,
signal transduction, adapter molecule, signaling
protein; HET: PTR; NMR {Homo sapiens} PDB: 2eyy_A 2eyv_A
2eyw_A
Length = 230
Score = 28.3 bits (62), Expect = 3.7
Identities = 14/45 (31%), Positives = 20/45 (44%)
Query: 296 ASIRLRESKFGLALVIESYEQSGGYVLGFRIDPQVRTKKINCRGD 340
A L+ + G+ LV +S G YVL + +V IN G
Sbjct: 25 AVALLQGQRHGVFLVRDSSTSPGDYVLSVSENSRVSHYIINSSGP 69
>1f2n_A Capsid protein; plant virus, coat protein, beta-annulus, domain
swapping, X-RAY diffraction, icosahedral virus; 2.80A
{Rice yellow mottle virus} SCOP: b.121.4.7
Length = 238
Score = 28.0 bits (61), Expect = 4.3
Identities = 11/63 (17%), Positives = 22/63 (34%)
Query: 158 SGGYVLGFRIDPQETMQTVCKELQSYHRIHTTTPEYGVDYVVSDVAILAEEAPVVQEDIA 217
+G + F D +T+ ++ T++ YG + A A V D +
Sbjct: 116 AGSIEMCFLYDYADTIPRYTGKMSRTAGFVTSSVWYGAEGCHLLSGGSARNAVVASMDCS 175
Query: 218 ELE 220
+
Sbjct: 176 RVG 178
>2izw_A Coat protein, ryegrass mottle virus coat protein; RNA, assembly,
capsid protein; 2.90A {Ryegrass mottle virus}
Length = 234
Score = 27.2 bits (59), Expect = 7.0
Identities = 9/107 (8%), Positives = 24/107 (22%), Gaps = 5/107 (4%)
Query: 158 SGGYVLGFRIDPQETMQTVCKELQSYHRIHTTTPEYGVDYVVSDVAILAEEAPVVQEDIA 217
+G + D + + L T P + P ++
Sbjct: 128 NGEVAMAMLYDVADVTSITIERLMQTRG-GTWGPIWSPTRKRLSYDPEHASLPWYLSGVS 186
Query: 218 ELEEDDNMLDLSNTLTLYSADHMGGGTASANRKLVFSPELGLCVEQP 264
N+ + A ++ +++ + L
Sbjct: 187 SGAAAGNIQTP---FQIAWAAQ-SSLVSTTLGRIMAEYLVELTDPVD 229
>2zt5_A Glycyl-tRNA synthetase; ligase, AP4A, glycine, ATP, Gly-AMP,
aminoacyl-tRNA synthetase, ATP-binding,
charcot-marie-tooth disease, disease mutation; HET: B4P;
2.50A {Homo sapiens} PDB: 2pme_A* 2zt6_A* 2zt7_A*
2zt8_A* 2zxf_A* 2pmf_A 2q5h_A 2q5i_A
Length = 693
Score = 27.7 bits (61), Expect = 7.7
Identities = 9/38 (23%), Positives = 13/38 (34%), Gaps = 4/38 (10%)
Query: 86 PREHIYSQYQGVWNLSSDQGNLGVFMATNIRVVWYADM 123
IY G++ D G +G + NI W
Sbjct: 82 QAFAIYGGVSGLY----DFGPVGCALKNNIIQTWRQHF 115
>1g5h_A Mitochondrial DNA polymerase accessory subunit; intermolecular four
helix bundle, DNA binding protein; 1.95A {Mus musculus}
SCOP: c.51.1.1 d.104.1.1 PDB: 1g5i_A 2g4c_A* 3ikm_B*
Length = 454
Score = 27.3 bits (60), Expect = 9.1
Identities = 8/34 (23%), Positives = 14/34 (41%), Gaps = 3/34 (8%)
Query: 90 IYSQYQGVWNLSSDQGNLGVFMATNIRVVWYADM 123
+ G + G LGV + N+ W++ M
Sbjct: 46 TAALLSG---CHARFGPLGVELRKNLASQWWSSM 76
>1ju5_A CRK; CRK, SH2, SH3, adaptor protein, phosphopeptide, protein
binding/transferase complex; HET: PTR; NMR {Homo
sapiens} SCOP: d.93.1.1
Length = 109
Score = 26.0 bits (57), Expect = 9.4
Identities = 14/45 (31%), Positives = 20/45 (44%)
Query: 296 ASIRLRESKFGLALVIESYEQSGGYVLGFRIDPQVRTKKINCRGD 340
A L+ + G+ LV +S G YVL + +V IN G
Sbjct: 12 AVALLQGQRHGVFLVRDSSTSPGDYVLSVSENSRVSHYIINSSGP 56
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
0.320 0.136 0.399
Gapped
Lambda K H
0.267 0.0538 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,295,635
Number of extensions: 314707
Number of successful extensions: 565
Number of sequences better than 10.0: 1
Number of HSP's gapped: 562
Number of HSP's successfully gapped: 21
Length of query: 346
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 252
Effective length of database: 4,077,219
Effective search space: 1027459188
Effective search space used: 1027459188
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: 58 (26.6 bits)