RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10036
(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 = 47.9 bits (113), Expect = 4e-06
Identities = 61/399 (15%), Positives = 110/399 (27%), Gaps = 127/399 (31%)
Query: 13 KPVLISLRQALLASAFVPFFSGFIPPKF---HGVRYMDGGVSDNLPVLDENTITVSPFCG 69
+P L LRQALL P K G + G G
Sbjct: 135 QPYL-KLRQALL---------ELRPAKNVLIDG---VLG-------------------SG 162
Query: 70 ES----DICPRDLSPQL------FHMNFAN-TSVELSSQNFFRIMRILFPPDPEILSQMC 118
++ D+C Q F +N N S E + +++ + P
Sbjct: 163 KTWVALDVC-LSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSS 221
Query: 119 --QQGFDDA----LRFLSKNNLINCTKCVAVQSKLIVVQKENYQHPDE-DEFDPECKECI 171
+ R L NC L+V+ N Q+ + F+ CK +
Sbjct: 222 NIKLRIHSIQAELRRLLKSKPYENC---------LLVL--LNVQNAKAWNAFNLSCKILL 270
Query: 172 RHREEALVANLPPTVKAIFQDAIDSANKGFVNWVFKHRTMRL------VSIVSLPYLI-T 224
R + + L ++D + L LP + T
Sbjct: 271 TTRFKQVTDFLSAATTTHI--SLDHHSMTLT----PDEVKSLLLKYLDCRPQDLPREVLT 324
Query: 225 VD-FIYAVFNKFVQMAPVLGTNMKAMN---VTEIFDVTEKGDLPPPSSATLLDNEAEPLI 280
+ ++ + ++ N K +N +T I + + L P + D +
Sbjct: 325 TNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLN-VLEPAEYRKMFDR-----L 378
Query: 281 TIKDED-----------WTTEYCEQEEYDPE--ADEEGNNGGIFSDPESEWMTNSSTSSS 327
++ W + + D ++ + P ST
Sbjct: 379 SVFPPSAHIPTILLSLIW----FDVIKSDVMVVVNKLHKYSLVEKQP------KEST--- 425
Query: 328 SPLSSHRSLTLTDLRPESDQTGCQHNSRSQAHHSK-VDR 365
+S S+ L +L+ + + A H VD
Sbjct: 426 --ISIP-SIYL-ELKVKLEN--------EYALHRSIVDH 452
Score = 40.2 bits (93), Expect = 0.001
Identities = 37/226 (16%), Positives = 68/226 (30%), Gaps = 78/226 (34%)
Query: 153 ENYQHPDEDEFDPECKECI--------RHREEALV-----ANLPPTVKAIF------QDA 193
+N++H + D+ + + R + L A++P + ++ D
Sbjct: 345 DNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDV 404
Query: 194 IDSANKGFVNW--VFKHRTMRLVSI--VSLPYLITVDFIYAVFNKFVQMAPVLGTNMKAM 249
+ NK + V K +SI + L + ++ YA+ V
Sbjct: 405 MVVVNK-LHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVD----------HY 453
Query: 250 NVTEIFDVTEKGDLPPPSSATLLDNEAEPLITIKDEDWTTEY-----------CEQEEYD 298
N+ + FD DL PP LD Y E E
Sbjct: 454 NIPKTFD---SDDLIPPY----LDQ----------------YFYSHIGHHLKNIEHPERM 490
Query: 299 PEADEEGNNGGIFSDPESEWMTNSSTSSSSPLSSHRSL--TLTDLR 342
+F D ++ S+ ++ S+ TL L+
Sbjct: 491 TLFRM------VFLD--FRFLEQKIRHDSTAWNASGSILNTLQQLK 528
Score = 37.9 bits (87), Expect = 0.006
Identities = 35/248 (14%), Positives = 68/248 (27%), Gaps = 71/248 (28%)
Query: 154 NYQHPDED--EFDPECKECIRHREEALVANLPPTVKAIFQDAIDSANKGFVNWVFKH--- 208
++ H D + E + K+ + E+A V N +D D H
Sbjct: 3 HHHHMDFETGEHQYQYKDILSVFEDAFVDNFD------CKDVQDMPKSILSKEEIDHIIM 56
Query: 209 ------RTMRLVSIVSLP-------YLITV-----DFIYAVFNKFVQMAPVLGTNM---- 246
T+RL + ++ V F+ + K Q P + T M
Sbjct: 57 SKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPI-KTEQRQPSMMTRMYIEQ 115
Query: 247 --KAMNVTEIFDVTEKGDLPPPSSATLLDNEAEPLITIKDEDW--------------TTE 290
+ N ++F K ++ L L+ ++ +
Sbjct: 116 RDRLYNDNQVFA---KYNVSRLQPYLKLRQA---LLELRPAKNVLIDGVLGSGKTWVALD 169
Query: 291 YCEQEEYDPEADEEGNNGGIFSDPESEWMTNSSTSSSSPLSSHRSLTLTDLRPESDQTGC 350
C + + + IF W+ + +S + L L + D
Sbjct: 170 VCLSYKV-----QCKMDFKIF------WLNLKNCNSPETVLEM----LQKLLYQIDPNWT 214
Query: 351 QHNSRSQA 358
+ S
Sbjct: 215 SRSDHSSN 222
Score = 30.2 bits (67), Expect = 1.4
Identities = 23/135 (17%), Positives = 42/135 (31%), Gaps = 42/135 (31%)
Query: 1 MRTLFLELALVVKPVLISLRQALLASAFVPFFSGFIPPKFHGVRYMDGGVSDNLPVLDEN 60
R +FL+ L Q + + SG I +++ + DN P +
Sbjct: 493 FRMVFLDFRF--------LEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERL 544
Query: 61 TITVSPF---CGESDICPRDLSPQLFHMNFANTSVELSSQNFFRIMRI-LFPPDPEILSQ 116
+ F E+ IC S + ++RI L D I
Sbjct: 545 VNAILDFLPKIEENLIC----SK------------------YTDLLRIALMAEDEAI--- 579
Query: 117 MCQQGFDDALRFLSK 131
F++A + + +
Sbjct: 580 -----FEEAHKQVQR 589
>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 = 40.8 bits (95), Expect = 6e-04
Identities = 73/467 (15%), Positives = 131/467 (28%), Gaps = 211/467 (45%)
Query: 9 ALVVKPVLI---SLRQALLASAFVP------------FFSGFIPPKFHGVRYMDGGVSDN 53
A +P+ + SL LL VP F+ +P ++
Sbjct: 3 AYSTRPLTLSHGSLEHVLL----VPTASFFIASQLQEQFNKILPE-----------PTEG 47
Query: 54 LPVLDENTITVSPFCGESDICPRDLSPQLFHMNFANTSVELSSQN-FFRIMRILFPPDPE 112
DE P +L + F + + ++ VE S F +++ +
Sbjct: 48 FAADDE------------PTTPAELVGK-F-LGYVSSLVEPSKVGQFDQVLNLCL----- 88
Query: 113 ILSQMCQQGFDDALRFLSKNN-------LINCTKCVAVQSKLIVVQKENY---------- 155
F++ +L N+ L+ V++K ++ +NY
Sbjct: 89 -------TEFENC--YLEGNDIHALAAKLLQENDTTLVKTKELI---KNYITARIMAKRP 136
Query: 156 --------------------------QHPDEDEFD----------PECKECIRHREEAL- 178
Q +D F+ + I+ E L
Sbjct: 137 FDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLS 196
Query: 179 -VANLPPTVKAIFQDAIDSANKGFVNWVFKHRTMR-----LVSI-VSLPYLITV-DFI-Y 229
+ + +F ++ + W+ ++ + L+SI +S P LI V Y
Sbjct: 197 ELIRTTLDAEKVFTQGLN-----ILEWL-ENPSNTPDKDYLLSIPISCP-LIGVIQLAHY 249
Query: 230 AVFNKFVQMAPVLGTNMKAMNVTEIFDVTEKGDLPPPSSATLLDNEAEPLIT---IKDED 286
V K +LG E+ AT ++ L+T I + D
Sbjct: 250 VVTAK------LLG-----FTPGELRSYL--------KGAT---GHSQGLVTAVAIAETD 287
Query: 287 -WTTEY----------------CEQEEY-----DPE--ADEEGNNGGIFSDPESEWMTNS 322
W + + C E Y P D NN G+ P
Sbjct: 288 SWESFFVSVRKAITVLFFIGVRC-YEAYPNTSLPPSILEDSLENNEGV---P-------- 335
Query: 323 STSSSSPLSSHRSLTLTDLRPESDQTGCQH------------NSRSQ 357
SP+ S +LT ++ ++T H N
Sbjct: 336 -----SPMLSISNLTQEQVQDYVNKT-NSHLPAGKQVEISLVNGAKN 376
Score = 29.2 bits (65), Expect = 2.4
Identities = 23/149 (15%), Positives = 42/149 (28%), Gaps = 40/149 (26%)
Query: 122 FDDALRFLSKNNLINCTKCVAVQSKLIVVQKENYQHPDEDEFDPECKECIRHREEALVAN 181
++ A + V + + H F E + IR A++
Sbjct: 1646 WNRADNHFKDTYGFSILDIVINNPVNLTI------H-----FGGEKGKRIRENYSAMIFE 1694
Query: 182 LPPTVKAIFQDAIDSANKGFVNWVFKHRTMRLVSIVSLPYLITVDFIYAVFNKFVQMAPV 241
K + N+ ++ F+ L T +F Q P
Sbjct: 1695 TIVDGKLKTEKIFKEINEHSTSYTFRSEKGLL--------SAT---------QFTQ--P- 1734
Query: 242 LGTNMKAMNVTE--IF-DVTEKGDLPPPS 267
A+ + E F D+ KG +P +
Sbjct: 1735 ------ALTLMEKAAFEDLKSKGLIPADA 1757
>3tu3_B EXOU; type III secretion system, SPC infectious diseases,
structural genomics, center for struct genomics of
infectious diseases, csgid; 1.92A {Pseudomonas
aeruginosa} PDB: 4akx_B*
Length = 711
Score = 34.3 bits (77), Expect = 0.060
Identities = 12/49 (24%), Positives = 16/49 (32%), Gaps = 11/49 (22%)
Query: 17 ISLRQALLASAFVPFFSGFIPPKFHG---------VRYMDGGVSDNLPV 56
+ + QA S P F + DGGV N+PV
Sbjct: 331 LEVAQAAHISGSFPGV--FQKVSLSDQPYQAGVEWTEFQDGGVMINVPV 377
>2jks_A BSR4, bradyzoite surface antigen BSR4; immune system; 1.90A
{Toxoplasma gondii}
Length = 315
Score = 33.2 bits (75), Expect = 0.12
Identities = 18/84 (21%), Positives = 24/84 (28%), Gaps = 13/84 (15%)
Query: 285 EDWTTEYCEQEEYDPEADEEGNNGGIFSDPESEWMTNSSTSSSSPLSSHRSLTLT---DL 341
+ EYC + D IF W + +S TLT
Sbjct: 211 TTYAEEYCVADSKDVNRCSTTRFVEIFPKFLKSWWVTETQKRTSA-------TLTIPQTD 263
Query: 342 RPESDQT---GCQHNSRSQAHHSK 362
PE+DQ GC + K
Sbjct: 264 LPEADQQFLVGCVPKKTAPEDPKK 287
>3rst_A Signal peptide peptidase SPPA; alpha/beta protein fold, signal
peptide digestion, bacterial membrane, hydrolase; 2.37A
{Bacillus subtilis}
Length = 240
Score = 31.4 bits (72), Expect = 0.32
Identities = 10/30 (33%), Positives = 17/30 (56%)
Query: 182 LPPTVKAIFQDAIDSANKGFVNWVFKHRTM 211
+ K I Q +D++ +GFV+ + K R M
Sbjct: 153 MTKEEKNIMQSMVDNSYEGFVDVISKGRGM 182
>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide
binding, RNA recognition motif; 1.40A {Homo sapiens}
PDB: 3zzz_A
Length = 130
Score = 30.0 bits (67), Expect = 0.51
Identities = 7/23 (30%), Positives = 16/23 (69%)
Query: 213 LVSIVSLPYLITVDFIYAVFNKF 235
+ + +L Y +T+D ++ +F+KF
Sbjct: 30 RIIVENLFYPVTLDVLHQIFSKF 52
>1sjr_A Polypyrimidine tract-binding protein 1; extended babbab motif, RNA
binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB:
2adb_A
Length = 164
Score = 29.3 bits (65), Expect = 1.1
Identities = 7/23 (30%), Positives = 16/23 (69%)
Query: 213 LVSIVSLPYLITVDFIYAVFNKF 235
+ + +L Y +T+D ++ +F+KF
Sbjct: 48 RIIVENLFYPVTLDVLHQIFSKF 70
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.4 bits (65), Expect = 1.5
Identities = 13/84 (15%), Positives = 22/84 (26%), Gaps = 39/84 (46%)
Query: 267 SSATLLDNEAEPL----------ITIKDE------------------DWTTEYCEQEE-- 296
+ A L E E + + D +W EQ E
Sbjct: 75 AQADRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKN 134
Query: 297 --YDPEADEEGNNGGIF-SDPESE 317
+ AD+ F P+++
Sbjct: 135 KINNRIADKA------FYQQPDAD 152
>3cih_A Putative alpha-rhamnosidase; structural genomics, protein structure
initiative II, NYSGXRC, (alpha/alpha)6 barrel domain;
2.33A {Bacteroides thetaiotaomicron vpi-5482}
Length = 739
Score = 28.5 bits (63), Expect = 4.3
Identities = 11/48 (22%), Positives = 17/48 (35%), Gaps = 1/48 (2%)
Query: 284 DEDWTTEYCEQEEYDPEADEEGNNGGIFSDPESEWMTNSSTSSSSPLS 331
D W Y ++E D + I+ D W + +T S S
Sbjct: 129 DSSWRVTYEDKEWIDESGKASDTSATIYMD-AGCWNFDGATQRPSQFS 175
>2a2u_A Protein (alpha-2U-globulin); lipid binding protein; 2.50A {Rattus
norvegicus} SCOP: b.60.1.1 PDB: 2a2g_A
Length = 181
Score = 27.3 bits (60), Expect = 6.5
Identities = 12/60 (20%), Positives = 19/60 (31%), Gaps = 6/60 (10%)
Query: 1 MRTLFLELALVVKPVLISLRQALLASAFVPFFSGFIPPKFHGVRYMDGGVSDNLPVLDEN 60
M+ L L L L + V A K +G + S+ ++EN
Sbjct: 1 MKLLLLLLCLGLTLVCG------HAEEASSTRGNLDVAKLNGDWFSIVVASNKREKIEEN 54
>1a9x_A Carbamoyl phosphate synthetase (large chain); amidotransferase,
thioester; HET: CYG ADP; 1.80A {Escherichia coli} SCOP:
a.92.1.1 c.24.1.1 c.30.1.1 c.30.1.1 d.142.1.2 d.142.1.2
PDB: 1ce8_A* 1m6v_A* 1c30_A* 1bxr_A* 1c3o_A* 1cs0_A*
1jdb_B* 1kee_A* 1t36_A*
Length = 1073
Score = 27.5 bits (62), Expect = 8.1
Identities = 7/17 (41%), Positives = 8/17 (47%)
Query: 232 FNKFVQMAPVLGTNMKA 248
F KF L T MK+
Sbjct: 364 FEKFAGANDRLTTQMKS 380
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 0.401
Gapped
Lambda K H
0.267 0.0549 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,742,737
Number of extensions: 343239
Number of successful extensions: 750
Number of sequences better than 10.0: 1
Number of HSP's gapped: 747
Number of HSP's successfully gapped: 19
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 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 58 (26.5 bits)