RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy269
(345 letters)
>2yue_A Protein neuralized; structure genomics, NEUZ(NHR) domain,
structural genomics, NPPSFA; NMR {Drosophila
melanogaster}
Length = 168
Score = 224 bits (572), Expect = 1e-73
Identities = 95/162 (58%), Positives = 128/162 (79%)
Query: 28 GTNNLPPLYFHQVHGENVRVSRDGTVAKRYESFCKGVAFSSRPVKINEKVYVKLLEISTN 87
+ + PL FH VHG+N+R+SRDGT+A+R+ESFC+ + FS+RPV+INE++ VK EIS N
Sbjct: 2 SSGSSGPLQFHSVHGDNIRISRDGTLARRFESFCRAITFSARPVRINERICVKFAEISNN 61
Query: 88 WSGVIRFGFTANDPAHLKYALPRYVCPDLTNKPGYWAKALAERFADQETVLFYYVTAAGD 147
W+G IRFGFT+NDP L+ LP+Y CPDLTN+PG+WAKAL E++ +++ +L+YYV AGD
Sbjct: 62 WNGGIRFGFTSNDPVTLEGTLPKYACPDLTNRPGFWAKALHEQYCEKDNILYYYVNGAGD 121
Query: 148 VHFGINGEEKGVFFTGVETRGPLWAMFDIYGNSTAIQLIDSR 189
V +GIN EEKGV TG++TR LW + DIYGN T I+ +DSR
Sbjct: 122 VIYGINNEEKGVILTGIDTRSLLWTVIDIYGNCTGIEFLDSR 163
Score = 91.9 bits (228), Expect = 2e-22
Identities = 27/82 (32%), Positives = 46/82 (56%), Gaps = 1/82 (1%)
Query: 255 SPQDLVPLPFHRTIGRNVRLSNDRTIASRRDTEFSQGYVFTGRPVQLGEKIVIQVLETES 314
S PL FH G N+R+S D T+A R + F + F+ RPV++ E+I ++ E +
Sbjct: 2 SSGSSGPLQFHSVHGDNIRISRDGTLARRFE-SFCRAITFSARPVRINERICVKFAEISN 60
Query: 315 RYYGALALGLTSCNPASLKPSV 336
+ G + G TS +P +L+ ++
Sbjct: 61 NWNGGIRFGFTSNDPVTLEGTL 82
>2e63_A KIAA1787 protein; structure genomics, neuralized domain, structural
genomics, NPPSFA; NMR {Homo sapiens}
Length = 170
Score = 168 bits (427), Expect = 8e-52
Identities = 45/172 (26%), Positives = 68/172 (39%), Gaps = 26/172 (15%)
Query: 34 PLYFHQVHGENVRVSRDGTVAKRYE---SFCKGVAFSSRPVKINEKVYVKLLEISTNWSG 90
H G V +S G A+R + F G+ S P++ V++ +WSG
Sbjct: 6 SGELHPRTGRLVSLSACGRTARRQQPGQEFNHGLVLSREPLRDGRVFTVRIDRKVNSWSG 65
Query: 91 VIRFGFTANDPAHLKYALPRYVCPDLTNKPGYWAKALAERFADQETVLFYY--------- 141
I G TA DP+ L + K G W + D +VL Y
Sbjct: 66 SIEIGVTALDPSVLDFP-----SSATGLKGGSWVVSGCSVLRDGRSVLEEYGQDLDQLGE 120
Query: 142 -------VTAAGDVHFGINGEEKGVFFTGVETRGPLWAMFDIYGNSTAIQLI 186
T AG++ +NG + GV TG+ +WA+ D+YG T I ++
Sbjct: 121 GDRVGVERTVAGELRLWVNGRDCGVAATGLPP--RVWAVVDLYGKCTQITVL 170
Score = 83.5 bits (206), Expect = 2e-19
Identities = 19/75 (25%), Positives = 36/75 (48%), Gaps = 2/75 (2%)
Query: 261 PLPFHRTIGRNVRLSNDRTIASRRD--TEFSQGYVFTGRPVQLGEKIVIQVLETESRYYG 318
H GR V LS A R+ EF+ G V + P++ G +++ + + G
Sbjct: 6 SGELHPRTGRLVSLSACGRTARRQQPGQEFNHGLVLSREPLRDGRVFTVRIDRKVNSWSG 65
Query: 319 ALALGLTSCNPASLK 333
++ +G+T+ +P+ L
Sbjct: 66 SIEIGVTALDPSVLD 80
>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 = 45.8 bits (108), Expect = 2e-05
Identities = 46/249 (18%), Positives = 81/249 (32%), Gaps = 89/249 (35%)
Query: 140 YYVTAA------GDV--HF-GINGEEKGV----FFTGVETRGPLWAMFDIYGNS-TAIQL 185
Y VTA G++ + G G +G+ ++ W F + + AI +
Sbjct: 249 YVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDS----WESF--FVSVRKAITV 302
Query: 186 ---IDSRAQLNNARRVSTHLSPEELSSPINNN-------------------SNIDLMNRY 223
I R A ++ L P L + NN ++ N +
Sbjct: 303 LFFIGVRCYE--AYPNTS-LPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSH 359
Query: 224 ----------IVNSMAAMNV--HPQS----------TPAPLPED-TQVPL--RALT-SPQ 257
+VN + V PQS AP D +++P R L S +
Sbjct: 360 LPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNR 419
Query: 258 DL-VPLPFHRTIGRNV--RLSNDRTIASRRDTEFSQGY----VF---TGRPVQ-----LG 302
L V PFH + ++ D + + F+ V+ G ++ +
Sbjct: 420 FLPVASPFHSHLLVPASDLINKD---LVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSIS 476
Query: 303 EKIVIQVLE 311
E+IV ++
Sbjct: 477 ERIVDCIIR 485
Score = 39.3 bits (91), Expect = 0.002
Identities = 19/126 (15%), Positives = 36/126 (28%), Gaps = 42/126 (33%)
Query: 7 PSTNR-PRFFSC---VTAPRTGSNSGTNNLPPLYFHQVHGENVRVSRDGTVAKRYESFCK 62
P + R +F + V +P FH + + K
Sbjct: 408 PFSERKLKFSNRFLPVASP---------------FHSHLLVPASDLINKDLVK------N 446
Query: 63 GVAFSSRPVKINEKVYVKLLEISTNWSGVIRFGFTANDPAHLKYALPRYVCPDLTNKPGY 122
V+F+++ ++I VY T F +D L ++ + + P
Sbjct: 447 NVSFNAKDIQI--PVY------DT---------FDGSDLRVLSGSISERIVDCIIRLPVK 489
Query: 123 WAKALA 128
W
Sbjct: 490 WETTTQ 495
Score = 35.8 bits (82), Expect = 0.025
Identities = 50/297 (16%), Positives = 87/297 (29%), Gaps = 75/297 (25%)
Query: 65 AFSSRPVKINE-KVYVKLLEISTN-WSG--VIRFGFTANDPAHLKYALPRYVCPD-LTNK 119
A+S+RP+ ++ + LL + T + ++ F P + D T
Sbjct: 3 AYSTRPLTLSHGSLEHVLL-VPTASFFIASQLQEQFNKILPE----PTEGFAADDEPTTP 57
Query: 120 PGYWAKAL---AERFADQETVLFYYVTAAGDVHFGINGEEKGVFFTGVETRGPLWAMFDI 176
K L + + F V F E + G DI
Sbjct: 58 AELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEF----ENC--YLEGN----------DI 101
Query: 177 YGNSTAIQLI-DSRAQLNNARRV--STHLSPEELSSPINNNSNIDLMNRYIVNSMAAMNV 233
++ A +L+ ++ L + + + + P + SN L V A +
Sbjct: 102 --HALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRA--VGEGNA-QL 156
Query: 234 HPQ-----STPAPLPEDTQVPLRAL-TSPQDLVPLPFHRTIGRNVRLSNDRTIASRRDTE 287
+T E LR L + LV + L A +
Sbjct: 157 VAIFGGQGNTDDYFEE-----LRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKV--- 208
Query: 288 FSQGYVFTGRPVQLGEKIVIQVLETESR----YYGALALGLTSCNPASLKPSVFLLS 340
F+QG +++ LE S Y L S P S P + ++
Sbjct: 209 FTQGLN------------ILEWLENPSNTPDKDY------LLSI-PISC-PLIGVIQ 245
>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 = 38.3 bits (88), Expect = 0.004
Identities = 46/294 (15%), Positives = 79/294 (26%), Gaps = 65/294 (22%)
Query: 2 DPLNFPSTNRPRFFSCVTAPRTGSNSGTNNLPPLYFHQVHGEN--------VRVSRDGTV 53
D F N R R L P + G + V V
Sbjct: 122 DNQVFAKYNVSRL-QPYLKLRQA----LLELRPAKNVLIDGVLGSGKTWVALDVCLSYKV 176
Query: 54 AKRYES--FCKGVAFSSRPVKINEKVYVKLLEISTNWSGVIRFGFTANDPAH-LKYALPR 110
+ + F + + P + E + L +I NW+ H ++ L R
Sbjct: 177 QCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRR 236
Query: 111 YVCPDLTNKPGY----------WAKALAERFADQETVL--------FYYVTAAGDVHFGI 152
L +KP Y F +L +++AA H +
Sbjct: 237 L----LKSKP-YENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISL 291
Query: 153 NGEEKGVFFTGVETRGPL--WAMFDIYGNSTAIQLIDSRAQLNNARRVSTHLSPEELSSP 210
+ T E + L + Q + N RR+S + E +
Sbjct: 292 DHHSMT--LTPDEVKSLLLKYL-------DCRPQDLPREVLTTNPRRLS--IIAESIRDG 340
Query: 211 IN-----NNSNIDLMNRYIVNSMAAMNVHPQSTP------APLPEDTQVPLRAL 253
+ + N D + I +S+ + P + P +P L
Sbjct: 341 LATWDNWKHVNCDKLTTIIESSLNVLE--PAEYRKMFDRLSVFPPSAHIPTILL 392
Score = 37.9 bits (87), Expect = 0.004
Identities = 37/277 (13%), Positives = 70/277 (25%), Gaps = 77/277 (27%)
Query: 19 TAPRTGSNSGTNNLPPLYFHQVHGENVRVSRDGTV--AKRYESF---CKGVAFSSRPVKI 73
+ + +S L L + + + V + V AK + +F CK + ++R ++
Sbjct: 221 SNIKLRIHSIQAELRRLLKSKPYENCLLVLLN--VQNAKAWNAFNLSCK-ILLTTRFKQV 277
Query: 74 ------NEKVYVKLLEISTNWSGVIRFGFTANDPAHL--KYA------LPRYVC---P-- 114
++ L S T ++ L KY LPR V P
Sbjct: 278 TDFLSAATTTHISLDHHSM--------TLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRR 329
Query: 115 ---------DLTNKPGYWAKALAERF--------ADQETVLF--YYVTAAGDVHFGINGE 155
D W ++ E + + +
Sbjct: 330 LSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMF-------------D 376
Query: 156 EKGVFFTGV----ETRGPLWAMFDIYGNSTAIQLIDSRAQLN---NARRVSTHLSPEELS 208
VF +W + + + + +S EL
Sbjct: 377 RLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELK 436
Query: 209 SPINNNSNIDLMNRYIVNSMAAMNVHPQSTPAPLPED 245
+ N ++R IV+ P D
Sbjct: 437 VKLENEYA---LHRSIVDHYNIPKTFDSDDLIPPYLD 470
>1vsz_R Protein VIII, hexon-associated protein; capsid, icosahedral virus;
3.50A {Human adenovirus 5} PDB: 3iyn_O
Length = 227
Score = 33.7 bits (76), Expect = 0.062
Identities = 19/100 (19%), Positives = 36/100 (36%), Gaps = 2/100 (2%)
Query: 211 INNNSNIDLMNRYIVNSMAAMNVHPQSTPAPLPEDTQVPLRALTSPQDLVPLPFHRTIGR 270
I + N L+ + + + N++P+S PA L + P+D +
Sbjct: 47 IRAHRNRILLEQAAITTTPRNNLNPRSWPAALVYQESPAPTTVVLPRD--AQAEVQMTNS 104
Query: 271 NVRLSNDRTIASRRDTEFSQGYVFTGRPVQLGEKIVIQVL 310
+L+ R + GR +QL ++ V L
Sbjct: 105 GAQLAGGFRHRVRSPGQGITHLTIRGRGIQLNDESVSSSL 144
>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 = 31.8 bits (71), Expect = 0.15
Identities = 14/55 (25%), Positives = 17/55 (30%), Gaps = 32/55 (58%)
Query: 75 EKVYVKLLEISTNWSGVIRFGFTANDPAHLK-YALPRYVCPDLTNKPGYWAKALA 128
EK +K L+ S LK YA D + P ALA
Sbjct: 18 EKQALKKLQAS------------------LKLYA------DD--SAP-----ALA 41
Score = 30.3 bits (67), Expect = 0.45
Identities = 8/28 (28%), Positives = 13/28 (46%), Gaps = 5/28 (17%)
Query: 303 EKIVIQVLETESRYYG-----ALALGLT 325
EK ++ L+ + Y ALA+ T
Sbjct: 18 EKQALKKLQASLKLYADDSAPALAIKAT 45
>1m5y_A SurviVal protein, surviVal protein SURA; surviVal protein A,
periplasmic molecular chaperone, membrane protein
folding, GRAM negative bacteria; 3.00A {Escherichia
coli} SCOP: a.223.1.2 d.26.1.1 d.26.1.1 PDB: 2pv3_A
Length = 408
Score = 28.9 bits (64), Expect = 2.6
Identities = 11/46 (23%), Positives = 20/46 (43%), Gaps = 5/46 (10%)
Query: 184 QLIDSRAQLNNARRVSTHLSPEELSSPI-----NNNSNIDLMNRYI 224
+LI + L +++ +S E+L I NN +D M +
Sbjct: 53 RLIMDQIILQMGQKMGVKISDEQLDQAIANIAKQNNMTLDQMRSRL 98
>2yyo_A SPRY domain-containing protein 3; NPPSFA, national project on
protein structural and functional analyses; 2.00A {Homo
sapiens}
Length = 171
Score = 28.4 bits (63), Expect = 2.8
Identities = 24/164 (14%), Positives = 48/164 (29%), Gaps = 30/164 (18%)
Query: 42 GENVRVSRDG-TVAKRYESFCKGVAFSSRPVKINEKVY--VKLLEISTNWSGVIRFGFTA 98
+ DG T++ S G +SRP+ + Y V +++ G I G
Sbjct: 6 SGFKHILVDGDTLSYHGNSGEVGCYVASRPLT-KDSNYFEVSIVDSGVR--GTIAVGLVP 62
Query: 99 NDPAHLKYALPRYVCPD------------LTNKPGYWAKALAERFADQETVLFYYVTAAG 146
Y+L L N + + + + +
Sbjct: 63 QY-----YSLDHQPGWLPDSVAYHADDGKLYNGRAK-GRQFGSKCNSGDRIGCGIEPVSF 116
Query: 147 D-----VHFGINGEEKGVFFTGVETRGPLWAMFDIYGNSTAIQL 185
D + F NG+ G + + L+ ++ ++L
Sbjct: 117 DVQTAQIFFTKNGKRVGSTIMPM-SPDGLFPAVGMHSLGEEVRL 159
>3f6y_A ADP-ribosyl cyclase 1; calcium loaded structure, active site
closure, inhibitory conformation, alternative splicing,
diabetes mellitus; 1.45A {Homo sapiens} PDB: 2o3s_A*
3dzh_A* 2i67_A* 2pgj_A* 3dzf_A* 2i66_A* 3dzg_A* 3dzi_A*
3dzk_A* 3i9m_A* 3i9n_A* 2o3t_A* 2o3q_A* 2i65_A* 2o3u_A*
2pgl_A* 2o3r_A* 2hct_A* 3dzj_A* 3raj_A ...
Length = 262
Score = 28.5 bits (63), Expect = 3.1
Identities = 19/90 (21%), Positives = 27/90 (30%), Gaps = 30/90 (33%)
Query: 112 VCPDLT----NKP--GYWAKALAERFADQETVLFYYVTAAGDVHFGINGEEKGVF----- 160
CPD N P +W + RFA+ A VH ++G +F
Sbjct: 134 SCPDWRKDCSNNPVSVFWKTV-SRRFAEA---------ACDVVHVMLDGSRSKIFDKDST 183
Query: 161 FTGVE---------TRGPLWAMFDIYGNST 181
F VE W + +S
Sbjct: 184 FGSVEVHNLQPEKVQTLEAWVIHGGREDSR 213
>2p5q_A Glutathione peroxidase 5; thioredoxin fold, oxidoreductase; 2.00A
{Populus trichocarpa x populusdeltoides} PDB: 2p5r_A
Length = 170
Score = 27.9 bits (63), Expect = 3.4
Identities = 13/39 (33%), Positives = 21/39 (53%), Gaps = 8/39 (20%)
Query: 47 VSRDGTVAKRYESFCKGVAFSSRPVKINEKVYVKLLEIS 85
V++DG V RY ++ P+ + E+ +LLEIS
Sbjct: 140 VNKDGQVVDRYYP-------TTSPLSL-ERDIKQLLEIS 170
>2wdt_A Ubiquitin carboxyl-terminal hydrolase L3; hydrolase-protein binding
complex, enzyme-ligand complex, UB isopeptidase, UCH-L
superfamily, cystein proteinase, peptid hydrolase; 2.30A
{Plasmodium falciparum} PDB: 2we6_A
Length = 232
Score = 27.7 bits (61), Expect = 4.7
Identities = 13/94 (13%), Positives = 26/94 (27%), Gaps = 12/94 (12%)
Query: 154 GEEKGVFFTGVETRGPLW--AMFDIYGNSTAIQLIDSRAQLNNARRVSTHLSPEELSSPI 211
V+F A+ +YGN +D + L++ +S E+ +
Sbjct: 76 ENFDNVWFIKQYIPNSCGTIALLHLYGNLRNKFELDKDSVLDDFFNKVNEMSAEKRGQEL 135
Query: 212 NNNSNIDLMNRYIVNSMAAMNVHPQSTPAPLPED 245
NN +I+ +
Sbjct: 136 KNNKSIE----------NLHHEFCGQVENRDDIL 159
>1tex_A STF0 sulfotransferase; sulfolipid, sulfation, TREH
trehalose-2-sulfate; HET: TRE; 2.60A {Mycobacterium
smegmatis} SCOP: c.37.1.5
Length = 287
Score = 27.6 bits (60), Expect = 7.1
Identities = 8/46 (17%), Positives = 17/46 (36%), Gaps = 8/46 (17%)
Query: 1 MDPLNFPSTNRPRFFSCVTAPRTGSN--------SGTNNLPPLYFH 38
+ P ++ P + + + R+GS +G P +F
Sbjct: 14 LVPRGSHMSDHPTAYLVLASQRSGSTLLVESLRATGVAGEPQEFFQ 59
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 0.0526 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,260,422
Number of extensions: 313115
Number of successful extensions: 556
Number of sequences better than 10.0: 1
Number of HSP's gapped: 548
Number of HSP's successfully gapped: 20
Length of query: 345
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 251
Effective length of database: 4,077,219
Effective search space: 1023381969
Effective search space used: 1023381969
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 (26.6 bits)