RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16950
(430 letters)
>1omz_A Alpha-1,4-N-acetylhexosaminyltransferase EXTL2; rossmann fold, DXD
motif; HET: UD2; 2.10A {Mus musculus} SCOP: c.68.1.15
PDB: 1omx_A* 1on6_A* 1on8_A*
Length = 293
Score = 263 bits (672), Expect = 7e-86
Identities = 69/290 (23%), Positives = 128/290 (44%), Gaps = 19/290 (6%)
Query: 147 FSDSTADYPFYASFEPNAS--EQFTAII--YAQLGTSLYKVIRNVAHSQYVSRIIVLWSS 202
+ P+ S + FT I+ Y + L +++ + + ++IV+W++
Sbjct: 7 IKEDKMLTLRREIKSPSKSALDSFTLIMQTYNRTD-LLLRLLNHYQAVPSLHKVIVVWNN 65
Query: 203 PDKPVPAFL--SRHNATLPPIHILTHITDISHRFLHTSLVTTNAVLSLDEDATLNTDEID 260
+ P L S +P I + +R V TNAVL +D+D ++ ++
Sbjct: 66 VGEKGPEELWNSLGPHPIPVIFKPQTANKMRNRLQVFPEVETNAVLMVDDDTLISAQDLV 125
Query: 261 FAFHVWKSFPERIVGYPARSHFWDDAK-------NSWGYTSKWTNDYSIVLTGAAFYHRY 313
FAF +W+ FP++I+G+ R H + + YS+VL GA+F++
Sbjct: 126 FAFSIWQQFPDQIIGFVPRKHVSTSSGIYSYGGFELQTPGPGNGDQYSMVLIGASFFNSK 185
Query: 314 YNYLYSHWLSPLLLKTVAQSHNCEDILMNFLVSHVTRRPPIKVTGRKHYKETS--GGGSR 371
Y L+ + + + ++ NC+DI MNFLV+ T +P + G
Sbjct: 186 YLELFQKQPAA-VHALIDETQNCDDIAMNFLVTRHTGKPSGIFVKPINMVNLEKETNGYS 244
Query: 372 SPWNDPDHFIQRQTCLNTFAAVFGYMPLLRSHMRLDPVLYKDPVSNLRKK 421
W+ +HF+QR C+N ++ MPL S++ + + P +N + K
Sbjct: 245 GMWHRAEHFLQRSYCINKLVNIYDGMPLKYSNIMISQFGF--PYANHKSK 292
>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 = 54.1 bits (129), Expect = 7e-08
Identities = 51/356 (14%), Positives = 102/356 (28%), Gaps = 111/356 (31%)
Query: 54 VLPFDQVIDWSKAAVWA-DE--RLLLQVPDTVRSISATQVLAARQQTQVLWERYFSSIEK 110
VL V + A A + ++LL T R T L+A T + + + ++
Sbjct: 249 VL--LNV--QNAKAWNAFNLSCKILL----TTRFKQVTDFLSAATTTHISLDHHSMTLTP 300
Query: 111 I----VFTTF-EIIRDRLPRQKTKTGLTWNWSPGALLVHSQFSDSTADYP----FYASFE 161
+ + + LPR+ T +P S ++S D +
Sbjct: 301 DEVKSLLLKYLDCRPQDLPREVLTT------NP---RRLSIIAESIRDGLATWDNWKHVN 351
Query: 162 PNASEQFTAII---YAQLGTSLYKVIRNVAHSQYVSRII-------------VLWSSPDK 205
++ T II L + Y+ + + ++W K
Sbjct: 352 ---CDKLTTIIESSLNVLEPAEYR-------KMFDRLSVFPPSAHIPTILLSLIWFDVIK 401
Query: 206 PVP----------AFLSRHNA----TLPPIHILTHITDISHRFLHTSLVTT-NAVLSLDE 250
+ + + ++P I++ + + LH S+V N + D
Sbjct: 402 SDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDS 461
Query: 251 DATLNTDEID------FAFHV--------WKSFPERIVGYPARSHFWDDAK-----NSWG 291
D L +D H+ F + + R + + K +W
Sbjct: 462 D-DLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDF--R---FLEQKIRHDSTAWN 515
Query: 292 YTSKWTNDYSIVLTGAAFYHRYYNYLYSHWLSPLLLKTVAQSHNCEDILMNFLVSH 347
+ N L FY Y + + + +++FL
Sbjct: 516 ASGSILNT----LQQLKFYKPY------------ICDNDPKYERLVNAILDFLPKI 555
Score = 31.7 bits (71), Expect = 0.55
Identities = 69/421 (16%), Positives = 125/421 (29%), Gaps = 134/421 (31%)
Query: 45 IPVILSNGWVLPFD--QVIDWSKAAVWADE-RLLLQVPDTV-RSISATQVLAARQQTQV- 99
+ V +V FD V D K+ + +E ++ D V ++ L ++Q+ V
Sbjct: 22 LSVFEDA-FVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQ 80
Query: 100 -------------LWERY-FSSIEK-IVFTTFEIIRDRL------------PRQKT---- 128
L + ++ + RDRL R +
Sbjct: 81 KFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKL 140
Query: 129 ----------------------KTGLTWN----------------W-------SPGALLV 143
KT + + W SP +L
Sbjct: 141 RQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLE 200
Query: 144 HSQFSDSTADYPFYASFEPNASEQFTAIIYAQLGT-SLYKVIRN-VAHSQYVSRIIVL-- 199
Q +PN + + +L S+ +R + Y + ++VL
Sbjct: 201 MLQ--------KLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLN 252
Query: 200 -WSSPDKPVPAFL--SRHNATLPPIHILT---HITDI--SHRFLHTSLVTTNAVLSLDED 251
++ K AF + L + T +TD + H SL + L+ DE
Sbjct: 253 VQNA--KAWNAFNLSCK---IL----LTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEV 303
Query: 252 ATL-----NTDEIDFAFHVWKSFP-------ERIVGYPARSHFWDDAKNSWGYTSKWTND 299
+L + D V + P E I A W N T+ +
Sbjct: 304 KSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHV-NCDKLTT--IIE 360
Query: 300 YSI-VLTGAAFYHRYYN---YLYSHWLSPLLLKTV--AQSHNCEDILMNFLV--SHVTRR 351
S+ VL A + + + S + +LL + + +++N L S V ++
Sbjct: 361 SSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQ 420
Query: 352 P 352
P
Sbjct: 421 P 421
Score = 28.3 bits (62), Expect = 5.8
Identities = 28/162 (17%), Positives = 47/162 (29%), Gaps = 55/162 (33%)
Query: 226 HITDISHRFLHTSLVTTNAVLSLD----EDAT---LNTDEIDFAFHVWKSFPERIVGYPA 278
DI F V + D +D L+ +EID H+ S + + G
Sbjct: 17 QYKDILSVFED------AFVDNFDCKDVQDMPKSILSKEEID---HIIMS-KDAVSG--T 64
Query: 279 RSHFWDDAKNSWGYTSKWTNDYSIVLTGAAFYHRY--------YNYLYSHW----LSPLL 326
FW +++ ++ Y +L S P +
Sbjct: 65 LRLFW-----------------TLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSM 107
Query: 327 LKTVAQSHNCEDILMN----FLVSHVTRRPPIKVTGRKHYKE 364
+ + D L N F +V+R P R+ E
Sbjct: 108 MTRMYIE--QRDRLYNDNQVFAKYNVSRLQPYLKL-RQALLE 146
>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 = 49.7 bits (118), Expect = 1e-06
Identities = 68/471 (14%), Positives = 139/471 (29%), Gaps = 147/471 (31%)
Query: 46 PVILSNG-----WVLPFDQVIDWSKAAVWADE--RLLLQVPDTVRS---ISATQVLAAR- 94
P+ LS+G ++P + A+ ++ ++L + + + + L +
Sbjct: 8 PLTLSHGSLEHVLLVPTAS---FFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKF 64
Query: 95 -----QQTQVLWERYFSSIEKIVFTTFE--IIRD--------RLPRQKTKTGLTWNWSPG 139
+ F + + T FE + +L ++ T +
Sbjct: 65 LGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVK-----T 119
Query: 140 ALLVHSQF-SDSTADYPFYASFEP---NASEQFTAIIYAQLGTSLYKVIRNVAHSQ---- 191
L+ + + A PF A + A + A G Q
Sbjct: 120 KELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFG------------GQGNTD 167
Query: 192 -YVSRIIVLWSSPDKPVPAFLSRHNATLPPI--------HILTHITDISHRFLHTSLVTT 242
Y + L+ + V + TL + + T +I +L
Sbjct: 168 DYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNI-LEWLE------ 220
Query: 243 NAVLSLDEDATLNTDEIDFAFHVWKSFPERIVGYPARSHFWDDAKNSWGYTSKWTNDY-- 300
+ T + D + + S P ++G +H+ AK G+T Y
Sbjct: 221 ------NPSNTPDKDYLLSIP-I--SCP--LIGVIQLAHYVVTAKLL-GFTPGELRSYLK 268
Query: 301 -------SIVL--------TGAAFYHRYYNYL-YSHW-------------LSPLLLKTVA 331
+V + +F+ + + L P +L+
Sbjct: 269 GATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSL 328
Query: 332 QSHNCEDI--LMNFLVSHVTRRPPIKVTGRKHYKETSGGGSRSPW------NDPDHFIQR 383
+ N E + M +S++T+ +V + + +T+ N + +
Sbjct: 329 E--NNEGVPSPM-LSISNLTQE---QV--QDYVNKTNSHLPAGKQVEISLVNGAKNLV-- 378
Query: 384 QTCLNTFAAVFGYMPLLRSHMRLDPVLYKDPV-SNL---RKKYRQMELVFS 430
V G P +S L+ L K S L R + + +L FS
Sbjct: 379 ---------VSGP-P--QSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFS 417
Score = 41.6 bits (97), Expect = 5e-04
Identities = 53/311 (17%), Positives = 84/311 (27%), Gaps = 105/311 (33%)
Query: 33 SFRFLETLQAGCIPVILSNGWVLPFDQVIDWSKAAVWADERLLLQVPDTVRS---ISATQ 89
S + +Q V P ++ + K A T S ++A
Sbjct: 237 SCPLIGVIQLAHYVVTAKLLGFTP-GELRSYLKGA-------------TGHSQGLVTAVA 282
Query: 90 VLAARQQTQVLWERYFSSIEKIVFTTFEIIRDRLPRQKTKTGLTWNWSPGALLVHSQFSD 149
+ WE +F S+ K + F I G+ +
Sbjct: 283 IAETDS-----WESFFVSVRKAITVLFFI------------GV-----------RCYEA- 313
Query: 150 STADYPFYASFEPNASEQF--------------TAIIYAQLGTSLYKVIRNVAHSQYVSR 195
YP S P+ E + + Q+ + K ++ + V
Sbjct: 314 ----YPNT-SLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVE- 367
Query: 196 IIVLWSSPDKPV----PAFLSRHNATL-----PPIHILTHIT------DISHRFL----- 235
I L + V P L N TL P + I S+RFL
Sbjct: 368 -ISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASP 426
Query: 236 -HTSLVTTNAVLSLDEDATLNTDEI---DFAFHVW------------KSFPERIVGYPAR 279
H+ L+ A +++D N D V+ S ERIV R
Sbjct: 427 FHSHLL-VPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIR 485
Query: 280 SH-FWDDAKNS 289
W+
Sbjct: 486 LPVKWETTTQF 496
Score = 31.2 bits (70), Expect = 0.97
Identities = 29/146 (19%), Positives = 50/146 (34%), Gaps = 45/146 (30%)
Query: 63 WSKAAVWAD--ERLLLQVPDTVR--SI---SATQVLAARQQTQVLWERYFSSIE---KIV 112
KAA + D + L+ T S+ +A LA+ V+ SIE ++V
Sbjct: 1739 MEKAA-FEDLKSKGLIPADATFAGHSLGEYAA---LAS--LADVM------SIESLVEVV 1786
Query: 113 FTTFEIIRDRLPRQKTKTGLTWNWSPGALLVH-SQFSDSTADYPFYASFEPNASEQFTAI 171
F R + + G + ++ + + ASF A +
Sbjct: 1787 F-----YRGMTMQVAVPRDELGRSNYGMIAINPGRVA---------ASFSQEALQYVVER 1832
Query: 172 IYAQLGTSL----YKVIRNVAHSQYV 193
+ + G + Y NV + QYV
Sbjct: 1833 VGKRTGWLVEIVNY----NVENQQYV 1854
>2fia_A Acetyltransferase; structural genomics, PSI, protein structu
initiative, midwest center for structural genomics,
MCSG; 2.60A {Enterococcus faecalis} SCOP: d.108.1.1
Length = 162
Score = 34.1 bits (78), Expect = 0.038
Identities = 5/48 (10%), Positives = 15/48 (31%), Gaps = 2/48 (4%)
Query: 275 GYPARSHFWDDAKNSWGYTSKWTNDYSIVLTGAAFYHRYYNYLYSHWL 322
YP++ +D Y ++ I + ++++
Sbjct: 36 DYPSQGDIQEDITKKRLY--LLVHEEMIFSMATFCMEQEQDFVWLKRF 81
>2nrt_A Uvrabc system protein C; UVRC, endonuclease, RNAse H, helix hairpin
helix, NER, hydrolase; 1.50A {Thermotoga maritima} PDB:
2nrv_A 2nrw_A 2nrx_A 2nrz_A
Length = 220
Score = 29.8 bits (68), Expect = 1.4
Identities = 8/32 (25%), Positives = 14/32 (43%), Gaps = 5/32 (15%)
Query: 203 PDKPVPAFLSRHNATLPPIHILTHITDISHRF 234
++ + L + L +L I D +HRF
Sbjct: 126 ENREIH--LPHDHPVL---RLLVQIRDETHRF 152
>2nrr_A Uvrabc system protein C; UVRC, endonuclase, NER, hydrolase; 1.20A
{Thermotoga maritima}
Length = 159
Score = 29.4 bits (67), Expect = 1.4
Identities = 8/32 (25%), Positives = 14/32 (43%), Gaps = 5/32 (15%)
Query: 203 PDKPVPAFLSRHNATLPPIHILTHITDISHRF 234
++ + L + L +L I D +HRF
Sbjct: 121 ENREIH--LPHDHPVL---RLLVQIRDETHRF 147
>3c65_A Uvrabc system protein C; UVRC, endonuclease, nucleotide excision
repair, DNA repair, RNAse H, cytoplasm, DNA damage, DNA
excision; 1.90A {Bacillus stearothermophilus}
Length = 226
Score = 29.0 bits (66), Expect = 2.1
Identities = 10/32 (31%), Positives = 13/32 (40%), Gaps = 3/32 (9%)
Query: 203 PDKPVPAFLSRHNATLPPIHILTHITDISHRF 234
D P L R + ++L I D HRF
Sbjct: 129 GDPPDVVPLDRQSQEF---YLLQRIQDEVHRF 157
>1rku_A Homoserine kinase; phosphoserine phosphatase,
phosphoserine:homoserine phosphotransferase, THRH,
phosphoserine phosphoryl donor; 1.47A {Pseudomonas
aeruginosa} SCOP: c.108.1.11 PDB: 1rkv_A
Length = 206
Score = 27.6 bits (62), Expect = 5.9
Identities = 8/32 (25%), Positives = 14/32 (43%), Gaps = 4/32 (12%)
Query: 32 GSFRFLETLQAGCIPVILSNGWVLPFDQVIDW 63
G+ F++ L+ VILS+ F +
Sbjct: 73 GAVEFVDWLRERFQVVILSDT----FYEFSQP 100
>3zrh_A Ubiquitin thioesterase zranb1; hydrolase, deubiquitinating enzyme,
WNT signaling, ovarian T domain; 2.23A {Homo sapiens}
Length = 454
Score = 27.8 bits (61), Expect = 7.9
Identities = 15/97 (15%), Positives = 30/97 (30%), Gaps = 6/97 (6%)
Query: 3 HRFPLCFRYD---FQVLLHNSTFCLVPRGRRLGSFRFLETLQAGCIPVILSNGWVLPFDQ 59
+ P+ Y F L+ + + + +P++ S +L
Sbjct: 330 WKSPIALGYTRGHFSALV-AMENDGYGNRGAGANLNTDDDVTITFLPLVDSERKLLHVHF 388
Query: 60 VIDWSKAAVWADERLLLQVPDTVRSISATQVLAARQQ 96
+ E+LL + D + VL A Q+
Sbjct: 389 LSAQELGNEEQQEKLLREWLDCCV--TEGGVLVAMQK 423
>3pn9_A Proline dipeptidase; structural genomics, PSI-2, protein structure
initiative, MI center for structural genomics, MCSG,
hydrolase; 2.00A {Streptococcus pneumoniae}
Length = 138
Score = 26.6 bits (59), Expect = 9.7
Identities = 6/41 (14%), Positives = 14/41 (34%), Gaps = 1/41 (2%)
Query: 244 AVLSLDEDATLNTDEIDFAFHVWKSFPERIVGYPARSHFWD 284
+ D++ L ++ + +VGY + W
Sbjct: 47 LFVLADQEPLLFVPALE-VERASSTVSFPVVGYVDSENPWQ 86
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
0.324 0.136 0.439
Gapped
Lambda K H
0.267 0.0506 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,886,441
Number of extensions: 411214
Number of successful extensions: 1014
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1000
Number of HSP's successfully gapped: 23
Length of query: 430
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 334
Effective length of database: 4,021,377
Effective search space: 1343139918
Effective search space used: 1343139918
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 59 (27.0 bits)