RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy812
(332 letters)
>1nst_A NST1, heparan sulfate N-deacetylase/N-sulfotransferase; PAP,
haparin sulfate, haparin sulfate biosynthesis,
glycoprotein; HET: A3P; 2.30A {Homo sapiens} SCOP:
c.37.1.5
Length = 325
Score = 169 bits (429), Expect = 2e-50
Identities = 113/235 (48%), Positives = 155/235 (65%), Gaps = 17/235 (7%)
Query: 111 RRGNSNGLDWYMDFFPLAKNSTPQYLFEKSATYFDGDLVPKRTQALLPQAKLVTILISPI 170
G+DWYM+FFP+ N+T + FEKSA YFD ++ P+R ALLP+AK++TILI+P
Sbjct: 91 GHNYHKGIDWYMEFFPIPSNTTSDFYFEKSANYFDSEVAPRRAAALLPKAKVLTILINPA 150
Query: 171 KRAYSWYQHTKSHGDQLALNHSFYDIITANESAPKPIKDLRNRCLTPGKYAQHLERWLIY 230
RAYSWYQH ++H D +AL ++F+++ITA A ++ L+NRCL PG YA H+ERWL
Sbjct: 151 DRAYSWYQHQRAHDDPVALKYTFHEVITAGSDASSKLRALQNRCLVPGWYATHIERWLSA 210
Query: 231 YPPQQLHIIDGDQLKSNPIEVMDSLQKFLKITPVFDYSSHL----------------RTK 274
Y Q+ ++DG L++ P +VMD +QKFL +T DY L +TK
Sbjct: 211 YHANQILVLDGKLLRTEPAKVMDMVQKFLGVTNTIDYHKTLAFDPKKGFWCQLLEGGKTK 270
Query: 275 CLGRSKGRKYPRMDLRSYRFLQRYYLSYNTALVKLLKKLGIRSVPQWLKDDLSNT 329
CLG+SKGRKYP MDL S FL+ YY +N L KLL K+G +++P WL++DL NT
Sbjct: 271 CLGKSKGRKYPEMDLDSRAFLKDYYRDHNIELSKLLYKMG-QTLPTWLREDLQNT 324
>3uan_A Heparan sulfate glucosamine 3-O-sulfotransferase; alpha/beta motif,
CO-FACT PAPS/PAP, heparan sulfate oligosaccharides,
golgi-localized transferase; HET: A3P NGY BDP SGN IDS;
1.84A {Mus musculus} PDB: 1vkj_A* 1zrh_A*
Length = 269
Score = 128 bits (322), Expect = 2e-35
Identities = 58/211 (27%), Positives = 95/211 (45%), Gaps = 20/211 (9%)
Query: 116 NGLDWYMDFFPLAKNSTPQYLFEKSATYFDGDLVPKRTQALLPQAKLVTILISPIKRAYS 175
GL WY+ P +S Q EK+ YF VP+R ++ P +L+ IL P +R S
Sbjct: 60 QGLGWYLTQMP--FSSPHQLTVEKTPAYFTSPKVPERIHSMNPTIRLLLILRDPSERVLS 117
Query: 176 WYQHTKSHGDQLALNHSFYDIITANESAPKPIKDLRNRCLTPGKYAQHLERWLIYYPPQQ 235
Y + Q H Y I + +L + L Y H+ WL ++P
Sbjct: 118 DYTQVLYNHLQ---KHKPYPPIE-DLLMRDGRLNLDYKALNRSLYHAHMLNWLRFFPLGH 173
Query: 236 LHIIDGDQLKSNPIEVMDSLQKFLKITPVFDYSSHL--------------RTKCLGRSKG 281
+HI+DGD+L +P + +++FLK++P + S+ + +CL SKG
Sbjct: 174 IHIVDGDRLIRDPFPEIQKVERFLKLSPQINASNFYFNKTKGFYCLRDSGKDRCLHESKG 233
Query: 282 RKYPRMDLRSYRFLQRYYLSYNTALVKLLKK 312
R +P++D + L Y+ N KL+ +
Sbjct: 234 RAHPQVDPKLLDKLHEYFHEPNKKFFKLVGR 264
>3rnl_A Sulfotransferase; structural genomics, PSI-biology, midwest center
for structu genomics, MCSG, alpha-beta-alpha sandwich;
HET: MSE; 1.75A {Alicyclobacillus acidocaldarius subsp}
Length = 311
Score = 127 bits (320), Expect = 1e-34
Identities = 42/267 (15%), Positives = 84/267 (31%), Gaps = 46/267 (17%)
Query: 100 EEYPHLRPARLRRGNSNGLDWYMDFFPLAKNSTPQYLFEKSATYFDGDLVPKRTQALLPQ 159
E + + D YM F + + + E S Y +R P
Sbjct: 52 ERFTGPGDEGMNLYTIRDEDAYMRLFDGVRGE--RAVGEASVFYLFYPGTAQRMYDAYPD 109
Query: 160 AKLVTILISPIKRAYSWYQHTKSHGDQLALNHSFYDIITANESAPKPIKDLRNRCLTPGK 219
AK++ +L +P+ RA+S Y H + SF + + E + + G
Sbjct: 110 AKILIMLRNPVDRAFSAYMHLVRDERE---TLSFRESLAKEEERIRQHYEPLWYYRAVGL 166
Query: 220 YAQHLERWLIYYPPQQLHIIDGDQLKSNPIEVMDSLQKFLKITPVFDYSSHL-------- 271
YA ++R+L + +Q+ +I ++ +P++V+ FL ++ F + +
Sbjct: 167 YAAQVKRYLDVFGREQVKVILFEEFARDPVQVVRDCCAFLGVSTDFVPDTSIRHNESGVP 226
Query: 272 -----------------------------RTKCLGRSKGRKYPRMDLRSYRFLQRYYLSY 302
R +S M+ L ++
Sbjct: 227 KSRSLYNFIAKPNALKEIVKPFIPAAVRERLGNRAKSMVLGRMEMEPDLREELTAFFAPD 286
Query: 303 NTALVKLLKKLGIRSVPQWLKDDLSNT 329
L L+ R + W + +
Sbjct: 287 VARLEALIH----RDLSAWRRPARAAG 309
>3bd9_A Heparan sulfate glucosamine 3-O-sulfotransferase 5; heparan sulfate
biosynthesis, substrate specificity, glycoprotein, golgi
apparatus, membrane; HET: A3P; 2.30A {Homo sapiens}
Length = 280
Score = 125 bits (314), Expect = 4e-34
Identities = 52/211 (24%), Positives = 97/211 (45%), Gaps = 19/211 (9%)
Query: 117 GLDWYMDFFPLAKNSTPQYLFEKSATYFDGDLVPKRTQALLPQAKLVTILISPIKRAYSW 176
G++WY P + Q EKS YF + VP+R + KL+ I+ P RA S
Sbjct: 69 GIEWYRKKMPFSYPQ--QITIEKSPAYFITEEVPERIYKMNSSIKLLIIVREPTTRAISD 126
Query: 177 YQHTKSHGDQLALNHSFYDIITANESAPKPIKDLRNRCLTPGKYAQHLERWLIYYPPQQL 236
Y ++ + ++ + + + + + + + + Y +HLERWL Y+P +Q
Sbjct: 127 YTQVLEGKERKNKTYYKFEKLAIDPNTCE--VNTKYKAVRTSIYTKHLERWLKYFPIEQF 184
Query: 237 HIIDGDQLKSNPIEVMDSLQKFLKITPVFDYS---------------SHLRTKCLGRSKG 281
H++DGD+L + P+ + ++KFL + P + + KCL SKG
Sbjct: 185 HVVDGDRLITEPLPELQLVEKFLNLPPRISQYNLYFNATRGFYCLRFNEIFNKCLAGSKG 244
Query: 282 RKYPRMDLRSYRFLQRYYLSYNTALVKLLKK 312
R +P +D L++++ +N ++ +
Sbjct: 245 RIHPEVDPSVITKLRKFFHPFNQKFYQITGR 275
>1t8t_A Heparan sulfate D-glucosaminyl 3-O- sulfotransferase 3A1;
alpha-beta motif, substrate-binding cleft; HET: A3P CIT;
1.85A {Homo sapiens} SCOP: c.37.1.5 PDB: 1t8u_A*
Length = 271
Score = 124 bits (312), Expect = 9e-34
Identities = 59/234 (25%), Positives = 95/234 (40%), Gaps = 28/234 (11%)
Query: 96 VTSTEEYPHLRPARLRRGNSNGLDWYMDFFPLAKNSTPQYLFEKSATYFDGDLVPKRTQA 155
V + PH R GL WY D P + Q EK+ +YF P R A
Sbjct: 43 VRAVGAEPHFFD----RSYDKGLAWYRDLMPRTLDG--QITMEKTPSYFVTREAPARISA 96
Query: 156 LLPQAKLVTILISPIKRAYSWYQHTKSHGDQLALNHSFYDIITANESAPKPIKDLRNRCL 215
+ KL+ ++ P+ RA S Y T S + S ++ + D +
Sbjct: 97 MSKDTKLIVVVRDPVTRAISDYTQTLSKRPDIPTFESL-----TFKNRTAGLIDTSWSAI 151
Query: 216 TPGKYAQHLERWLIYYPPQQLHIIDGDQLKSNPIEVMDSLQKFLKITPVF---------- 265
G YA+HLE WL ++P +Q+ + G++L S+P + +Q FL + +
Sbjct: 152 QIGIYAKHLEHWLRHFPIRQMLFVSGERLISDPAGELGRVQDFLGLKRIITDKHFYFNKT 211
Query: 266 -------DYSSHLRTKCLGRSKGRKYPRMDLRSYRFLQRYYLSYNTALVKLLKK 312
R CLG++KGR +P +D R L+ +Y +N ++
Sbjct: 212 KGFPCLKKAEGSSRPHCLGKTKGRTHPEIDREVVRRLREFYRPFNLKFYQMTGH 265
>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 = 0.003
Identities = 45/299 (15%), Positives = 98/299 (32%), Gaps = 63/299 (21%)
Query: 24 MMLNKQFAKTHGIPVDSGYSIAPHHSGVYPVH-EPLYTAWKHIWRVKVTSTEEYPH---- 78
ML K + +D ++ HS + + + + + K Y +
Sbjct: 200 EMLQKLLYQ-----IDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSK-----PYENCLLV 249
Query: 79 LRPARLRRAWKHI---WRVKVTSTEEYPHLRPARLRRGNSNGLDWYMDFFPLAKNSTPQY 135
L + +AW ++ +T+ R ++ S ++ + TP
Sbjct: 250 LLNVQNAKAWNAFNLSCKILLTT-------RFKQVTDFLSAATTTHISLDHHSMTLTPDE 302
Query: 136 ---LFEKSATYFDGDLVPKRTQALLPQA-KLVTILISPIKRAYSWYQHTKSHGDQLA-LN 190
L K DL P+ P+ ++ I + ++H D+L +
Sbjct: 303 VKSLLLKYLDCRPQDL-PREVLTTNPRRLSIIAESIRDGLATWDNWKHVNC--DKLTTII 359
Query: 191 HSFYDIITANESAPKPIKDLRNRCLTPGKYAQHLERWLIY-----YPPQQLHIIDGDQLK 245
S + L P +Y + +R ++ P L +I D +K
Sbjct: 360 ESSLN------------------VLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIK 401
Query: 246 SNPIEVMDSLQKFL------KITPVFDYSSHLRTKCLGRSKGRKYPRMDLRSYRFLQRY 298
S+ + V++ L K+ K + + S +L K ++ + + + Y + +
Sbjct: 402 SDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSI-VDHYNIPKTF 459
>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 = 36.6 bits (84), Expect = 0.014
Identities = 47/305 (15%), Positives = 82/305 (26%), Gaps = 118/305 (38%)
Query: 11 PH-LYENQTQLEVDMMLNKQFAKTHGIPVDS------------------GY---SIAPHH 48
P + +QL +QF K P + GY + P
Sbjct: 23 PTASFFIASQL------QEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSK 76
Query: 49 SGVYPVHEPLYTAWKHIWRVKVTSTE------EYPHLRPARLRRAWKHI---WRVKVTST 99
G + + L + + + L + + I ++ +
Sbjct: 77 VGQF--DQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAK 134
Query: 100 EEYPHLRPARLRR----------------GNSNGLDWYMDFFP-LAKNSTPQYLFEKSAT 142
+ + L R GN++ D+F L + L++ T
Sbjct: 135 RPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTD------DYFEEL------RDLYQ---T 179
Query: 143 Y--FDGDLVPKRTQALLPQAKLVTILISPIKRAYSWYQHTKSHGDQLALNHSFYDIITAN 200
Y GDL+ + L LI A + + G +I+
Sbjct: 180 YHVLVGDLIKFSAETLSE-------LIRTTLDAEKVF----TQG---------LNILEW- 218
Query: 201 ESAPKPIKDLRNRCLTPGKYAQHLERWLIYYP---P-----QQLH-IIDGDQLKSNPIEV 251
L N TP K +L+ P P Q H ++ L P E+
Sbjct: 219 ---------LENPSNTPDKD------YLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGEL 263
Query: 252 MDSLQ 256
L+
Sbjct: 264 RSYLK 268
>3kd9_A Coenzyme A disulfide reductase; PSI-II, NYSGXRC, oxidoreductase,
structural genomics structure initiative; 2.75A
{Pyrococcus horikoshii}
Length = 449
Score = 32.5 bits (75), Expect = 0.17
Identities = 7/34 (20%), Positives = 12/34 (35%)
Query: 26 LNKQFAKTHGIPVDSGYSIAPHHSGVYPVHEPLY 59
L + A G V + + A YP ++
Sbjct: 340 LTEMEALKEGYDVRTAFIKASTRPHYYPGGREIW 373
>3ics_A Coenzyme A-disulfide reductase; pyridine nucleotide-disulfide
oxidoreductase class I, rhodan coenzyme A, flavin
adenine dinucleotide; HET: FAD COA ADP; 1.94A {Bacillus
anthracis} PDB: 3icr_A* 3ict_A*
Length = 588
Score = 32.6 bits (75), Expect = 0.18
Identities = 11/34 (32%), Positives = 17/34 (50%)
Query: 26 LNKQFAKTHGIPVDSGYSIAPHHSGVYPVHEPLY 59
LN++ K IP + + A H+G YP P+
Sbjct: 379 LNEKILKRLNIPYEVVHVQANSHAGYYPNATPVL 412
>3iwa_A FAD-dependent pyridine nucleotide-disulphide oxidoreductase;
structural genomics, PSI-2, protein structur initiative;
2.30A {Desulfovibrio vulgaris}
Length = 472
Score = 32.5 bits (75), Expect = 0.18
Identities = 5/34 (14%), Positives = 10/34 (29%)
Query: 26 LNKQFAKTHGIPVDSGYSIAPHHSGVYPVHEPLY 59
L + A G + + + YP +
Sbjct: 354 LTVEGALREGYDAVNVHVEQFDRAHFYPEKTIMT 387
>3ntd_A FAD-dependent pyridine nucleotide-disulphide oxidoreductase; COA,
persulfide reductase, rhodanese; HET: COA FAD; 1.99A
{Shewanella loihica} PDB: 3nta_A* 3nt6_A*
Length = 565
Score = 32.6 bits (75), Expect = 0.18
Identities = 9/34 (26%), Positives = 14/34 (41%)
Query: 26 LNKQFAKTHGIPVDSGYSIAPHHSGVYPVHEPLY 59
N++ K GI + Y H+ YP E +
Sbjct: 363 KNEKQLKQAGIAFEKVYVHTASHASYYPGAEVVS 396
>3cgb_A Pyridine nucleotide-disulfide oxidoreductase, CLA; coenzyme A,
flavin adenine dinucleotide, selenomethionine, F
flavoprotein; HET: COA FAD; 1.90A {Bacillus anthracis
str} PDB: 3cgc_A* 3cgd_A* 3cge_A*
Length = 480
Score = 32.5 bits (75), Expect = 0.18
Identities = 12/34 (35%), Positives = 19/34 (55%)
Query: 26 LNKQFAKTHGIPVDSGYSIAPHHSGVYPVHEPLY 59
LN++ AK IP + + + +G YP +PLY
Sbjct: 378 LNEKEAKGLHIPYKTVKVDSTNMAGYYPNAKPLY 411
>2cdu_A NADPH oxidase; flavoenzyme, oxidoreductase; HET: FAD ADP; 1.8A
{Lactobacillus sanfranciscensis}
Length = 452
Score = 32.5 bits (75), Expect = 0.21
Identities = 4/34 (11%), Positives = 10/34 (29%)
Query: 26 LNKQFAKTHGIPVDSGYSIAPHHSGVYPVHEPLY 59
+N AK + + V + + +
Sbjct: 342 INTALAKANNLKVSEVIIADNYRPEFMLSTDEVL 375
>1nhp_A NADH peroxidase; oxidoreductase (H2O2(A)); HET: FAD; 2.00A
{Enterococcus faecalis} SCOP: c.3.1.5 c.3.1.5 d.87.1.1
PDB: 1npx_A* 1joa_A* 2npx_A* 1nhq_A* 1nhs_A* 1nhr_A*
1f8w_A*
Length = 447
Score = 32.1 bits (74), Expect = 0.24
Identities = 4/34 (11%), Positives = 12/34 (35%)
Query: 26 LNKQFAKTHGIPVDSGYSIAPHHSGVYPVHEPLY 59
+N+ A+ G + + + P + +
Sbjct: 341 INEVMAQKLGKETKAVTVVEDYLMDFNPDKQKAW 374
>2bc0_A NADH oxidase; flavoprotein, pyridine nucleotide disulfide
oxidoreductase, C(4A)-peroxyflavin, crystallography,
conformational dynamics; HET: FAD; 2.00A {Streptococcus
pyogenes} PDB: 2bcp_A* 2bc1_A*
Length = 490
Score = 29.5 bits (67), Expect = 1.9
Identities = 4/28 (14%), Positives = 5/28 (17%)
Query: 26 LNKQFAKTHGIPVDSGYSIAPHHSGVYP 53
L + AK G
Sbjct: 386 LTLEKAKRLGFDAAVTEYTDNQKPEFIE 413
>1pzd_A Coatomer gamma subunit; platform domain, appendage domain, EAR
domain, endocytosis/exocytosis complex; 2.31A {Bos
taurus} SCOP: b.1.10.3 d.105.1.2
Length = 322
Score = 27.7 bits (61), Expect = 5.6
Identities = 19/74 (25%), Positives = 29/74 (39%)
Query: 134 QYLFEKSATYFDGDLVPKRTQALLPQAKLVTILISPIKRAYSWYQHTKSHGDQLALNHSF 193
QY E S FD VP T L Q T + + + + +QLA F
Sbjct: 12 QYTLEPSEKPFDLKSVPLATAPLAEQRTESTPVTAAKQPEKVAATRQEIFQEQLAAVPEF 71
Query: 194 YDIITANESAPKPI 207
+ +S+P+P+
Sbjct: 72 QGLGPLFKSSPEPV 85
>2vgl_S AP-2 complex subunit sigma-1; cytoplasmic vesicle, alternative
splicing, endocytosis, lipid-binding, golgi apparatus,
adaptor, membrane, transport; HET: IHP; 2.59A {Mus
musculus} SCOP: i.23.1.1 PDB: 2jkt_I 2jkr_I* 2xa7_S
Length = 142
Score = 26.4 bits (58), Expect = 8.0
Identities = 12/92 (13%), Positives = 31/92 (33%), Gaps = 14/92 (15%)
Query: 172 RAYSWYQHTKSHGDQLALNHSFYDIITANESAPKPIKDLRNRCLTPGKYAQHLERWLIYY 231
R WY ++ L + ++T ++ + RN + IY
Sbjct: 15 RLAKWYMQ-FDDDEKQKLIEEVHAVVTVRDAKHTNFVEFRNFKI-------------IYR 60
Query: 232 PPQQLHIIDGDQLKSNPIEVMDSLQKFLKITP 263
L+ + N + ++++ F+++
Sbjct: 61 RYAGLYFCICVDVNDNNLAYLEAIHNFVEVLN 92
>3dlm_A Histone-lysine N-methyltransferase setdb1; setdb1_human, structural
genomics, structural genomics consortium, SGC,
alternative splicing; 1.77A {Homo sapiens}
Length = 213
Score = 26.9 bits (59), Expect = 9.0
Identities = 10/27 (37%), Positives = 14/27 (51%)
Query: 39 DSGYSIAPHHSGVYPVHEPLYTAWKHI 65
D GY+ S +YP+ PL W+ I
Sbjct: 109 DDGYASYVTQSELYPICRPLKKTWEDI 135
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
0.321 0.136 0.428
Gapped
Lambda K H
0.267 0.0497 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,263,284
Number of extensions: 307593
Number of successful extensions: 800
Number of sequences better than 10.0: 1
Number of HSP's gapped: 790
Number of HSP's successfully gapped: 21
Length of query: 332
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 238
Effective length of database: 4,077,219
Effective search space: 970378122
Effective search space used: 970378122
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 (21.9 bits)
S2: 57 (26.3 bits)