RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6366
(101 letters)
>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 = 93.7 bits (232), Expect = 5e-25
Identities = 49/89 (55%), Positives = 67/89 (75%)
Query: 1 MLYLHPRIQKAAGEVHYFDRDENYARGLEWYRRQMPPSYAEQVTIEKSPSYFVTPEAPER 60
ML LHP + A EVH+FD +E+Y++GL WY QMP S Q+T+EK+P+YF +P+ PER
Sbjct: 35 MLSLHPDVAAAENEVHFFDWEEHYSQGLGWYLTQMPFSSPHQLTVEKTPAYFTSPKVPER 94
Query: 61 IRAMNASIRLLVIVRDPVTRAISDYTQLK 89
I +MN +IRLL+I+RDP R +SDYTQ+
Sbjct: 95 IHSMNPTIRLLLILRDPSERVLSDYTQVL 123
>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 = 93.0 bits (230), Expect = 1e-24
Identities = 58/91 (63%), Positives = 75/91 (82%)
Query: 1 MLYLHPRIQKAAGEVHYFDRDENYARGLEWYRRQMPPSYAEQVTIEKSPSYFVTPEAPER 60
ML LHP + KA+ E+H+FD DENY +G+EWYR++MP SY +Q+TIEKSP+YF+T E PER
Sbjct: 43 MLNLHPAVVKASQEIHFFDNDENYGKGIEWYRKKMPFSYPQQITIEKSPAYFITEEVPER 102
Query: 61 IRAMNASIRLLVIVRDPVTRAISDYTQLKIH 91
I MN+SI+LL+IVR+P TRAISDYTQ+
Sbjct: 103 IYKMNSSIKLLIIVREPTTRAISDYTQVLEG 133
>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 = 79.5 bits (195), Expect = 1e-19
Identities = 49/89 (55%), Positives = 63/89 (70%), Gaps = 2/89 (2%)
Query: 1 MLYLHPRIQKAAGEVHYFDRDENYARGLEWYRRQMPPSYAEQVTIEKSPSYFVTPEAPER 60
L +HP ++ E H+FDR +Y +GL WYR MP + Q+T+EK+PSYFVT EAP R
Sbjct: 36 FLRVHPDVRAVGAEPHFFDR--SYDKGLAWYRDLMPRTLDGQITMEKTPSYFVTREAPAR 93
Query: 61 IRAMNASIRLLVIVRDPVTRAISDYTQLK 89
I AM+ +L+V+VRDPVTRAISDYTQ
Sbjct: 94 ISAMSKDTKLIVVVRDPVTRAISDYTQTL 122
>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 = 77.2 bits (189), Expect = 1e-18
Identities = 26/98 (26%), Positives = 41/98 (41%), Gaps = 7/98 (7%)
Query: 1 MLYLHPRIQKAAG-EVHYFDRD----ENYARGLEWYRRQMPPSYAE--QVTIEKSPSYFV 53
L +HP + + + NY +G++WY P EKS +YF
Sbjct: 66 FLGMHPDLSSNYPSSETFEEIQFFNGHNYHKGIDWYMEFFPIPSNTTSDFYFEKSANYFD 125
Query: 54 TPEAPERIRAMNASIRLLVIVRDPVTRAISDYTQLKIH 91
+ AP R A+ ++L I+ +P RA S Y + H
Sbjct: 126 SEVAPRRAAALLPKAKVLTILINPADRAYSWYQHQRAH 163
>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 = 69.9 bits (170), Expect = 8e-16
Identities = 25/105 (23%), Positives = 37/105 (35%), Gaps = 16/105 (15%)
Query: 1 MLYLHPRIQKAAG-EVHYFDRDEN---------------YARGLEWYRRQMPPSYAEQVT 44
L HP I E H+F + R + Y R E+
Sbjct: 27 YLSQHPDIYIPPKKEAHFFSIPDFPERFTGPGDEGMNLYTIRDEDAYMRLFDGVRGERAV 86
Query: 45 IEKSPSYFVTPEAPERIRAMNASIRLLVIVRDPVTRAISDYTQLK 89
E S Y P +R+ ++L+++R+PV RA S Y L
Sbjct: 87 GEASVFYLFYPGTAQRMYDAYPDAKILIMLRNPVDRAFSAYMHLV 131
>2hoe_A N-acetylglucosamine kinase; TM1224, structural genomics, PSI-2,
protein structure initiative, joint center structural
genomics, JCSG; 2.46A {Thermotoga maritima} SCOP:
a.4.5.63 c.55.1.10 c.55.1.10
Length = 380
Score = 30.7 bits (70), Expect = 0.051
Identities = 11/43 (25%), Positives = 20/43 (46%), Gaps = 1/43 (2%)
Query: 47 KSPSYFVTPEAPERIRAMNASIRLLVIVRDPVTRA-ISDYTQL 88
+ P+ +RA N S L I++ PV+R +++ L
Sbjct: 3 SDKIHHHHHHMPKSVRAENISRILKRIMKSPVSRVELAEELGL 45
>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 = 29.1 bits (64), Expect = 0.14
Identities = 7/33 (21%), Positives = 15/33 (45%), Gaps = 9/33 (27%)
Query: 41 EQVTIEKSPS----YFVTPE-APERIRAMNASI 68
E+ ++K + Y + AP A+ A++
Sbjct: 18 EKQALKKLQASLKLY--ADDSAPAL--AIKATM 46
Score = 25.7 bits (55), Expect = 2.8
Identities = 6/19 (31%), Positives = 10/19 (52%)
Query: 28 LEWYRRQMPPSYAEQVTIE 46
L+ Y P+ A + T+E
Sbjct: 29 LKLYADDSAPALAIKATME 47
Score = 24.9 bits (53), Expect = 5.4
Identities = 4/13 (30%), Positives = 8/13 (61%)
Query: 86 TQLKIHAAATSPG 98
LK++A ++P
Sbjct: 27 ASLKLYADDSAPA 39
>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 = 29.4 bits (65), Expect = 0.16
Identities = 10/34 (29%), Positives = 15/34 (44%), Gaps = 1/34 (2%)
Query: 58 PERIRAMNASIRLLVIVRDP-VTRAISDYTQLKI 90
+ A N S ++L+ R VT +S T I
Sbjct: 256 AKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHI 289
>2yhg_A SDE_182CT, cellulose-binding protein; hydrolase, glycoside
hydrolase; HET: BTB; 1.08A {Saccharophagus degradans}
Length = 437
Score = 28.2 bits (62), Expect = 0.46
Identities = 14/63 (22%), Positives = 24/63 (38%), Gaps = 2/63 (3%)
Query: 29 EWYRRQMPPSYAEQVTIEKSPSYFVTPEAPERIRAMNASIRLLVIVRDPVTRAISDYTQL 88
W SY+ V+I S S + P + I L +RD + + Y ++
Sbjct: 375 SWSHYGEADSYSGSVSISNSSSASANVQIPSNAGGKDIHILL--TLRDNGSPNLYAYRRV 432
Query: 89 KIH 91
I+
Sbjct: 433 VIN 435
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 26.3 bits (57), Expect = 2.0
Identities = 7/20 (35%), Positives = 11/20 (55%), Gaps = 7/20 (35%)
Query: 29 EWYRRQMPPSYAEQVTIEKS 48
EW +R +EQ +EK+
Sbjct: 122 EWNQR-----QSEQ--VEKN 134
>1r3d_A Conserved hypothetical protein VC1974; structural genomics,
hydrolase, NYSGXRC, NEW YORK SGX research center for
structural genomics, PSI; 1.90A {Vibrio cholerae} SCOP:
c.69.1.35
Length = 264
Score = 26.1 bits (58), Expect = 2.1
Identities = 7/61 (11%), Positives = 18/61 (29%), Gaps = 6/61 (9%)
Query: 19 DRDENYARGLEWYRRQMP----PSYAEQVTIEKSPSYFVTPEAPERIRAM--NASIRLLV 72
R N + P + K P ++V E + + + ++ +
Sbjct: 176 QRSANLGSSVAHMLLATSLAKQPYLLPALQALKLPIHYVCGEQDSKFQQLAESSGLSYSQ 235
Query: 73 I 73
+
Sbjct: 236 V 236
>2ius_A DNA translocase FTSK; nucleotide-binding, chromosome partition,
ATP-binding, DNA- binding, cell division, transmembrane,
inner membrane; HET: DNA; 2.7A {Escherichia coli} PDB:
2j5p_A*
Length = 512
Score = 25.3 bits (56), Expect = 4.0
Identities = 12/56 (21%), Positives = 22/56 (39%), Gaps = 12/56 (21%)
Query: 1 MLYLHP------RIQKAAGEVHYFDRDENYARGLEWYRRQMPPSYAEQVTIEKSPS 50
MLY P R+ A F RD+ ++ ++ + P Y + +T +
Sbjct: 387 MLYSGPNSTLPVRVHGA------FVRDQEVHAVVQDWKARGRPQYVDGITSDSESE 436
>2b7l_A Glycerol-3-phosphate cytidylyltransferase; rossmann fold; 3.00A
{Staphylococcus aureus}
Length = 132
Score = 24.8 bits (55), Expect = 4.5
Identities = 6/15 (40%), Positives = 6/15 (40%)
Query: 10 KAAGEVHYFDRDENY 24
K EV Y R E
Sbjct: 103 KDKCEVIYLKRTEGI 117
>3zth_A STU0660; DNA binding, crispr, CAS; 2.40A {Streptococcus
thermophilus}
Length = 350
Score = 25.1 bits (54), Expect = 4.8
Identities = 13/61 (21%), Positives = 29/61 (47%), Gaps = 5/61 (8%)
Query: 16 HYFDRDENYARGLEWYRRQMPPSYAE-QVTIEKSPSYFVTPEAPERIRAMNASIRLLVIV 74
H +D + Y R +++Y P+ ++++E Y +T + +R + S+ VI+
Sbjct: 263 HLYDVEFMYERVMKYYPSNDFPTREGFRMSLETVTPYLLT----KMLRQPSLSLVDSVIL 318
Query: 75 R 75
Sbjct: 319 N 319
>1coz_A Protein (glycerol-3-phosphate cytidylyltransferase); HET: CTP;
2.00A {Bacillus subtilis} SCOP: c.26.1.2 PDB: 1n1d_A*
Length = 129
Score = 24.7 bits (55), Expect = 5.2
Identities = 6/15 (40%), Positives = 6/15 (40%)
Query: 10 KAAGEVHYFDRDENY 24
K EV Y R E
Sbjct: 103 KDQCEVVYLPRTEGI 117
>1o20_A Gamma-glutamyl phosphate reductase; TM0293, structural genom JCSG,
PSI, protein structure initiative, joint center for S
genomics; 2.00A {Thermotoga maritima} SCOP: c.82.1.1
Length = 427
Score = 24.8 bits (55), Expect = 5.6
Identities = 7/29 (24%), Positives = 14/29 (48%)
Query: 58 PERIRAMNASIRLLVIVRDPVTRAISDYT 86
+RI M + ++ ++DPV I +
Sbjct: 84 DKRIDEMIKACETVIGLKDPVGEVIDSWV 112
>1d0q_A DNA primase; zinc-binding motif, protein, transferase; HET: DNA;
1.71A {Geobacillus stearothermophilus} SCOP: g.41.3.2
Length = 103
Score = 24.1 bits (53), Expect = 7.6
Identities = 7/11 (63%), Positives = 10/11 (90%)
Query: 46 EKSPSYFVTPE 56
EK+PS+ V+PE
Sbjct: 45 EKTPSFSVSPE 55
>3fn9_A Putative beta-galactosidase; structural genomics, glycosidas
hydrolase, PSI-2, protein structure initiative; 2.70A
{Bacteroides fragilis}
Length = 692
Score = 24.3 bits (53), Expect = 8.7
Identities = 4/28 (14%), Positives = 10/28 (35%), Gaps = 2/28 (7%)
Query: 17 YFDRDENYARGLEWYRRQ--MPPSYAEQ 42
+ ++ G +YR+ P +
Sbjct: 50 MQVQSGSFYEGAGYYRKTQFFPHDLEGK 77
>3cmg_A Putative beta-galactosidase; structural genomics, PSI-2, Pro
structure initiative, NEW YORK SGX research center for
STRU genomics, nysgxrc; 1.90A {Bacteroides fragilis}
Length = 667
Score = 24.3 bits (53), Expect = 8.8
Identities = 5/27 (18%), Positives = 11/27 (40%), Gaps = 2/27 (7%)
Query: 18 FDRDENYARGLEWYRRQ--MPPSYAEQ 42
+Y RG+ Y + + P + +
Sbjct: 40 LAGKIDYKRGIGNYEKALYIRPEWKGK 66
>3q45_A Mandelate racemase/muconate lactonizing enzyme FA possible
chloromuconate cycloisomerase...; (beta/alpha)8-barrel;
3.00A {Cytophaga hutchinsonii} PDB: 3q4d_A
Length = 368
Score = 24.1 bits (53), Expect = 9.6
Identities = 5/32 (15%), Positives = 11/32 (34%)
Query: 46 EKSPSYFVTPEAPERIRAMNASIRLLVIVRDP 77
E SP + E+ + + + +I
Sbjct: 47 ECSPFMTIHGESMDTAFIVGQYLAKGLIGTSC 78
>3jva_A Dipeptide epimerase; enolase superfamily, isomerase; 1.70A
{Enterococcus faecalis V583} PDB: 3jw7_A* 3jzu_A*
3k1g_A* 3kum_A*
Length = 354
Score = 24.2 bits (53), Expect = 9.9
Identities = 10/52 (19%), Positives = 14/52 (26%), Gaps = 3/52 (5%)
Query: 46 EKSPSYFVTPEAPERIRAMNASIRLLVIVRDPVTR-AISD--YTQLKIHAAA 94
E P F+T E +I +P I + AA
Sbjct: 47 EGGPGIFITGETLAGTLETIELFGQAIIGLNPFNIEKIHEVMDKISAFAPAA 98
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 0.133 0.397
Gapped
Lambda K H
0.267 0.0787 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,668,386
Number of extensions: 91573
Number of successful extensions: 223
Number of sequences better than 10.0: 1
Number of HSP's gapped: 220
Number of HSP's successfully gapped: 33
Length of query: 101
Length of database: 6,701,793
Length adjustment: 67
Effective length of query: 34
Effective length of database: 4,831,086
Effective search space: 164256924
Effective search space used: 164256924
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: 51 (23.3 bits)