RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15026
(98 letters)
>3dkm_A E3 ubiquitin-protein ligase hectd1; UBL conjugation, UBL
conjugation pathway, structural genomics consortium,
SGC;, ANK repeat, NPPSFA; 1.60A {Homo sapiens}
Length = 89
Score = 58.0 bits (140), Expect = 7e-13
Identities = 22/40 (55%), Positives = 28/40 (70%)
Query: 50 RKARRLVRTQVMRHLIIGARVQRGLDWKWRDQDGIPPGEG 89
R + Q +++++ GARV RGLDWKWRDQDG P GEG
Sbjct: 8 SSGRENLYFQGLKYMVPGARVTRGLDWKWRDQDGSPQGEG 47
>2dk3_A E3 ubiquitin-protein ligase hectd1; MIB-HERC2 domain, HECT domain
containing protein 1, structural genomics, NPPSFA; NMR
{Homo sapiens} SCOP: b.34.19.1
Length = 86
Score = 55.3 bits (133), Expect = 8e-12
Identities = 24/39 (61%), Positives = 30/39 (76%)
Query: 51 KARRLVRTQVMRHLIIGARVQRGLDWKWRDQDGIPPGEG 89
VR+QV+++++ GARV RGLDWKWRDQDG P GEG
Sbjct: 3 SGSSGVRSQVLKYMVPGARVIRGLDWKWRDQDGSPQGEG 41
>3ggl_A Putative chitobiase; X-RAY, structure genomics, NESG, BTR324A,
Q8A9F0_bactn, BT_0865, PSI-2, protein structure
initiative; 3.00A {Bacteroides thetaiotaomicron}
Length = 169
Score = 31.0 bits (70), Expect = 0.033
Identities = 5/33 (15%), Positives = 16/33 (48%), Gaps = 2/33 (6%)
Query: 2 RHVRIQQNGKNASGQTHYLSLSGFEIYGTLTGV 34
R++R+ + G + ++ ++ GT+ +
Sbjct: 132 RYIRL--TIPDDGGNSTVAAIRELDVKGTIINL 162
>3f2z_A Uncharacterized protein BF3579; the present C-terminal domain is
predominantly composed of B strands., structural
genomics, PSI-2; 1.30A {Bacteroides fragilis} PDB:
2kd7_A
Length = 159
Score = 31.0 bits (70), Expect = 0.033
Identities = 4/33 (12%), Positives = 15/33 (45%), Gaps = 2/33 (6%)
Query: 2 RHVRIQQNGKNASGQTHYLSLSGFEIYGTLTGV 34
R++++ + G ++ ++ GT+ +
Sbjct: 122 RYIKL--VIPDGVGNGTVAAIRELDVRGTVVNL 152
>3lei_A Platelet aggregation factor SM-HPAF; lectin domain of lectinolysin,
fucose, blood clotting, nicke; HET: FUC; 1.90A
{Streptococcus mitis} PDB: 3leg_A* 3le0_A* 3lek_A*
Length = 153
Score = 29.6 bits (66), Expect = 0.11
Identities = 8/29 (27%), Positives = 16/29 (55%), Gaps = 5/29 (17%)
Query: 2 RHVRIQQNGKNASGQTHYLSLSGFEIYGT 30
R+V+++ KN LSL+ E++ +
Sbjct: 123 RYVKVELKTKNT-----PLSLAEVEVFRS 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 = 28.9 bits (64), Expect = 0.25
Identities = 24/95 (25%), Positives = 30/95 (31%), Gaps = 20/95 (21%)
Query: 18 HYL---SLSGF------EIYGTLTGVCEDLGRAAREAEA-SVRKARRLVRTQVMRHL-II 66
HY+ L GF TG + L A AE S VR + + L I
Sbjct: 248 HYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVR-KAITVLFFI 306
Query: 67 GARVQR-----GLDWKWRDQDGIPPGEGNLKPIIM 96
G R L +D + EG P M
Sbjct: 307 GVRCYEAYPNTSLPPSIL-EDSLENNEGVPSP--M 338
>2w1s_A Hyaluronoglucosaminidase; hexosaminidase, family 32 carbohydrate
binding module, toxin, secreted, virulence, hydrolase,
glycosidase; HET: MSE BTB; 1.45A {Clostridium
perfringens} PDB: 2w1q_A* 2w1u_A* 2wdb_A*
Length = 192
Score = 28.1 bits (62), Expect = 0.39
Identities = 6/29 (20%), Positives = 12/29 (41%), Gaps = 4/29 (13%)
Query: 2 RHVRIQQNGKNASGQTHYLSLSGFEIYGT 30
+++R+ N +L+ S F I
Sbjct: 139 KYIRLT----NMENINKWLTFSEFAIVSD 163
>2j22_A Fucolectin-related protein; carbohydrate-binding protein,
carbohydrate binding protein; 1.8A {Streptococcus
pneumoniae}
Length = 148
Score = 27.6 bits (61), Expect = 0.42
Identities = 8/28 (28%), Positives = 11/28 (39%), Gaps = 5/28 (17%)
Query: 2 RHVRIQQNGKNASGQTHYLSLSGFEIYG 29
+ VRI LSL+ E+Y
Sbjct: 124 KKVRISLRSAGI-----PLSLAEVEVYT 146
>4a4a_A Alpha-N-acetylglucosaminidase family protein; hydrolase, 2
hydrolase, family 89 glycoside hydrolase, mucin
carbohydrate-active enzyme; HET: NDG GAL; 1.90A
{Clostridium perfringens} PDB: 2vcc_A 2vc9_A* 2vcb_A*
2vca_A
Length = 914
Score = 27.7 bits (61), Expect = 0.63
Identities = 6/32 (18%), Positives = 14/32 (43%), Gaps = 3/32 (9%)
Query: 2 RHVRIQQNGKNASGQTHYLSLSGFEIYGTLTG 33
+RI + S ++++ ++G TG
Sbjct: 128 GKIRIDVVQNSNSD---RVNIAEINVFGKNTG 156
>1k12_A Lectin; beta barrel, protein carbohydrate complex, sugar binding
protein; HET: FUC; 1.90A {Anguilla anguilla} SCOP:
b.18.1.15
Length = 158
Score = 27.0 bits (59), Expect = 0.84
Identities = 5/29 (17%), Positives = 7/29 (24%), Gaps = 6/29 (20%)
Query: 2 RHVRIQQNGKNASGQTHYLSLSGFEIYGT 30
R+V L L E+
Sbjct: 131 RYVVTYLPTSE------SLHLCEVEVNVD 153
>3cqo_A FBP32; F-lectin, fucolectin, sugar binding protein; HET: FUC; 2.32A
{Morone saxatilis}
Length = 293
Score = 26.9 bits (58), Expect = 0.93
Identities = 10/29 (34%), Positives = 15/29 (51%), Gaps = 5/29 (17%)
Query: 2 RHVRIQQNGKNASGQTHYLSLSGFEIYGT 30
R+V I G+ YL+L E+YG+
Sbjct: 267 RYVNIVIPGREE-----YLTLCEVEVYGS 290
>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein;
secretin, TPR repeat, type IV pilus, bacterail
virulence; 1.54A {Neisseria meningitidis}
Length = 225
Score = 26.5 bits (59), Expect = 1.4
Identities = 8/50 (16%), Positives = 19/50 (38%), Gaps = 1/50 (2%)
Query: 26 EIYGTLTGVCEDLGRAAREAEASVRKARRLVRTQVMRHLIIGARVQRGLD 75
+ L G+ +A+ +K + V L++G ++ + L
Sbjct: 148 PAFKELARTKMLAGQLG-DADYYFKKYQSRVEVLQADDLLLGWKIAKALG 196
>3tax_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase
110 kDa subunit...; thiocarbamate crosslink, covalent
inhibitor, gylcosyltransfe inhibitor, O-GLCNAC
transferase; HET: UDP; 1.88A {Homo sapiens} PDB: 3pe3_A*
3pe4_A*
Length = 723
Score = 25.9 bits (56), Expect = 2.4
Identities = 14/57 (24%), Positives = 23/57 (40%), Gaps = 1/57 (1%)
Query: 26 EIYGTLTGVCEDLGRAAREAEASVRKARRLVRTQVMRHLIIGARVQRGLDWKWRDQD 82
+ + L + +D G EA AS R A +L + + +Q DW D+
Sbjct: 112 DAHSNLASIHKDSGNIP-EAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWTDYDER 167
>2j1v_A Fucolectin-related protein; carbohydrate-binding protein,
carbohydrate binding protein; HET: NAG GAL FUC; 1.45A
{Streptococcus pneumoniae} PDB: 2j1r_A* 2j1t_A* 2j1u_A*
2j1s_A*
Length = 151
Score = 25.4 bits (55), Expect = 3.3
Identities = 5/28 (17%), Positives = 13/28 (46%), Gaps = 5/28 (17%)
Query: 2 RHVRIQQNGKNASGQTHYLSLSGFEIYG 29
R+++++ LSL+ E++
Sbjct: 127 RYIKVKLLTSGV-----PLSLAEVEVFR 149
>3se4_B Interferon omega-1; type I interferon signaling complex,
extracellular space, IM system receptor; HET: NAG; 3.50A
{Homo sapiens}
Length = 177
Score = 24.5 bits (53), Expect = 6.0
Identities = 10/30 (33%), Positives = 16/30 (53%)
Query: 52 ARRLVRTQVMRHLIIGARVQRGLDWKWRDQ 81
A +VR ++M+ L + +Q L K RD
Sbjct: 145 AWEVVRMEIMKSLFLSTNMQERLRSKDRDL 174
>3clm_A Transaldolase; YP_208650.1, structural genomics, joint cente
structural genomics, JCSG, protein structure initiative,
PS transferase; HET: MSE; 1.14A {Neisseria gonorrhoeae}
Length = 352
Score = 24.8 bits (54), Expect = 6.1
Identities = 7/16 (43%), Positives = 12/16 (75%)
Query: 40 RAAREAEASVRKARRL 55
A++A+ +V +ARRL
Sbjct: 112 ELAKDAQGTVEEARRL 127
>3c19_A Uncharacterized protein MK0293; protein structure initiative,
PSI-2, NEW YORK SGX research center for structu
genomics, nysgxrc; 2.50A {Methanopyrus kandleri AV19}
Length = 186
Score = 24.5 bits (53), Expect = 6.1
Identities = 3/28 (10%), Positives = 8/28 (28%)
Query: 36 EDLGRAAREAEASVRKARRLVRTQVMRH 63
++ E R+ + +V
Sbjct: 138 DECREIGEETGIPPREVKAMVEAAARVG 165
>4a42_A GH89_CBM32-4, alpha-N-acetylglucosaminidase family protein;
hydrolase, family 89 glycoside hydrolase, family 32
carbohyd binding module; HET: MSE; 1.55A {Clostridium
perfringens}
Length = 149
Score = 24.4 bits (53), Expect = 6.3
Identities = 7/28 (25%), Positives = 10/28 (35%), Gaps = 7/28 (25%)
Query: 2 RHVRIQQNGKNASGQTHYLSLSGFEIYG 29
R VR N +N + +IY
Sbjct: 128 RFVRFNFNSENV-------KIGEIKIYK 148
>3jyh_A Dipeptidyl-peptidase 2; structural genomics, structural genomics
consortium, SGC, aminopeptidase, cleavage on PAIR of
basic residues; HET: NAG BMA; 2.19A {Homo sapiens} PDB:
3n0t_A*
Length = 469
Score = 24.9 bits (53), Expect = 6.7
Identities = 16/56 (28%), Positives = 21/56 (37%), Gaps = 4/56 (7%)
Query: 9 NGKN----ASGQTHYLSLSGFEIYGTLTGVCEDLGRAAREAEASVRKARRLVRTQV 60
NG G LS S + DL + E ASV +AR+L T +
Sbjct: 391 NGNLDPWAGGGIRRNLSASVIAVTIQGGAHHLDLRASHPEDPASVVEARKLEATII 446
>3hnm_A Putative chitobiase; PSI-2, protein structure initiative, northeast
structural genomics consortium, NESG, BTR319D.BT_411;
3.00A {Bacteroides thetaiotaomicron}
Length = 172
Score = 24.2 bits (52), Expect = 7.6
Identities = 5/29 (17%), Positives = 10/29 (34%)
Query: 2 RHVRIQQNGKNASGQTHYLSLSGFEIYGT 30
R++R + +SL +G
Sbjct: 137 RYIRFVITDTYPTYDGLRVSLGEVYAWGL 165
>3r5e_A Transaldolase; pentose phosphate pathway, TIM barrel fold,
transferase; 2.10A {Corynebacterium glutamicum}
Length = 360
Score = 24.4 bits (53), Expect = 7.7
Identities = 4/16 (25%), Positives = 11/16 (68%)
Query: 40 RAAREAEASVRKARRL 55
R + + +A++ +A+ L
Sbjct: 112 RISADRDATLAQAKEL 127
>4a3z_A GH89_CBM32, alpha-N-acetylglucosaminidase family protein;
hydrolase, family 32 carbohydrate-binding module; HET:
MSE; 1.55A {Clostridium perfringens} PDB: 4a6o_A*
Length = 161
Score = 24.1 bits (52), Expect = 7.7
Identities = 3/29 (10%), Positives = 8/29 (27%), Gaps = 2/29 (6%)
Query: 2 RHVRIQQNGKNASGQTHYL--SLSGFEIY 28
+ GK G +++ +
Sbjct: 132 SKIHATITGKAPGGSFDQAWAAIAEIKAM 160
>1b5l_A Interferon TAU; cytokine; 2.10A {Pichia pastoris} SCOP: a.26.1.3
Length = 172
Score = 24.2 bits (52), Expect = 9.8
Identities = 9/29 (31%), Positives = 15/29 (51%)
Query: 52 ARRLVRTQVMRHLIIGARVQRGLDWKWRD 80
A +VR ++MR L + +Q+ L D
Sbjct: 140 AWEIVRVEMMRALTVSTTLQKRLTKMGGD 168
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
0.322 0.139 0.433
Gapped
Lambda K H
0.267 0.0538 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,603,446
Number of extensions: 85091
Number of successful extensions: 209
Number of sequences better than 10.0: 1
Number of HSP's gapped: 209
Number of HSP's successfully gapped: 27
Length of query: 98
Length of database: 6,701,793
Length adjustment: 64
Effective length of query: 34
Effective length of database: 4,914,849
Effective search space: 167104866
Effective search space used: 167104866
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: 51 (23.9 bits)