RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2420
(174 letters)
>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 = 29.8 bits (66), Expect = 0.48
Identities = 18/108 (16%), Positives = 33/108 (30%), Gaps = 32/108 (29%)
Query: 98 PKVKQMIMEDMAAWARQDGLRNF---EQVKDIYLHPDPFS----------------VQ-- 136
+ +++ QD ++ E++ I + D S VQ
Sbjct: 23 SVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKF 82
Query: 137 -NGLLTPNFK----------MQRAQLKSYFKPQIEDLYNPPNPTATKN 173
+L N+K Q + + + Q + LYN A N
Sbjct: 83 VEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYN 130
>2wsk_A Glycogen debranching enzyme; carbohydrate metabolism, hydrolase,
glycosidase, ISO-amylase glycosyl hydrolase, glycogen
metabolism; 2.25A {Escherichia coli k-12}
Length = 657
Score = 28.3 bits (64), Expect = 1.2
Identities = 6/30 (20%), Positives = 10/30 (33%), Gaps = 3/30 (10%)
Query: 92 SVLCADPKVKQMIMEDMAAWARQ---DGLR 118
++ + P V + W DG R
Sbjct: 305 TLNLSHPAVVDYASACLRYWVETCHVDGFR 334
>1bf2_A Isoamylase; hydrolase, glycosidase, debranching enzyme; 2.00A
{Pseudomonas amyloderamosa} SCOP: b.1.18.2 b.71.1.1
c.1.8.1
Length = 750
Score = 28.5 bits (64), Expect = 1.4
Identities = 7/30 (23%), Positives = 14/30 (46%), Gaps = 3/30 (10%)
Query: 92 SVLCADPKVKQMIMEDMAAWARQ---DGLR 118
+ + + +I++ +A WA DG R
Sbjct: 344 NFNTYNTVAQNLIVDSLAYWANTMGVDGFR 373
>3g2s_A C-terminal fragment of sortilin-related receptor; ADP-ribosylation
factor binding protein GGA1, VHS, acidic- cluster
dileucine signal, sorla; 1.70A {Homo sapiens} PDB:
3g2t_A* 3g2u_A 3g2v_A* 3g2w_A 1ujk_A* 1jwf_A 1ujj_A
1jwg_A* 1py1_A*
Length = 149
Score = 27.6 bits (61), Expect = 1.4
Identities = 9/31 (29%), Positives = 15/31 (48%), Gaps = 2/31 (6%)
Query: 97 DPKVKQMIMEDMAAWARQDGLRNFEQVKDIY 127
KVK I+E + +W GL ++ + Y
Sbjct: 110 SEKVKNKILELLYSWT--VGLPEEVKIAEAY 138
>2vr5_A Glycogen operon protein GLGX; hydrolase, glycosidase, glycosyl
hydrolase, glycogen debraching; HET: GLC A16; 2.8A
{Sulfolobus solfataricus} PDB: 2vnc_A* 2vuy_A
Length = 718
Score = 28.0 bits (63), Expect = 1.6
Identities = 8/30 (26%), Positives = 17/30 (56%), Gaps = 3/30 (10%)
Query: 92 SVLCADPKVKQMIMEDMAAWARQ---DGLR 118
++ + P+V QM+++ + W + DG R
Sbjct: 332 TLNLSHPRVIQMVLDSLRYWVTEMHVDGFR 361
>1je3_A EC005, hypothetical 8.6 kDa protein in AMYA-FLIE intergenic region;
mixed alpha-beta structure, structural genomics; NMR
{Escherichia coli} SCOP: d.68.3.3
Length = 97
Score = 26.6 bits (59), Expect = 1.9
Identities = 9/52 (17%), Positives = 19/52 (36%), Gaps = 7/52 (13%)
Query: 81 KALENGIPG-TLSVLCADPKVKQMIMEDMAAWARQDG--LRNFEQVKDIYLH 129
+A+ G L V+ P + ++ AR G + + +Q +
Sbjct: 46 EAMPQLKKGEILEVVSDCP----QSINNIPLDARNHGYTVLDIQQDGPTIRY 93
>2fef_A Hypothetical protein PA2201; SAD, structural genomics, PSI, protein
structure initiative, midwest center for structural
genomics; 1.90A {Pseudomonas aeruginosa} SCOP: a.29.11.1
a.254.1.1
Length = 294
Score = 27.9 bits (61), Expect = 1.9
Identities = 13/92 (14%), Positives = 27/92 (29%), Gaps = 9/92 (9%)
Query: 91 LSVLCADPKVKQMIMEDMAAWARQDGLRNF--------EQVKDIYLHPDPFSVQNGLLTP 142
+ VL ++ ++E++ + D L ++ + HP PF
Sbjct: 155 MGVLLDAQELIPALVEEVLQFD-TDRLLDYLGAAALGLTSASEETFHPRPFGQLRAFFEE 213
Query: 143 NFKMQRAQLKSYFKPQIEDLYNPPNPTATKNS 174
L Y + Q + + K
Sbjct: 214 ADGSDAQALAPYLQSQYREFFQLSPKAQKKTR 245
>1mhq_A ADP-ribosylation factor binding protein GGA2; super helix, protein
transport; 2.20A {Homo sapiens} SCOP: a.118.9.2
Length = 148
Score = 27.2 bits (60), Expect = 2.2
Identities = 9/48 (18%), Positives = 17/48 (35%), Gaps = 2/48 (4%)
Query: 80 CKALENGIPGTLSVLCADPKVKQMIMEDMAAWARQDGLRNFEQVKDIY 127
L + A KVK ++E + +W +++D Y
Sbjct: 83 LNELIKVLSPKYLGSWATGKVKGRVIEILFSWT--VWFPEDIKIRDAY 128
>3edf_A FSPCMD, cyclomaltodextrinase; alpha-cyclodextrin complex,
glycosidase, hydrolase; HET: CE6 ACX; 1.65A
{Flavobacterium SP} PDB: 3edj_A* 3edk_A* 3ede_A 3edd_A*
1h3g_A
Length = 601
Score = 27.5 bits (61), Expect = 2.8
Identities = 8/31 (25%), Positives = 14/31 (45%)
Query: 55 QIFVYGESLKSYIVAIVVPDVDVVKCKALEN 85
Q+ V+G + A+ P V +V + N
Sbjct: 24 QLMVHGRDIGRMEAALDYPGVRLVSPTRVPN 54
>1juq_A ADP-ribosylation factor binding protein GGA3; protein-peptide
compelx, VHS domain, DXXLL sorting signal, signaling
protein; 2.20A {Homo sapiens} SCOP: a.118.9.2 PDB:
1jpl_A 1lf8_A*
Length = 171
Score = 26.9 bits (59), Expect = 3.1
Identities = 9/31 (29%), Positives = 15/31 (48%), Gaps = 2/31 (6%)
Query: 97 DPKVKQMIMEDMAAWARQDGLRNFEQVKDIY 127
KVK ++E + +W L ++KD Y
Sbjct: 112 SEKVKTKVIELLYSWT--MALPEEAKIKDAY 140
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl RED
beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces
cerevisiae}
Length = 1688
Score = 27.5 bits (61), Expect = 3.1
Identities = 7/24 (29%), Positives = 12/24 (50%), Gaps = 1/24 (4%)
Query: 80 CKALENGI-PGTLSVLCADPKVKQ 102
+ L +GI PG + D ++Q
Sbjct: 1398 LQILNSGIIPGNRNADNVDKILEQ 1421
>1nlf_A Regulatory protein REPA; replicative DNA helicase structural
changes, replication; 1.95A {Escherichia coli} SCOP:
c.37.1.11 PDB: 1g8y_A 1olo_A
Length = 279
Score = 27.0 bits (59), Expect = 3.4
Identities = 9/29 (31%), Positives = 14/29 (48%), Gaps = 1/29 (3%)
Query: 83 LENGIPGTLSVLCADPKV-KQMIMEDMAA 110
L N + GT+ L + K M+ +AA
Sbjct: 24 LPNMVAGTVGALVSPGGAGKSMLALQLAA 52
>1uu3_A HPDK1, 3-phosphoinositide dependent protein kinase-1; PKB,
inhibitor, LY333531, diabetes, cancer, transferase,
serine/threonine-protein kinase; HET: SEP LY4; 1.7A
{Homo sapiens} SCOP: d.144.1.7 PDB: 1okz_A* 1oky_A*
1uu7_A* 1uu8_A* 2biy_A* 3rwp_A* 2xch_A* 3rwq_A* 3sc1_A*
3qd0_A* 2r7b_A* 3ion_A* 3qcq_A* 3qcs_A* 3qcx_A* 3qcy_A*
3iop_A* 3qd3_A* 3qd4_A* 3h9o_A* ...
Length = 310
Score = 26.0 bits (58), Expect = 6.1
Identities = 10/24 (41%), Positives = 15/24 (62%), Gaps = 1/24 (4%)
Query: 19 ALKIIDRKRHIFKLAQGEYIVPEK 42
A+KI+ KRHI K + Y+ E+
Sbjct: 59 AIKIL-EKRHIIKENKVPYVTRER 81
>3fvs_A Kynurenine--oxoglutarate transaminase 1; alpha beta protein, PLP
dependent protein, aminotransferase, pyridoxal
phosphate, transferase; HET: LLP; 1.50A {Homo sapiens}
PDB: 3fvu_A* 3fvx_A* 1w7l_A* 1w7m_A* 1w7n_A*
Length = 422
Score = 26.1 bits (58), Expect = 7.4
Identities = 10/48 (20%), Positives = 17/48 (35%), Gaps = 6/48 (12%)
Query: 128 LHPDPFSVQNGLLTPNFKMQRAQLKSYFKPQ----IEDLYNPPNPTAT 171
L P P + N+++ +L F + + L P NP
Sbjct: 144 LKPGPIQNGELGSSSNWQLDPMELAGKFTSRTKALV--LNTPNNPLGK 189
>1jdq_A TM006 protein, hypothetical protein TM0983; structural genomics;
NMR {Thermotoga maritima} SCOP: d.68.3.3
Length = 98
Score = 25.1 bits (55), Expect = 8.0
Identities = 15/57 (26%), Positives = 22/57 (38%), Gaps = 8/57 (14%)
Query: 77 VVKCK-ALENGIPG-TLSVLCADPKVKQMIMEDMAAWARQDG--LRNFEQVKDIYLH 129
V+ K AL+N PG L V P M E + ++ G + E+V
Sbjct: 40 DVETKRALQNMKPGEILEVWIDYP----MSKERIPETVKKLGHEVLEIEEVGPSEWK 92
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
0.318 0.135 0.389
Gapped
Lambda K H
0.267 0.0751 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,732,809
Number of extensions: 158874
Number of successful extensions: 321
Number of sequences better than 10.0: 1
Number of HSP's gapped: 321
Number of HSP's successfully gapped: 29
Length of query: 174
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 87
Effective length of database: 4,272,666
Effective search space: 371721942
Effective search space used: 371721942
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (24.5 bits)