RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13200
(142 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 = 32.9 bits (74), Expect = 0.033
Identities = 15/101 (14%), Positives = 37/101 (36%), Gaps = 16/101 (15%)
Query: 13 VMKIMVDIDKQFLRKMQADMHRCSVKCCENKDATMEGVQECLEVCSAPFMRAQKY---LQ 69
+ + V + + KM + ++K C + + +E +Q+ L + + ++
Sbjct: 165 WVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIK 224
Query: 70 MEFEQYQTRLQR---------C--VLD--CNDEIKDKMGVN 97
+ Q L+R C VL N + + ++
Sbjct: 225 LRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLS 265
Score = 31.0 bits (69), Expect = 0.14
Identities = 25/172 (14%), Positives = 53/172 (30%), Gaps = 54/172 (31%)
Query: 6 NQKINNAVMKIM-VDIDKQFLRKMQADMHRCSVKCCENKDATME--GVQECLEVCSAPFM 62
+ I ++ ++ D+ K + + +H+ S+ + K++T+ + LE+
Sbjct: 384 SAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIY--LELKVKLEN 441
Query: 63 RAQKYLQMEFEQYQTRLQRCVLDCNDEIKDKMGVNPKQSDMDAYTRQF----ESCAEKCV 118
+ + + Y + + D +D I + D Y E
Sbjct: 442 EYALHRSI-VDHY--NIPKT-FDSDDLIPPYL---------DQYFYSHIGHHLKNIEH-- 486
Query: 119 DKHIALLPTLF-------QKI-----------------------KKYLSDNS 140
+ + L +F QKI K Y+ DN
Sbjct: 487 PERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDND 538
>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 = 30.7 bits (68), Expect = 0.097
Identities = 13/36 (36%), Positives = 17/36 (47%), Gaps = 14/36 (38%)
Query: 21 DKQFLRKMQADMHRCSVKCCENKD--------ATME 48
+KQ L+K+QA S+K D ATME
Sbjct: 18 EKQALKKLQA-----SLKLYA-DDSAPALAIKATME 47
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 27.8 bits (61), Expect = 0.93
Identities = 9/44 (20%), Positives = 21/44 (47%), Gaps = 2/44 (4%)
Query: 73 EQYQTRLQRCVLDCNDEIKDKMGVNPKQSDMDAYTRQFESCAEK 116
E+ + RLQ LD ++ ++ + D++ + ++ EK
Sbjct: 92 EEQRKRLQE--LDAASKVMEQEWREKAKKDLEEWNQRQSEQVEK 133
>3cov_A Pantothenate synthetase; pantothenate biosynthesis, enzym ligase,
drug design, ATP-binding, magnesium, metal-binding;
1.50A {Mycobacterium tuberculosis} SCOP: c.26.1.4 PDB:
3cow_A* 3coy_A* 3coz_A* 3imc_A* 3ime_A* 3img_A* 3iob_A*
3ioc_A* 3iod_A* 3ioe_A* 3iub_A* 3iue_A* 3ivc_A* 3ivg_A*
3ivx_A* 2a84_A* 1n2b_A* 1n2e_A* 1n2g_A* 1n2h_A* ...
Length = 301
Score = 27.2 bits (61), Expect = 1.7
Identities = 9/26 (34%), Positives = 12/26 (46%), Gaps = 4/26 (15%)
Query: 96 VNPKQ----SDMDAYTRQFESCAEKC 117
VNP Q D+DAY R + +
Sbjct: 69 VNPMQFGAGGDLDAYPRTPDDDLAQL 94
>3inn_A Pantothenate synthetase; ssgcid, SBRI, UW, decode, NIH, niaid,
pantoate beta alanine ligase, ATP-binding, cytoplasm,
ligase; HET: ATP; 2.10A {Brucella melitensis}
Length = 314
Score = 27.2 bits (61), Expect = 2.0
Identities = 9/26 (34%), Positives = 10/26 (38%), Gaps = 4/26 (15%)
Query: 96 VNPKQ----SDMDAYTRQFESCAEKC 117
VNP Q D+ Y R E A
Sbjct: 78 VNPLQFGANEDLGRYPRDLERDAGLL 103
>2ejc_A Pantoate--beta-alanine ligase; X-RAY diffraction, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; 2.40A {Thermotoga maritima}
Length = 280
Score = 26.7 bits (60), Expect = 2.6
Identities = 9/26 (34%), Positives = 11/26 (42%), Gaps = 4/26 (15%)
Query: 96 VNPKQ----SDMDAYTRQFESCAEKC 117
VNP Q D + Y R FE +
Sbjct: 57 VNPTQFGPNEDYERYPRDFERDRKLL 82
>3mxt_A Pantothenate synthetase; alpha-beta-alpha, structural genomics,
center for structural of infectious diseases, csgid,
ligase; HET: MSE; 1.85A {Campylobacter jejuni subsp}
PDB: 3uy4_A*
Length = 285
Score = 26.7 bits (60), Expect = 2.7
Identities = 9/26 (34%), Positives = 11/26 (42%), Gaps = 4/26 (15%)
Query: 96 VNPKQ----SDMDAYTRQFESCAEKC 117
VNP Q D +Y R E + C
Sbjct: 59 VNPMQFGPNEDFSSYPRDLERDIKMC 84
>3uk2_A Pantothenate synthetase; AMP, structural genomics, seattle S
genomics center for infectious disease, ssgcid, ligase;
HET: AMP; 2.25A {Burkholderia thailandensis}
Length = 283
Score = 26.7 bits (60), Expect = 2.8
Identities = 9/26 (34%), Positives = 10/26 (38%), Gaps = 4/26 (15%)
Query: 96 VNPKQ----SDMDAYTRQFESCAEKC 117
VN Q D D Y R + EK
Sbjct: 57 VNRLQFGPNEDFDKYPRTLQEDIEKL 82
>3q12_A Pantoate--beta-alanine ligase; structural genomics, center for
structural genomics of infec diseases, csgid; HET: PAF;
1.58A {Yersinia pestis} PDB: 3q10_A* 3mue_A 1iho_A
3guz_A*
Length = 287
Score = 26.7 bits (60), Expect = 2.9
Identities = 9/26 (34%), Positives = 11/26 (42%), Gaps = 4/26 (15%)
Query: 96 VNPKQ----SDMDAYTRQFESCAEKC 117
VNP Q D+ Y R + EK
Sbjct: 60 VNPLQFERPDDLAHYPRTLQEDCEKL 85
>1v8f_A Pantoate-beta-alanine ligase; rossmann fold, dimer, structural
genomics, riken STR genomics/proteomics initiative,
RSGI; HET: P6G; 1.90A {Thermus thermophilus} SCOP:
c.26.1.4 PDB: 1ufv_A
Length = 276
Score = 26.7 bits (60), Expect = 3.0
Identities = 8/26 (30%), Positives = 8/26 (30%), Gaps = 4/26 (15%)
Query: 96 VNPKQ----SDMDAYTRQFESCAEKC 117
VNP Q D Y R E
Sbjct: 52 VNPLQFGPGEDYHRYPRDLERDRALL 77
>3ag6_A Pantothenate synthetase; ATP-dependent enzyme, ATP-binding,
nucleotide-binding, pantothenate biosynthesis; HET: PAJ
PG4; 1.85A {Staphylococcus aureus} PDB: 3ag5_A* 2x3f_A*
Length = 283
Score = 26.3 bits (59), Expect = 3.5
Identities = 11/26 (42%), Positives = 12/26 (46%), Gaps = 4/26 (15%)
Query: 96 VNPKQ----SDMDAYTRQFESCAEKC 117
VNP Q D DAY RQ + E
Sbjct: 58 VNPLQFGPNEDFDAYPRQIDKDLELV 83
>3ktw_A SRP19, signal recognition particle 19 kDa protein;
ribonucleoprotein complex, RNA-RNA tertiary
interactions, AS loop, 7S RNA; 3.20A {Sulfolobus
solfataricus}
Length = 109
Score = 24.5 bits (53), Expect = 9.4
Identities = 9/60 (15%), Positives = 20/60 (33%), Gaps = 6/60 (10%)
Query: 88 DEIKD---KMGVNPKQSDMDAYTRQFESCAEKCVDKH---IALLPTLFQKIKKYLSDNSS 141
+E+ ++G++P + Y R + V K L + + N +
Sbjct: 47 EELVSTLRELGLDPIVIENKKYPRDRKINFLIAVKKVKSKNYTLKIIHNALMGTRQTNPN 106
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 0.131 0.390
Gapped
Lambda K H
0.267 0.0828 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,012,791
Number of extensions: 101814
Number of successful extensions: 227
Number of sequences better than 10.0: 1
Number of HSP's gapped: 225
Number of HSP's successfully gapped: 32
Length of query: 142
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 58
Effective length of database: 4,356,429
Effective search space: 252672882
Effective search space used: 252672882
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: 52 (23.6 bits)