RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7344
(240 letters)
>3b0p_A TRNA-dihydrouridine synthase; TIM barrel, oxidoreductase; HET: FMN;
1.70A {Thermus thermophilus} PDB: 3b0u_X* 3b0v_C*
Length = 350
Score = 42.2 bits (100), Expect = 6e-05
Identities = 20/42 (47%), Positives = 28/42 (66%), Gaps = 1/42 (2%)
Query: 123 GNDSKNLTEAAKLAEPH-CDGIDINIGCPQMVAKRGHYGAYL 163
G+D K+L EAA++ E D I++N+GCP A+ G YGA L
Sbjct: 66 GSDPKSLAEAARIGEAFGYDEINLNLGCPSEKAQEGGYGACL 107
Score = 28.0 bits (63), Expect = 3.0
Identities = 14/30 (46%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 68 IAEPH-CDGIDINIGCPQMVAKRGHYGAYL 96
I E D I++N+GCP A+ G YGA L
Sbjct: 78 IGEAFGYDEINLNLGCPSEKAQEGGYGACL 107
Score = 27.6 bits (62), Expect = 4.2
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 16 DGIDINIGCPQMVAKRGHYGAYL 38
D I++N+GCP A+ G YGA L
Sbjct: 85 DEINLNLGCPSEKAQEGGYGACL 107
>1vhn_A Putative flavin oxidoreducatase; structural genomics, unknown
function; HET: FMN; 1.59A {Thermotoga maritima} SCOP:
c.1.4.1
Length = 318
Score = 41.4 bits (98), Expect = 1e-04
Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 2/53 (3%)
Query: 123 GNDSKNLTEAAKLAEPHCDGIDINIGCP-QMVAKRGHYGAYLQDDWPLLTNLV 174
G++ L+EAA++ ID+N GCP + V K G G L D +V
Sbjct: 67 GSEPNELSEAARILSEKYKWIDLNAGCPVRKVVKEGA-GGALLKDLRHFRYIV 118
Score = 36.0 bits (84), Expect = 0.007
Identities = 18/83 (21%), Positives = 25/83 (30%), Gaps = 24/83 (28%)
Query: 68 IAEPHCDGIDINIGCP-QMVAKRGHYGAYLQDDWPLLTELG------------FKTRSHM 114
I ID+N GCP + V K G G L D + KTR
Sbjct: 79 ILSEKYKWIDLNAGCPVRKVVKEGA-GGALLKDLRHFRYIVRELRKSVSGKFSVKTRL-- 135
Query: 115 CGHSLMFCGNDSKNLTEAAKLAE 137
G + + E ++
Sbjct: 136 --------GWEKNEVEEIYRILV 150
Score = 30.2 bits (69), Expect = 0.52
Identities = 13/39 (33%), Positives = 16/39 (41%), Gaps = 2/39 (5%)
Query: 12 EPHCDGIDINIGCP-QMVAKRGHYGAYLQDDWPLLTELV 49
ID+N GCP + V K G G L D +V
Sbjct: 81 SEKYKWIDLNAGCPVRKVVKEGA-GGALLKDLRHFRYIV 118
>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 = 33.1 bits (75), Expect = 0.094
Identities = 10/64 (15%), Positives = 17/64 (26%), Gaps = 23/64 (35%)
Query: 100 WPLLTELG-FKTRSHMCGHSL-----MFCGNDSKNLTEAAKLAEPHCDGIDINIGCPQMV 153
+ L G + GHSL + D ++ ++ V
Sbjct: 1744 FEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEV-----------------V 1786
Query: 154 AKRG 157
RG
Sbjct: 1787 FYRG 1790
>1gte_A Dihydropyrimidine dehydrogenase; electron transfer, flavin,
iron-sulfur clusters, pyrimidine catabolism,
5-fluorouracil degradation, oxidoreductase; HET: FMN
FAD; 1.65A {Sus scrofa} SCOP: a.1.2.2 c.1.4.1 c.3.1.1
c.4.1.1 d.58.1.5 PDB: 1gt8_A* 1gth_A* 1h7w_A* 1h7x_A*
Length = 1025
Score = 30.9 bits (70), Expect = 0.38
Identities = 15/49 (30%), Positives = 26/49 (53%), Gaps = 2/49 (4%)
Query: 118 SLMFCGNDSKNLTEAAKLAEPH-CDGIDINIGCPQMVAKRGHYGAYLQD 165
S+M C + + E ++ AE D +++N+ CP + +RG A QD
Sbjct: 640 SIM-CSYNKNDWMELSRKAEASGADALELNLSCPHGMGERGMGLACGQD 687
Score = 28.2 bits (63), Expect = 3.0
Identities = 13/41 (31%), Positives = 20/41 (48%), Gaps = 4/41 (9%)
Query: 15 CDGIDINIGCPQMVAKRGHYGAYLQDDWPLLTELVVHFSWV 55
D +++N+ CP + +RG A QD P L + WV
Sbjct: 662 ADALELNLSCPHGMGERGMGLACGQD--PELVRNIC--RWV 698
>1ep3_A Dihydroorotate dehydrogenase B (PYRD subunit); heterotetramer,
alpha-beta barrel, beta sandwich, FAD domain alpha/beta
NADP domain; HET: FMN FAD; 2.10A {Lactococcus lactis}
SCOP: c.1.4.1 PDB: 1ep2_A* 1ep1_A*
Length = 311
Score = 29.9 bits (68), Expect = 0.65
Identities = 14/58 (24%), Positives = 23/58 (39%), Gaps = 9/58 (15%)
Query: 8 RIETEPHCDGIDINIGCPQMVAKRGHYGAYLQDDWPLLTELVVHFSWVSK--NGPLFM 63
+I + I++NI CP V G A+ D P + +V PL++
Sbjct: 119 KIGDAANVKAIELNISCPN-VKHGGQ--AFGTD--PEVAAALV--KACKAVSKVPLYV 169
Score = 29.5 bits (67), Expect = 0.86
Identities = 10/63 (15%), Positives = 24/63 (38%), Gaps = 11/63 (17%)
Query: 94 AYLQDDWPLLTELGFKTR---SHMCGHSLMFCGNDSKNLTEAAKLAE-PHCDGIDINIGC 149
+ + P L E + + + ++ + AK+ + + I++NI C
Sbjct: 83 VIMTEKLPWLNENFPELPIIAN-------VAGSEEADYVAVCAKIGDAANVKAIELNISC 135
Query: 150 PQM 152
P +
Sbjct: 136 PNV 138
>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 = 27.5 bits (60), Expect = 5.1
Identities = 9/39 (23%), Positives = 16/39 (41%), Gaps = 9/39 (23%)
Query: 159 YGAYLQDDWPLLTNLVYSPNMVHFV-------IAEPHCD 190
Y Y+ D+ P LV + ++ F+ I + D
Sbjct: 530 YKPYICDNDPKYERLVNA--ILDFLPKIEENLICSKYTD 566
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 0.142 0.480
Gapped
Lambda K H
0.267 0.0795 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,902,513
Number of extensions: 223745
Number of successful extensions: 319
Number of sequences better than 10.0: 1
Number of HSP's gapped: 317
Number of HSP's successfully gapped: 15
Length of query: 240
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 149
Effective length of database: 4,160,982
Effective search space: 619986318
Effective search space used: 619986318
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: 56 (25.2 bits)