RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5788
(204 letters)
>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 = 33.5 bits (76), Expect = 0.043
Identities = 42/199 (21%), Positives = 68/199 (34%), Gaps = 66/199 (33%)
Query: 8 QELRDLIFCQIYQHQISA-MEKLAKCMGWQFLSSSAH-------LGLGGVEPLGNASSC- 58
+ELRDL + Q Y + ++ A+ + L + GL +E L N S+
Sbjct: 171 EELRDL-Y-QTYHVLVGDLIKFSAETL--SELIRTTLDAEKVFTQGLNILEWLENPSNTP 226
Query: 59 ----LLSSPMGDRMISVRCEPQAGIQVAIAHSPRKDF--FCGQLVKERKWENLGGPFKEV 112
LLS P IS P G+ + +AH + + LG E+
Sbjct: 227 DKDYLLSIP-----ISC---PLIGV-IQLAH-----YVVTA---------KLLGFTPGEL 263
Query: 113 RWDKMEGKNFLNKMELLMASLTSLIEGITVIAKLLSSRDRREKEDRIGESNESILDKICP 172
R ++G T +G+ V A ++ D E ++L I
Sbjct: 264 R-SYLKG-------------ATGHSQGL-VTAVAIAETDSWESFFVSVRKAITVLFFI-- 306
Query: 173 GRES-------NLWPSASK 184
G +L PS +
Sbjct: 307 GVRCYEAYPNTSLPPSILE 325
>1trb_A Thioredoxin reductase; oxidoreductase(flavoenzyme); HET: FAD; 2.00A
{Escherichia coli} SCOP: c.3.1.5 c.3.1.5 PDB: 1cl0_A*
1f6m_A* 1tdf_A* 1tde_A*
Length = 320
Score = 30.9 bits (71), Expect = 0.21
Identities = 11/19 (57%), Positives = 12/19 (63%)
Query: 78 GIQVAIAHSPRKDFFCGQL 96
G+ VAI HSP F GQL
Sbjct: 238 GLFVAIGHSPNTAIFEGQL 256
>2a87_A TRXR, TR, thioredoxin reductase; FAD, NAP, NMA, TLS, oxidoreduct
structural genomics, PSI, protein structure initiative;
HET: FAD NAP; 3.00A {Mycobacterium tuberculosis}
Length = 335
Score = 31.0 bits (71), Expect = 0.25
Identities = 7/19 (36%), Positives = 9/19 (47%)
Query: 78 GIQVAIAHSPRKDFFCGQL 96
G+ VAI H PR +
Sbjct: 243 GVFVAIGHEPRSGLVREAI 261
>3itj_A Thioredoxin reductase 1; disulfide B flavoprotein, NADP,
oxidoreductase, phosphoprotein, redox-A center; HET: FAD
CIT; 2.40A {Saccharomyces cerevisiae} PDB: 3d8x_A*
Length = 338
Score = 30.6 bits (70), Expect = 0.34
Identities = 8/22 (36%), Positives = 12/22 (54%)
Query: 75 PQAGIQVAIAHSPRKDFFCGQL 96
P +G+ AI H+P GQ+
Sbjct: 259 PVSGLFYAIGHTPATKIVAGQV 280
>1vdc_A NTR, NADPH dependent thioredoxin reductase; hypothetical protein,
redox-active center, oxidoreductase, D oxidoreductase;
HET: FAD; 2.50A {Arabidopsis thaliana} SCOP: c.3.1.5
c.3.1.5 PDB: 2whd_A*
Length = 333
Score = 30.2 bits (69), Expect = 0.35
Identities = 7/22 (31%), Positives = 10/22 (45%)
Query: 75 PQAGIQVAIAHSPRKDFFCGQL 96
+G+ AI H P F G +
Sbjct: 247 KVSGLFFAIGHEPATKFLDGGV 268
>2q7v_A Thioredoxin reductase; rossman fold, FAD, flavoprotein,
oxidoreductase, redox- active center; HET: FAD; 1.90A
{Deinococcus radiodurans}
Length = 325
Score = 29.4 bits (67), Expect = 0.84
Identities = 5/19 (26%), Positives = 8/19 (42%)
Query: 78 GIQVAIAHSPRKDFFCGQL 96
G+ + I H P F +
Sbjct: 240 GVFIFIGHVPNTAFVKDTV 258
>3au4_A Myosin-X; protein-protein complex, motor protein cargo
transportation, protein-apoptosis complex; 1.90A {Homo
sapiens} PDB: 3au5_A 3pzd_A
Length = 555
Score = 28.8 bits (63), Expect = 1.4
Identities = 10/41 (24%), Positives = 21/41 (51%), Gaps = 2/41 (4%)
Query: 1 MKLSYEPQELRDLIFCQ-IYQH-QISAMEKLAKCMGWQFLS 39
++ ++ + LRD ++CQ I Q ++ + WQ L+
Sbjct: 110 LQTGHDLRPLRDELYCQLIKQTNKVPHPGSVGNLYSWQILT 150
>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 = 28.7 bits (63), Expect = 1.8
Identities = 19/133 (14%), Positives = 44/133 (33%), Gaps = 41/133 (30%)
Query: 59 LLSSPMGDRMISVRCEPQAGIQVAIAHSPRKDFFCGQLVKERK--WENLGGPFKEVRWDK 116
LL + + P+ + +PR+ + +++ W+N +K V DK
Sbjct: 306 LLLKYLD---CRPQDLPRE----VLTTNPRRLSIIAESIRDGLATWDN----WKHVNCDK 354
Query: 117 MEGKNFLNKMELLMASLTSL-------------I--EGITVIAKLLS----SRDRREKED 157
+ ++ +SL L + + LLS + +
Sbjct: 355 LT--------TIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMV 406
Query: 158 RIGE-SNESILDK 169
+ + S+++K
Sbjct: 407 VVNKLHKYSLVEK 419
>2q0l_A TRXR, thioredoxin reductase; bacterial thiredoxin reductase, NADP+
B reduced izoalloxazine bending, oxidoreductase; HET:
FAD NAP; 1.45A {Helicobacter pylori} PDB: 2q0k_A*
3ish_A*
Length = 311
Score = 27.5 bits (62), Expect = 3.0
Identities = 1/19 (5%), Positives = 5/19 (26%)
Query: 78 GIQVAIAHSPRKDFFCGQL 96
G + + + +
Sbjct: 232 GFFIFVGYDVNNAVLKQED 250
>3k8t_A Ribonucleoside-diphosphate reductase large chain; eukaryotic
ribonucleotide reductase, nucleotide analogs, all enzyme
ATP-binding; HET: DGT 2A5; 2.10A {Saccharomyces
cerevisiae} PDB: 1zyz_A 2cvs_A 2cvt_A* 2cvu_A* 2cvv_A*
1zzd_A* 2cvw_A* 2cvy_A* 2eud_A* 2zlf_A 2zlg_A* 2cvx_A*
3paw_A 3s87_A* 3s8b_A* 3s8c_A* 3s8a_A* 3tb9_A* 3tba_A*
Length = 888
Score = 27.6 bits (61), Expect = 3.2
Identities = 10/28 (35%), Positives = 14/28 (50%)
Query: 4 SYEPQELRDLIFCQIYQHQISAMEKLAK 31
S E + L IF IY + A +LA+
Sbjct: 525 SEEARLLNIQIFETIYHASMEASCELAQ 552
>1xw8_A UPF0271 protein YBGL; NESG, northeast structural genomics
consortium, structural genomics, protein structure
initiative, PSI, X-RAY; 2.00A {Escherichia coli} SCOP:
c.6.2.5
Length = 252
Score = 27.1 bits (61), Expect = 3.3
Identities = 9/34 (26%), Positives = 16/34 (47%), Gaps = 7/34 (20%)
Query: 1 MKLSYEPQELRDLIFCQIYQHQISAMEKLAKCMG 34
M+L P+ + +Y QI A+ +A+ G
Sbjct: 71 MQLP--PETVYAQT---LY--QIGALATIARAQG 97
>3r9u_A Thioredoxin reductase; structural genomics, center for structural
genomics of infec diseases, csgid, thioredoxin-disulfide
reductase, FAD; HET: FAD; 2.36A {Campylobacter jejuni}
Length = 315
Score = 27.1 bits (61), Expect = 3.6
Identities = 3/19 (15%), Positives = 6/19 (31%)
Query: 78 GIQVAIAHSPRKDFFCGQL 96
GI + + R +
Sbjct: 235 GIFTFVGLNVRNEILKQDD 253
>2dfa_A Hypothetical UPF0271 protein TTHB195; lactam utilization protein,
structural genomics, NPPSFA; 1.90A {Thermus
thermophilus} SCOP: c.6.2.5
Length = 250
Score = 27.1 bits (61), Expect = 3.7
Identities = 11/34 (32%), Positives = 16/34 (47%), Gaps = 7/34 (20%)
Query: 1 MKLSYEPQELRDLIFCQIYQHQISAMEKLAKCMG 34
M LS P+E+ + +Y QI A+ K G
Sbjct: 76 MALS--PEEVYADV---LY--QIGALSAFLKAEG 102
>1v6t_A Hypothetical UPF0271 protein PH0986; TIM-barrel, lactam utilization
protein, structural genomics; 1.70A {Pyrococcus
horikoshii} SCOP: c.6.2.5
Length = 255
Score = 27.1 bits (61), Expect = 4.1
Identities = 13/34 (38%), Positives = 19/34 (55%), Gaps = 7/34 (20%)
Query: 1 MKLSYEPQELRDLIFCQIYQHQISAMEKLAKCMG 34
MKL+ P+E R+ I +Y Q+ A+ AK G
Sbjct: 76 MKLT--PEEARNYI---LY--QVGALYAFAKAEG 102
>3f8d_A Thioredoxin reductase (TRXB-3); redox protein, nucleotide binding,
FAD, flavoprotein, oxidoreductase; HET: FAD; 1.40A
{Sulfolobus solfataricus} PDB: 3f8p_A* 3f8r_A*
Length = 323
Score = 27.1 bits (61), Expect = 4.2
Identities = 5/21 (23%), Positives = 9/21 (42%)
Query: 78 GIQVAIAHSPRKDFFCGQLVK 98
G+ + I P DF ++
Sbjct: 242 GVFIEIGFDPPTDFAKSNGIE 262
>2x5e_A UPF0271 protein PA4511; unknown function; HET: CIT; 2.30A
{Pseudomonas aeruginosa} PDB: 2xu2_A*
Length = 252
Score = 26.8 bits (60), Expect = 5.3
Identities = 7/34 (20%), Positives = 17/34 (50%), Gaps = 7/34 (20%)
Query: 1 MKLSYEPQELRDLIFCQIYQHQISAMEKLAKCMG 34
+ S +E+ ++ +Y QI A++ + +G
Sbjct: 82 LACS--AEEVHAMV---LY--QIGALDAFCRSLG 108
>2zjr_M 50S ribosomal protein L19; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: b.34.5.6 PDB: 1nwx_N* 1nwy_N* 1sm1_N*
1xbp_N* 2zjp_M* 2zjq_M 1nkw_N 3cf5_M* 3dll_M* 3pio_M*
3pip_M* 1pnu_N 1pny_N 1vor_Q 1vou_Q 1vow_Q 1voy_Q 1vp0_Q
Length = 166
Score = 25.9 bits (57), Expect = 8.1
Identities = 14/65 (21%), Positives = 25/65 (38%), Gaps = 7/65 (10%)
Query: 136 LIEGITVI-------AKLLSSRDRREKEDRIGESNESILDKICPGRESNLWPSASKVDEL 188
L+ +T++ AKL R+ R K RI ++ ++ SAS+
Sbjct: 87 LVNQVTIVERGKVRRAKLYYLRELRGKAARIKSDRSRVMKDAARAQQDKANASASQAAAA 146
Query: 189 PTKLT 193
+T
Sbjct: 147 QADVT 151
>3hnc_A Ribonucleoside-diphosphate reductase large subuni; oxidoreductase,
ribonucleotide reductase, allosteric enzyme, binding,
DNA replication; HET: TTP; 2.41A {Homo sapiens} PDB:
3hnd_A* 3hne_A* 3hnf_A*
Length = 792
Score = 26.4 bits (58), Expect = 8.6
Identities = 12/28 (42%), Positives = 13/28 (46%)
Query: 4 SYEPQELRDLIFCQIYQHQISAMEKLAK 31
S E Q L IF IY + A LAK
Sbjct: 521 SAEAQLLNKQIFETIYYGALEASCDLAK 548
>2o0b_A 3-phosphoshikimate 1-carboxyvinyltransferase; shikimate pathway,
EPSP synthase, structural genomics; HET: S3P; 1.15A
{Mycobacterium tuberculosis} PDB: 2o0d_A* 2o0e_A*
2o0x_A* 2o0z_A* 2o15_A 2bjb_A
Length = 450
Score = 26.0 bits (58), Expect = 9.5
Identities = 9/25 (36%), Positives = 15/25 (60%), Gaps = 1/25 (4%)
Query: 128 LLMASL-TSLIEGITVIAKLLSSRD 151
L++A+L + G + I+ L SRD
Sbjct: 30 LVLAALAAAQGRGASTISGALRSRD 54
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
0.319 0.135 0.416
Gapped
Lambda K H
0.267 0.0826 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,960,100
Number of extensions: 157089
Number of successful extensions: 274
Number of sequences better than 10.0: 1
Number of HSP's gapped: 274
Number of HSP's successfully gapped: 23
Length of query: 204
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 115
Effective length of database: 4,216,824
Effective search space: 484934760
Effective search space used: 484934760
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: 55 (24.8 bits)