RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5569
(110 letters)
>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 = 47.6 bits (112), Expect = 4e-08
Identities = 9/29 (31%), Positives = 15/29 (51%), Gaps = 7/29 (24%)
Query: 22 EQNQLAGLEDELQ-------PAVAVNATI 43
E+ L L+ L+ PA+A+ AT+
Sbjct: 18 EKQALKKLQASLKLYADDSAPALAIKATM 46
>3lvh_D LCB, clathrin light chain B; SELF assembly, coated PIT,
cytoplasmic vesicle, membrane, Ca structural protein;
9.00A {Bos taurus}
Length = 205
Score = 43.4 bits (101), Expect = 2e-06
Identities = 11/41 (26%), Positives = 21/41 (51%), Gaps = 5/41 (12%)
Query: 2 DAFGDNFDDN-----VDPAAEFLAREQNQLAGLEDELQPAV 37
F + DPAA FLA++++++AG+E++
Sbjct: 6 GFFSSSESGAPEAAEEDPAAAFLAQQESEIAGIENDEGFGA 46
>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 = 35.6 bits (81), Expect = 0.001
Identities = 30/137 (21%), Positives = 46/137 (33%), Gaps = 42/137 (30%)
Query: 1 MDAFGDNFD--DNVDPAAEFLAREQNQLAGLEDELQPAVAVNATINGMTNSLLFL----- 53
DAF DNFD D D L++E+ ++ + AV+ T+ LF
Sbjct: 26 EDAFVDNFDCKDVQDMPKSILSKEE-----IDHIIMSKDAVSGTL------RLFWTLLSK 74
Query: 54 --NAEKQFVAEVDDIEPGTEWERIAKLC--------DFNPKVGRTNKD--------VSR- 94
++FV EV I I + + R D VSR
Sbjct: 75 QEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRL 134
Query: 95 -----MRSIILQLKQTP 106
+R +L+L+
Sbjct: 135 QPYLKLRQALLELRPAK 151
>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 = 28.1 bits (62), Expect = 0.60
Identities = 18/103 (17%), Positives = 34/103 (33%), Gaps = 33/103 (32%)
Query: 5 GDNFDDNVDPAAEFL----AREQNQ-------LAGLEDELQ-------PAVAVNATINGM 46
++F +V A L R + LED L+ P +++ + +
Sbjct: 289 WESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSI----SNL 344
Query: 47 TNSLLFLNAEKQFVAEVDDIEPGTEWERIAKLCDFNPKVGRTN 89
T + +V + + P + I+ L N G N
Sbjct: 345 TQEQVQ-----DYVNKTNSHLPAGKQVEIS-L--VN---GAKN 376
>2jjq_A Uncharacterized RNA methyltransferase pyrab10780; metal-binding,
tRNA methyltransferase, S-adenosyl-L-methionine, iron,
4Fe-4S, iron-sulfur; HET: SAH; 1.8A {Pyrococcus abyssi}
PDB: 2vs1_A*
Length = 425
Score = 25.9 bits (58), Expect = 3.1
Identities = 9/50 (18%), Positives = 18/50 (36%), Gaps = 4/50 (8%)
Query: 18 FLAREQNQLAGLEDELQPAVA---VNATINGMTNSLLFLNAEKQFVAEVD 64
+LA+ + G + + A+ N IN + + + V D
Sbjct: 307 YLAKRGFNVKGFD-SNEFAIEMARRNVEINNVDAEFEVASDREVSVKGFD 355
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 25.5 bits (55), Expect = 4.0
Identities = 4/12 (33%), Positives = 6/12 (50%)
Query: 54 NAEKQFVAEVDD 65
A+K F + D
Sbjct: 140 IADKAFYQQPDA 151
>2kn9_A Rubredoxin; metalloprotein, ssgcid, structural genomics, seattle
structural genomics center for infectious electron
transport, iron; NMR {Mycobacterium tuberculosis}
Length = 81
Score = 24.7 bits (54), Expect = 4.6
Identities = 6/12 (50%), Positives = 7/12 (58%)
Query: 64 DDIEPGTEWERI 75
D I GT W+ I
Sbjct: 46 DGIAAGTRWDDI 57
>2v3b_B Rubredoxin 2, rubredoxin; alkane degradation, iron-sulfur
protein, oxidoreductase, ELE transfer, electron
transport, FAD, NAD, iron; HET: FAD; 2.45A {Pseudomonas
aeruginosa}
Length = 55
Score = 24.1 bits (53), Expect = 4.9
Identities = 6/12 (50%), Positives = 7/12 (58%)
Query: 64 DDIEPGTEWERI 75
+ I GT WE I
Sbjct: 22 EGIPAGTRWEDI 33
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 25.0 bits (54), Expect = 5.0
Identities = 4/16 (25%), Positives = 7/16 (43%), Gaps = 1/16 (6%)
Query: 59 FVAEVDDIEPGTEWER 74
V ++ +EW R
Sbjct: 50 LVLSDKLVDTRSEW-R 64
>1e8j_A Rubredoxin; iron-sulfur-protein, zinc-substitution,
thermostability; NMR {Desulfovibrio gigas} SCOP:
g.41.5.1 PDB: 1rdg_A 2dsx_A 1spw_A
Length = 52
Score = 23.7 bits (52), Expect = 5.5
Identities = 5/12 (41%), Positives = 9/12 (75%)
Query: 64 DDIEPGTEWERI 75
I+PGT++E +
Sbjct: 22 SGIKPGTKFEDL 33
>1yk4_A Rubredoxin, RD; electron transport; 0.69A {Pyrococcus abyssi}
PDB: 2pya_A 1yk5_A 1bq8_A 1bq9_A* 3kyu_A 3kyv_A 3kyw_A
3kyx_A 3kyy_A 3ryg_A 3rz6_A 3rzt_A 3ss2_A 1brf_A 1caa_A
1cad_A 1vcx_A 1zrp_A 1iu5_A 1iu6_A ...
Length = 52
Score = 23.7 bits (52), Expect = 6.0
Identities = 5/12 (41%), Positives = 9/12 (75%)
Query: 64 DDIEPGTEWERI 75
+ I PGT++E +
Sbjct: 21 NGISPGTKFEDL 32
>4rxn_A Rubredoxin; electron transfer(iron-sulfur protein); 1.20A
{Clostridium pasteurianum} SCOP: g.41.5.1 PDB: 5rxn_A
1bfy_A 1fhh_A 1fhm_A 1irn_A 1iro_A 1r0f_A 1r0g_A 1r0h_A
1r0i_A 1r0j_A 1t9q_A 1c09_A 1b2j_A 1b13_A 1smm_A 1smu_A
1smw_A 1be7_A 1t9o_A ...
Length = 54
Score = 23.7 bits (52), Expect = 6.0
Identities = 5/12 (41%), Positives = 9/12 (75%)
Query: 64 DDIEPGTEWERI 75
D + PGT+++ I
Sbjct: 22 DGVNPGTDFKDI 33
>1d1q_A Tyrosine phosphatase (E.C.3.1.3.48); beta-alpha-beta, hydrolase;
HET: 4NP; 1.70A {Saccharomyces cerevisiae} SCOP:
c.44.1.1 PDB: 1d2a_A* 1d1p_A*
Length = 161
Score = 24.4 bits (54), Expect = 7.5
Identities = 5/33 (15%), Positives = 12/33 (36%)
Query: 60 VAEVDDIEPGTEWERIAKLCDFNPKVGRTNKDV 92
+ + I+P ++ D+N G +
Sbjct: 99 INNLKKIQPEGSKAKVCLFGDWNTNDGTVQTII 131
>1s24_A Rubredoxin 2; electron transport; NMR {Pseudomonas oleovorans}
SCOP: g.41.5.1
Length = 87
Score = 24.0 bits (52), Expect = 9.0
Identities = 5/12 (41%), Positives = 7/12 (58%)
Query: 64 DDIEPGTEWERI 75
+ PGT +E I
Sbjct: 54 EGFTPGTRFEDI 65
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
0.315 0.133 0.378
Gapped
Lambda K H
0.267 0.0799 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,676,537
Number of extensions: 88649
Number of successful extensions: 210
Number of sequences better than 10.0: 1
Number of HSP's gapped: 209
Number of HSP's successfully gapped: 19
Length of query: 110
Length of database: 6,701,793
Length adjustment: 74
Effective length of query: 36
Effective length of database: 4,635,639
Effective search space: 166883004
Effective search space used: 166883004
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 (21.6 bits)
S2: 51 (23.3 bits)