RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17380
(107 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 = 34.6 bits (79), Expect = 0.003
Identities = 21/99 (21%), Positives = 35/99 (35%), Gaps = 21/99 (21%)
Query: 9 ITLGEG---LTLLLPYIISTRHSWASCKLR-VFA--LANRKEELEF--EQRNIASLLAKF 60
+TL G LL+P + AS +L+ F L E E A L+ KF
Sbjct: 9 LTLSHGSLEHVLLVP---TASFFIAS-QLQEQFNKILPEPTEGFAADDEPTTPAELVGKF 64
Query: 61 RIDYADLIIITTITRRPHEETVEFYNHLVRPYLAKDEEA 99
+ Y ++ V ++ ++ L + E
Sbjct: 65 -LGY--------VSSLVEPSKVGQFDQVLNLCLTEFENC 94
>3u4q_B ATP-dependent helicase/deoxyribonuclease subunit; helicase,
nuclease, double strand DNA repair, protein-DNA CO
hydrolase-DNA complex; HET: DNA; 2.80A {Bacillus
subtilis} PDB: 3u44_B*
Length = 1166
Score = 28.2 bits (62), Expect = 0.62
Identities = 14/39 (35%), Positives = 20/39 (51%)
Query: 33 KLRVFALANRKEELEFEQRNIASLLAKFRIDYADLIIIT 71
L V ANR+ ELE R I +L+ + Y D+ I+
Sbjct: 311 ALTVMQAANRRAELEGIAREIHALVREKGYRYKDVAILA 349
>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 = 26.0 bits (57), Expect = 3.1
Identities = 7/29 (24%), Positives = 15/29 (51%), Gaps = 2/29 (6%)
Query: 68 IIITTITRRPHEETVEFYNHLVRPYLAKD 96
+++TT R ++ ++Y + Y AK
Sbjct: 504 VVVTT--SRFSKQVTDYYQSIYAKYGAKG 530
>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 = 25.6 bits (55), Expect = 4.0
Identities = 14/84 (16%), Positives = 26/84 (30%), Gaps = 19/84 (22%)
Query: 22 IISTRHSWASCKLRVFALANRKEELE-----FEQRNIASLLAKF-RIDYADL-------- 67
+++TR + A L+ + SLL K+ DL
Sbjct: 269 LLTTRF--KQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTN 326
Query: 68 -IIITTITR--RPHEETVEFYNHL 88
++ I R T + + H+
Sbjct: 327 PRRLSIIAESIRDGLATWDNWKHV 350
>3nem_A Aspartyl-tRNA synthetase; rossmann fold, OB fold, ligase; HET: AMO
ATP; 1.89A {Thermococcus kodakarensis} PDB: 3nel_A*
3nen_A 1b8a_A*
Length = 438
Score = 25.2 bits (56), Expect = 4.4
Identities = 6/33 (18%), Positives = 12/33 (36%), Gaps = 1/33 (3%)
Query: 39 LANRKEELEFEQRNIASLLAKF-RIDYADLIII 70
+ +EL+ + F R+ Y + I
Sbjct: 259 REHNAKELDILNFELEEPKLPFPRVSYDKALEI 291
>3lut_A Voltage-gated potassium channel subunit beta-2; voltage gating,
potassium channel, KV1.2, gating charges, no analysis,
ION transport; HET: NAP; 2.90A {Rattus norvegicus}
Length = 367
Score = 24.9 bits (55), Expect = 5.7
Identities = 12/46 (26%), Positives = 20/46 (43%), Gaps = 12/46 (26%)
Query: 53 IASL---LAKFRIDYADLIII-----TTITRRPHEETVEFYNHLVR 90
I L L + +++Y D++ T P EETV H++
Sbjct: 137 IEGLKASLERLQLEYVDVVFANRPDPNT----PMEETVRAMTHVIN 178
>1qht_A Protein (DNA polymerase); archaea, hyperthermostable, family B
polymer alpha family polymerase, transferase; 2.10A
{Thermococcus SP} SCOP: c.55.3.5 e.8.1.1 PDB: 1tgo_A
2xhb_A* 2vwj_A* 2vwk_A* 1wns_A* 1wn7_A 1qqc_A* 4ahc_A*
4ail_C* 3a2f_A* 2jgu_A* 1d5a_A
Length = 775
Score = 25.1 bits (55), Expect = 5.8
Identities = 7/45 (15%), Positives = 15/45 (33%), Gaps = 1/45 (2%)
Query: 35 RVFALANRKEELEFEQRNIASLLAKFRIDYADLIIITTITRRPHE 79
+ + +E + + L + L+I ITR +
Sbjct: 629 AILKHGDVEEAVRIVKEVTEKLSKY-EVPPEKLVIHEQITRDLRD 672
>3eau_A Voltage-gated potassium channel subunit beta-2; kvbeta, cortisone,
NADPH, cytoplasm, ION transport, ionic channel, NADP,
phosphoprotein; HET: NDP PDN; 1.82A {Rattus norvegicus}
SCOP: c.1.7.1 PDB: 2r9r_A* 2a79_A* 3lnm_A* 1exb_A*
3eb4_A* 3eb3_A* 1qrq_A* 1zsx_A*
Length = 327
Score = 24.8 bits (55), Expect = 6.3
Identities = 12/46 (26%), Positives = 20/46 (43%), Gaps = 12/46 (26%)
Query: 53 IASL---LAKFRIDYADLIII-----TTITRRPHEETVEFYNHLVR 90
I L L + +++Y D++ T P EETV H++
Sbjct: 103 IEGLKASLERLQLEYVDVVFANRPDPNT----PMEETVRAMTHVIN 144
>1n9w_A Aspartyl-tRNA synthetase 2; biosynthetic protein; 2.30A {Thermus
thermophilus} SCOP: b.40.4.1 d.104.1.1 PDB: 3kfu_A*
Length = 422
Score = 24.8 bits (55), Expect = 7.3
Identities = 5/31 (16%), Positives = 10/31 (32%), Gaps = 1/31 (3%)
Query: 39 LANRKEELEFEQRNIASLLAKF-RIDYADLI 68
L +E+ S R+ +A+
Sbjct: 246 LNTAGDEIRLLGATWPSFPQDIPRLTHAEAK 276
>1w94_A MIL, probable BRIX-domain ribosomal biogenesis protein; archaeal
IMP4-BRIX domain, IMP4 domain; 2.0A
{Methanothermobacter thermautotrophicusorganism_taxid}
SCOP: c.51.1.2
Length = 156
Score = 24.2 bits (52), Expect = 8.4
Identities = 8/23 (34%), Positives = 14/23 (60%), Gaps = 1/23 (4%)
Query: 68 IIITTITRRPHEETVEFYNHLVR 90
+++TT +R+P + T F L R
Sbjct: 2 MLLTT-SRKPSQRTRSFSQRLSR 23
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
0.325 0.139 0.406
Gapped
Lambda K H
0.267 0.0519 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,641,914
Number of extensions: 87759
Number of successful extensions: 247
Number of sequences better than 10.0: 1
Number of HSP's gapped: 247
Number of HSP's successfully gapped: 19
Length of query: 107
Length of database: 6,701,793
Length adjustment: 72
Effective length of query: 35
Effective length of database: 4,691,481
Effective search space: 164201835
Effective search space used: 164201835
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (23.9 bits)