RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5120
(138 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 = 37.5 bits (86), Expect = 8e-04
Identities = 11/63 (17%), Positives = 22/63 (34%), Gaps = 11/63 (17%)
Query: 19 QYSTNQIALNKTQRNEERDKKRHMSHKFSLTPTGEFKWAGPVHGPRNVLVNTLRATLLQL 78
+ Q ++ E+RD+ + + F+ + R LR LL+L
Sbjct: 99 KTEQRQPSMMTRMYIEQRDRLYNDNQVFA-----------KYNVSRLQPYLKLRQALLEL 147
Query: 79 ESS 81
+
Sbjct: 148 RPA 150
>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 = 31.1 bits (69), Expect = 0.067
Identities = 7/41 (17%), Positives = 17/41 (41%), Gaps = 17/41 (41%)
Query: 72 RATLLQLESSI---IP--AFMHVNWPSLRKPWISAVNTSVK 107
+ L +L++S+ A P+L A+ +++
Sbjct: 19 KQALKKLQASLKLYADDSA------PAL------AIKATME 47
>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 = 29.2 bits (65), Expect = 0.43
Identities = 13/86 (15%), Positives = 25/86 (29%), Gaps = 29/86 (33%)
Query: 36 RDKKRHMSHKF--------S--LTPT----------GEFKWAG-----PVHGPRNVLVNT 70
++K S++F S L P + PV+ + +
Sbjct: 410 SERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDG--SD 467
Query: 71 LRATLLQLESSIIPAF--MHVNWPSL 94
LR + I+ + V W +
Sbjct: 468 LRVLSGSISERIVDCIIRLPVKWETT 493
>2z5b_B DMP2, uncharacterized protein YLR021W; proteasome, chaperone; 1.96A
{Saccharomyces cerevisiae} PDB: 2z5c_B
Length = 179
Score = 27.1 bits (59), Expect = 1.8
Identities = 10/29 (34%), Positives = 14/29 (48%), Gaps = 1/29 (3%)
Query: 95 RKPWISAVNTSVKARDFARAMIVLQACIK 123
K W + S DF + + VL+ CIK
Sbjct: 147 SKIWRATKEQSADDNDFGKLVFVLK-CIK 174
>3pe8_A Enoyl-COA hydratase; emerald biostructures, structural genomics,
seattle structur genomics center for infectious disease,
ssgcid, lyase; 1.60A {Mycobacterium smegmatis} PDB:
3p85_A* 3qyr_A
Length = 256
Score = 26.4 bits (59), Expect = 3.5
Identities = 7/14 (50%), Positives = 9/14 (64%)
Query: 90 NWPSLRKPWISAVN 103
WP + KP I A+N
Sbjct: 87 KWPDMTKPVIGAIN 100
>1l6j_A Matrix metalloproteinase-9; twisted beta sheet flanked by
helices, hydrolase; 2.50A {Homo sapiens} SCOP: a.20.1.2
d.92.1.11 g.14.1.2 g.14.1.2 g.14.1.2
Length = 425
Score = 26.4 bits (57), Expect = 4.2
Identities = 9/41 (21%), Positives = 17/41 (41%)
Query: 14 KSYLNQYSTNQIALNKTQRNEERDKKRHMSHKFSLTPTGEF 54
+ YL +Y ++A + + + + SL TGE
Sbjct: 27 EEYLYRYGYTRVAEMRGESKSLGPALLLLQKQLSLPETGEL 67
>3ntt_A Capsid protein; gene therapy vector, cystic fibros sialic acid
receptor, icosahedral virus; 3.45A {Adeno-associated
virus - 5}
Length = 724
Score = 26.0 bits (56), Expect = 5.9
Identities = 10/60 (16%), Positives = 22/60 (36%), Gaps = 3/60 (5%)
Query: 1 MPLQSAFLMTTGFKSYLNQYSTNQIALNKTQRNEERDKKRH---MSHKFSLTPTGEFKWA 57
+P S++ QYST Q+ + ++ + KR + + + +A
Sbjct: 643 VPGNITSFSDVPVSSFITQYSTGQVTVEMEWELKKENSKRWNPEIQYTNNYNDPQFVDFA 702
>3ng9_A Capsid protein; beta barrel, single-stranded DNA V parvovirus,
icosahedral virus; HET: ADE; 2.50A {Adeno-associated
virus - 1} PDB: 3kic_A* 3kie_A* 3oah_A* 1vu0_U 1vu1_o
3tsx_A 3shm_A 1lp3_A 2qa0_A 3ra2_A 3ra4_A* 3ra8_A*
3ra9_A* 3raa_A* 3ux1_A
Length = 736
Score = 26.0 bits (56), Expect = 6.3
Identities = 10/32 (31%), Positives = 18/32 (56%)
Query: 10 TTGFKSYLNQYSTNQIALNKTQRNEERDKKRH 41
T F S++ QYST Q+++ ++ + KR
Sbjct: 664 ATKFASFITQYSTGQVSVEIEWELQKENSKRW 695
>2bb3_A Cobalamin biosynthesis precorrin-6Y methylase (CB; beta,
alpha-beta-alpha sandwich, structural genomics, PSI, P
structure initiative; HET: SAH; 2.27A {Archaeoglobus
fulgidus} SCOP: c.90.1.1
Length = 221
Score = 25.5 bits (56), Expect = 7.3
Identities = 14/65 (21%), Positives = 20/65 (30%), Gaps = 2/65 (3%)
Query: 67 LVNTLRATLLQLESSIIPAFMHVNWPS--LRKPWISAVNTSVKARDFARAMIVLQACIKP 124
L LR +E I PA V L+ A+DF + L
Sbjct: 104 LGRVLREIAEDVEIKIEPAISSVQVALARLKVDLSEVAVVDCHAKDFDAELTELLKYRHL 163
Query: 125 VVFAS 129
++ A
Sbjct: 164 LILAD 168
>2np9_A DPGC; protein inhibitor complex, oxidoreductase; HET: YE1; 2.45A
{Streptomyces toyocaensis} PDB: 2pg8_A*
Length = 440
Score = 25.6 bits (56), Expect = 7.4
Identities = 6/12 (50%), Positives = 10/12 (83%)
Query: 92 PSLRKPWISAVN 103
P + KPW++AV+
Sbjct: 281 PRIEKPWVAAVD 292
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 0.130 0.403
Gapped
Lambda K H
0.267 0.0779 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,924,088
Number of extensions: 94728
Number of successful extensions: 206
Number of sequences better than 10.0: 1
Number of HSP's gapped: 205
Number of HSP's successfully gapped: 15
Length of query: 138
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 54
Effective length of database: 4,356,429
Effective search space: 235247166
Effective search space used: 235247166
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 (22.0 bits)
S2: 52 (23.7 bits)