RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3055
(219 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 = 33.3 bits (75), Expect = 0.058
Identities = 39/207 (18%), Positives = 70/207 (33%), Gaps = 46/207 (22%)
Query: 23 IGEIIQELLVAHKECKDVNLNQMKTRISSKYGLDTSPRLVDIIAAVPAEAKKI--LLPKL 80
I + ++ V + +CKDV + K+ +S + +D I L L
Sbjct: 21 ILSVFEDAFVDNFDCKDV-QDMPKSILSKEE--------IDHIIMSKDAVSGTLRLFWTL 71
Query: 81 KAKPIRTASGIAVVAVMCKPHRCPHIN---MTGNICVYC--PGGPDSDF-EYSTQSYTGY 134
+K V V+ IN + I P + E + Y
Sbjct: 72 LSKQEEMVQ-KFVEEVL-------RINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDN 123
Query: 135 EPTSMRAIRARYNPYIQTRHRVEQLQQLGHSVDKEWEHVITTGNLAM-----NWMA-PTC 188
+ + + R PY++ R + L +L + ++V+ G + W+A C
Sbjct: 124 QVFAKYNVS-RLQPYLKLR---QALLEL-----RPAKNVLIDG---VLGSGKTWVALDVC 171
Query: 189 PSLWFQINLLSRTQW---KKCNQGEHL 212
S Q + + W K CN E +
Sbjct: 172 LSYKVQCKMDFKIFWLNLKNCNSPETV 198
Score = 26.7 bits (58), Expect = 7.0
Identities = 15/60 (25%), Positives = 23/60 (38%), Gaps = 4/60 (6%)
Query: 10 ISKLSIDERTVLTIGEIIQELLVAHKECKDVNLNQMKTRISS--KYGLDTSPRLVDIIAA 67
LS T +++ L E K + L + R + L T+PR + IIA
Sbjct: 278 TDFLSAATTTHISLDHHSMTL--TPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAE 335
>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 = 31.6 bits (71), Expect = 0.23
Identities = 36/209 (17%), Positives = 68/209 (32%), Gaps = 68/209 (32%)
Query: 23 IGEIIQELLVAHKE--CKDVNLN--QMKTRISSKYGLDTSPRLVDIIAAV-PAEAK--KI 75
IG +IQ +AH K + ++++ + + ++ AV AE +
Sbjct: 241 IG-VIQ---LAHYVVTAKLLGFTPGELRSYLKG-----ATGHSQGLVTAVAIAETDSWES 291
Query: 76 LLPKLKAKPIRTASGIAVVAVMCKPHRC----PHINMTGNICVYCPGGPDSDFEYSTQSY 131
K I I V RC P+ ++ P S E S ++
Sbjct: 292 FF-VSVRKAITVLFFIGV--------RCYEAYPNTSL-----------PPSILEDSLENN 331
Query: 132 TGYEPTSMRAIR----ARYNPYI-QTRHRVEQLQQL------GHSVDKEWEHVITTGNLA 180
G P+ M +I + Y+ +T + +Q+ G +++ +G
Sbjct: 332 EG-VPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAK------NLVVSGP-- 382
Query: 181 MNWMAPTCPSLW-FQINLLSRTQWKKCNQ 208
P SL+ + L +Q
Sbjct: 383 -----PQ--SLYGLNLTLRKAKAPSGLDQ 404
Score = 28.1 bits (62), Expect = 2.5
Identities = 28/155 (18%), Positives = 45/155 (29%), Gaps = 56/155 (36%)
Query: 9 PIS--KLSIDERTVLTIG--------EIIQELLVAHKECKDVNLNQMKTRI---SSKYGL 55
P S KL R L + +L+ +V+ N +I + G
Sbjct: 408 PFSERKLKFSNR-FLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGS 466
Query: 56 DT-------SPRLVDII--------AAVPAEAKKIL---------LPKLKAKPIRTASGI 91
D S R+VD I +A IL L L + + +G+
Sbjct: 467 DLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHR-NKDGTGV 525
Query: 92 AVVAVMCKPHRCPHINMTGNICVYCPGGPDSDFEY 126
V+ G + PD D+ +
Sbjct: 526 RVIVA-------------GTL----DINPDDDYGF 543
>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 = 30.3 bits (67), Expect = 0.31
Identities = 7/29 (24%), Positives = 14/29 (48%), Gaps = 5/29 (17%)
Query: 43 NQMKTRISSK---YGLDTSPRLVDIIAAV 68
+K ++ + Y D++P L I A +
Sbjct: 20 QALK-KLQASLKLYADDSAPALA-IKATM 46
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.4 bits (65), Expect = 0.76
Identities = 9/39 (23%), Positives = 13/39 (33%), Gaps = 2/39 (5%)
Query: 135 EPTSMRAIRARYNPYIQTRHRVE--QLQQLGHSVDKEWE 171
EP S+R R +Q Q+ K+ E
Sbjct: 83 EPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLE 121
>2i3d_A AGR_C_3351P, hypothetical protein ATU1826; structural genomics,
APC5865, hydrolase, PSI-2, protein STRU initiative; HET:
MSE; 1.50A {Agrobacterium tumefaciens str} SCOP:
c.69.1.36
Length = 249
Score = 28.3 bits (62), Expect = 1.8
Identities = 13/128 (10%), Positives = 31/128 (24%), Gaps = 4/128 (3%)
Query: 69 PAEAKKILLP----KLKAKPIRTASGIAVVAVMCKPHRCPHINMTGNICVYCPGGPDSDF 124
+++ +L+ + + A +A++ PH M I
Sbjct: 20 QGHMPEVIFNGPAGRLEGRYQPSKEKSAPIAIILHPHPQFGGTMNNQIVYQLFYLFQKRG 79
Query: 125 EYSTQSYTGYEPTSMRAIRARYNPYIQTRHRVEQLQQLGHSVDKEWEHVITTGNLAMNWM 184
+ + S ++ +Q L W + G +
Sbjct: 80 FTTLRFNFRSIGRSQGEFDHGAGELSDAASALDWVQSLHPDSKSCWVAGYSFGAWIGMQL 139
Query: 185 APTCPSLW 192
P +
Sbjct: 140 LMRRPEIE 147
>3a2q_A 6-aminohexanoate-cyclic-dimer hydrolase; alpha/beta fold, nylon
degradation; 1.80A {Arthrobacter SP} PDB: 3a2p_A
Length = 493
Score = 28.3 bits (64), Expect = 1.9
Identities = 9/41 (21%), Positives = 10/41 (24%), Gaps = 7/41 (17%)
Query: 126 YSTQSYTGYEPTSMRAIRARYNPYIQTRHRVEQLQQLGHSV 166
T + G A R L LGH V
Sbjct: 262 VLTHNPVGDFALDPECAAA-------ARGAAAALAALGHDV 295
>1u5h_A CITE; TIM barrel, structural genomics, PSI, protein structure
initiative, TB structural genomics consortium, TBSGC,
lyase; 1.65A {Mycobacterium tuberculosis} SCOP: c.1.12.5
PDB: 1u5v_A* 1z6k_A
Length = 273
Score = 27.9 bits (63), Expect = 2.3
Identities = 9/43 (20%), Positives = 17/43 (39%), Gaps = 1/43 (2%)
Query: 54 GLDTSPRLVDIIAAVPAEAKKILLPKL-KAKPIRTASGIAVVA 95
T+ + D+ A ++LPK A + + V+A
Sbjct: 67 AGGTADQARDLEALAGTAYTTVMLPKAESAAQVIELAPRDVIA 109
>3oyz_A Malate synthase; TIM barrel, transferase; HET: ACO; 1.95A
{Haloferax volcanii} PDB: 3oyx_A* 3pug_A
Length = 433
Score = 27.9 bits (62), Expect = 2.5
Identities = 3/26 (11%), Positives = 7/26 (26%)
Query: 54 GLDTSPRLVDIIAAVPAEAKKILLPK 79
G + D ++P+
Sbjct: 98 GFQHMLDITDPERGAVEHIHGFVIPE 123
>1toh_A Tyroh, tyrosine hydroxylase; neurotransmitter biosynthesis,
non-heme iron, P substrate; 2.30A {Rattus norvegicus}
SCOP: d.178.1.1 PDB: 2toh_A* 2xsn_A
Length = 343
Score = 26.2 bits (57), Expect = 8.4
Identities = 8/54 (14%), Positives = 15/54 (27%), Gaps = 3/54 (5%)
Query: 123 DFEYSTQSYTGYEPTSMRAIRARYNPYIQTRH---RVEQLQQLGHSVDKEWEHV 173
F + Y R +++PY +Q+ V E +
Sbjct: 282 SFNDAKDKLRNYASRIQRPFSVKFDPYTLAIDVLDSPHTIQRSLEGVQDELHTL 335
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 0.133 0.411
Gapped
Lambda K H
0.267 0.0614 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,317,801
Number of extensions: 186986
Number of successful extensions: 537
Number of sequences better than 10.0: 1
Number of HSP's gapped: 537
Number of HSP's successfully gapped: 13
Length of query: 219
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 129
Effective length of database: 4,188,903
Effective search space: 540368487
Effective search space used: 540368487
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 (25.2 bits)