RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2165
(145 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 = 29.4 bits (65), Expect = 0.46
Identities = 21/160 (13%), Positives = 44/160 (27%), Gaps = 51/160 (31%)
Query: 26 LIGPFGEDDDDIELNWL---IDRHIKAAYMIVDEMHEEHPELLKDQYWDEVV-PKDLPYT 81
+I D NW D+ ++ + P + + V P
Sbjct: 332 IIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLE---PAEYRKMFDRLSVFPPSAHIP 388
Query: 82 ------------------LASECYRRS----EPKGSAEFY---------KVKEADSLYAN 110
+ ++ ++ S +PK S K++ +L+ +
Sbjct: 389 TILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRS 448
Query: 111 ITSR---RKSVAPDDVYADYE---IEWNIFREFQGEAYHI 144
I K+ DD+ Y +I +H+
Sbjct: 449 IVDHYNIPKTFDSDDLIPPYLDQYFYSHI-------GHHL 481
Score = 28.7 bits (63), Expect = 0.81
Identities = 16/119 (13%), Positives = 40/119 (33%), Gaps = 21/119 (17%)
Query: 21 KVAEVLIGPFGEDDD-----DIELNWLIDRHIK----------AAYMIVDEMHEEHPELL 65
+ V F ++ D D+ + L I + + E +
Sbjct: 20 DILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTL-LSKQEEM 78
Query: 66 KDQYWDEVVPKDLPYTLASECYRRSEPKGSAEFYKVKEADSLYANITSRRKSVAPDDVY 124
++ +EV+ + + ++ + +P Y +++ D LY + + A +V
Sbjct: 79 VQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMY-IEQRDRLYNDN----QVFAKYNVS 132
Score = 27.5 bits (60), Expect = 2.2
Identities = 22/128 (17%), Positives = 37/128 (28%), Gaps = 27/128 (21%)
Query: 12 QFCFYLGWLKVAEVLIGPFGEDDDDIELNWLIDRHIKAAYMIVDEMHEEHPELLKDQYWD 71
+ F + WL + + +E+ + I + + H + +L
Sbjct: 179 KMDFKIFWLNLKNC-----NSPETVLEMLQKLLYQIDPNWTSRSD-HSSNIKLRIHSIQA 232
Query: 72 EVVPKDLPYTLASECYRRS--------EPKGSAEF-YKVKEADSLYANITSRRKSVAPDD 122
E L L S+ Y K F K L +T+R K V D
Sbjct: 233 E-----LRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCK---IL---LTTRFKQVT-DF 280
Query: 123 VYADYEIE 130
+ A
Sbjct: 281 LSAATTTH 288
>1xl7_A COT, peroxisomal carnitine O-octanoyltransferase; selenomethionine,
hepes; HET: EPE; 2.00A {Mus musculus} SCOP: c.43.1.3
c.43.1.3 PDB: 1xl8_A* 1xmd_A* 1xmc_A*
Length = 612
Score = 27.1 bits (59), Expect = 2.7
Identities = 17/87 (19%), Positives = 26/87 (29%), Gaps = 9/87 (10%)
Query: 43 IDRHIKAAYMIVDEMHEEHPELLKDQYWDEVVPKD--------LPYTLASECYRRSEPKG 94
DRH+ +I E PEL +D + + Y G
Sbjct: 503 FDRHLLGLLLIAKEEGLPVPELFEDPLFSRSGGGGNFVLSTSLVGYLRVQGVVVPMVHNG 562
Query: 95 SAEFYKVKEADSLYANITSRRKSVAPD 121
FY +++ D +S R D
Sbjct: 563 YGFFYHIRD-DRFVVACSSWRSCPETD 588
>3ahc_A Phosphoketolase, xylulose 5-phosphate/fructose 6-phosphate phospho;
thiamine diphosphate-dependent enzyme, alpha-beta fold;
HET: TPP 2PE; 1.70A {Bifidobacterium breve} PDB: 3ahd_A*
3ahe_A* 3ahf_A* 3ahj_A* 3ahi_A* 3ahh_A* 3ahg_A* 3ai7_A*
Length = 845
Score = 27.0 bits (59), Expect = 2.8
Identities = 13/51 (25%), Positives = 20/51 (39%), Gaps = 5/51 (9%)
Query: 42 LIDRHIKAAYMIVDEM-----HEEHPELLKDQYWDEVVPKDLPYTLASECY 87
L IK + V ++ E + E L D+ + E+ D P A Y
Sbjct: 682 LNKMGIKFKVVNVVDLLKLQSRENNDEALTDEEFTELFTADKPVLFAYHSY 732
>1ea0_A Glutamate synthase [NADPH] large chain; oxidoreductase, iron sulphur
flavoprotein; HET: OMT FMN AKG; 3.0A {Azospirillum
brasilense} SCOP: b.80.4.1 c.1.4.1 d.153.1.1 PDB: 2vdc_A*
Length = 1479
Score = 26.7 bits (60), Expect = 3.6
Identities = 16/78 (20%), Positives = 27/78 (34%), Gaps = 13/78 (16%)
Query: 25 VLIGPFGEDDDDIELNWLIDRHIKA-----AYMIVDEMHEEHPELLKDQYWDEVVPKDLP 79
V+ + +L LI+ H+ A I+++ E + + VVPK+
Sbjct: 1410 VIFQRIEVGHYESQLKHLIEEHVTETQSRFAAEILNDWAREVTKFWQ------VVPKE-- 1461
Query: 80 YTLASECYRRSEPKGSAE 97
E SAE
Sbjct: 1462 MLNRLEVPVHLPKAISAE 1479
>1g7s_A Translation initiation factor IF2/EIF5B; translational GTPase; HET:
GDP; 2.00A {Methanothermobacterthermautotrophicus} SCOP:
b.43.3.1 b.43.3.1 c.20.1.1 c.37.1.8 PDB: 1g7r_A* 1g7t_A*
Length = 594
Score = 26.5 bits (59), Expect = 3.6
Identities = 7/39 (17%), Positives = 19/39 (48%)
Query: 40 NWLIDRHIKAAYMIVDEMHEEHPELLKDQYWDEVVPKDL 78
+ + + I + ++ E H +LK+Q ++ ++L
Sbjct: 533 DAVYGKTIHEGDTLYVDIPENHYHILKEQLSGDLTDEEL 571
>3gvp_A Adenosylhomocysteinase 3; protein CO-factor complex, hydrolase,
NAD, one-carbon metabolism, phosphoprotein; HET: NAD;
2.25A {Homo sapiens} PDB: 3mtg_A*
Length = 435
Score = 26.4 bits (59), Expect = 3.9
Identities = 12/48 (25%), Positives = 23/48 (47%), Gaps = 13/48 (27%)
Query: 31 GEDDDDIELNWLIDRHIKA----AYMIVDE-------MHEEHPELLKD 67
GE +D + W IDR + MI+D+ +++++P + K
Sbjct: 111 GESED--DFWWCIDRCVNVEGWQPNMILDDGGDLTHWIYKKYPNMFKK 156
>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 = 26.1 bits (56), Expect = 4.5
Identities = 7/31 (22%), Positives = 11/31 (35%), Gaps = 4/31 (12%)
Query: 103 EADSLYANITSRRKSVAPDDVYA---DYEIE 130
E +L + + K A D A +E
Sbjct: 18 EKQAL-KKLQASLKLYADDSAPALAIKATME 47
>3h9u_A Adenosylhomocysteinase; NAD CO-factor complex, structural genomics,
SGC stockholm, S genomics consortium, SGC, hydrolase,
NAD; HET: NAD ADN PG4; 1.90A {Trypanosoma brucei} PDB:
3g1u_A* 1b3r_A* 1k0u_A* 1ky4_A* 2h5l_A* 1xwf_A* 1d4f_A*
1ky5_A* 3nj4_A* 1li4_A* 1a7a_A*
Length = 436
Score = 26.1 bits (58), Expect = 4.6
Identities = 10/50 (20%), Positives = 20/50 (40%), Gaps = 15/50 (30%)
Query: 31 GEDDDDIELNWLIDRHIKAAY------MIVDE-------MHEEHPELLKD 67
GE ++ E W + + +K M++D+ + +E EL
Sbjct: 100 GETEE--EYMWCMKQTLKGFSGDGYPNMLLDDGGDLTNYVLDECKELDGK 147
>2ikb_A Hypothetical protein NMB1012; structural genomics, PSI-2, MCSG,
PR structure initiative; 1.70A {Neisseria meningitidis}
SCOP: d.2.1.9 PDB: 2is5_A*
Length = 167
Score = 25.8 bits (56), Expect = 5.6
Identities = 9/52 (17%), Positives = 19/52 (36%), Gaps = 4/52 (7%)
Query: 40 NWLIDRHIKAAYMIVDEM----HEEHPELLKDQYWDEVVPKDLPYTLASECY 87
NW I + A M E+ + + +W+ +P +A + +
Sbjct: 31 NWGITKRTAQANGYNGSMRAMTREQAISIYRKAFWERYRADQMPEAVAFQFF 82
>1e0g_A Membrane-bound lytic murein transglycosylase D; cell WALL,
hydrolase, glycosidase, lipoprotein, outer membrane,
multigene family; NMR {Escherichia coli} SCOP: d.7.1.1
Length = 48
Score = 23.6 bits (52), Expect = 7.3
Identities = 12/34 (35%), Positives = 19/34 (55%), Gaps = 7/34 (20%)
Query: 99 YKVKEADSLYANITSRRKSVAPDDVYADYEIEWN 132
Y+V++ DSL + I ++R V DV + WN
Sbjct: 5 YRVRKGDSLSS-I-AKRHGVNIKDV-----MRWN 31
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 0.141 0.443
Gapped
Lambda K H
0.267 0.0723 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,449,001
Number of extensions: 141119
Number of successful extensions: 322
Number of sequences better than 10.0: 1
Number of HSP's gapped: 321
Number of HSP's successfully gapped: 23
Length of query: 145
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 60
Effective length of database: 4,328,508
Effective search space: 259710480
Effective search space used: 259710480
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: 52 (23.8 bits)