RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15304
(96 letters)
>1fl0_A Endothelial-monocyte activating polypeptide II; RNA-binding domain,
OB-fold, tRNA synthetase complex, RNA binding protein;
1.50A {Homo sapiens} SCOP: b.40.4.4 PDB: 1e7z_A 1euj_A
Length = 171
Score = 130 bits (329), Expect = 1e-40
Identities = 51/96 (53%), Positives = 68/96 (70%), Gaps = 1/96 (1%)
Query: 1 MRGVTSEAMVMCASTPDKVEILAPPSAAKPGDLIQVEGYTRNPDPVLNPKKKIFETVAPD 60
MRGV S+AMVMCAS+P+K+EILAPP+ + PGD I + + PD LNPKKKI+E + PD
Sbjct: 69 MRGVLSQAMVMCASSPEKIEILAPPNGSVPGDRITFDAFPGEPDKELNPKKKIWEQIQPD 128
Query: 61 LKTNDSNQATYKGKVWTVENVEGFVTSQSLANVNIK 96
L TND ATYKG + V+ +G +Q+++N IK
Sbjct: 129 LHTNDECVATYKGVPFEVKG-KGVCRAQTMSNSGIK 163
>1ntg_A Tyrrs, tyrosyl-tRNA synthetase; beta barrel, ligase; 2.21A {Homo
sapiens} SCOP: b.40.4.4
Length = 172
Score = 114 bits (287), Expect = 3e-34
Identities = 37/99 (37%), Positives = 57/99 (57%), Gaps = 6/99 (6%)
Query: 1 MRGVTSEAMVMCASTPD---KVEILAPPSAAKPGDLIQVEGYTR-NPDPVLNPKKKIFET 56
MRGV S+ M++CAS +VE L PP+ + PG+ + V+GY + PD L PKKK+FE
Sbjct: 73 MRGVESQGMLLCASIEGINRQVEPLDPPAGSAPGEHVFVKGYEKGQPDEELKPKKKVFEK 132
Query: 57 VAPDLKTNDSNQATYKGKVWTVENVEGFVTSQSLANVNI 95
+ D K ++ A +K + + G ++ +SL NI
Sbjct: 133 LQADFKISEECIAQWKQTNFMTK--LGSISCKSLKGGNI 169
>1rqg_A Methionyl-tRNA synthetase; translation, dimerization, ligase; 2.90A
{Pyrococcus abyssi} SCOP: a.27.1.1 c.26.1.1 g.41.1.1
Length = 722
Score = 51.6 bits (124), Expect = 2e-09
Identities = 10/35 (28%), Positives = 20/35 (57%)
Query: 1 MRGVTSEAMVMCASTPDKVEILAPPSAAKPGDLIQ 35
+RG+ S+ M++ A ++V +L P K G ++
Sbjct: 688 LRGIGSQGMLLAADDGERVALLMPDKEVKLGAKVR 722
>1mkh_A Metrs;, C-terminal domain of methionyl-tRNA synthetase; beta
barrel, dimerization domain, ligase; 2.01A {Pyrococcus
abyssi} SCOP: b.40.4.4
Length = 107
Score = 48.3 bits (116), Expect = 4e-09
Identities = 10/34 (29%), Positives = 19/34 (55%)
Query: 1 MRGVTSEAMVMCASTPDKVEILAPPSAAKPGDLI 34
+RG+ S+ M++ A ++V +L P K G +
Sbjct: 73 LRGIGSQGMLLAADDGERVALLMPDKEVKLGAKV 106
>1pxf_A Hypothetical protein YGJH; oligonucleotide-oligosaccharide binding
fold, OB fold, beta- barrel; 1.87A {Escherichia coli}
SCOP: b.40.4.4 PDB: 3ers_X
Length = 111
Score = 45.3 bits (108), Expect = 8e-08
Identities = 14/36 (38%), Positives = 19/36 (52%), Gaps = 2/36 (5%)
Query: 1 MRGVTSEAMVMCASTPD--KVEILAPPSAAKPGDLI 34
MRG TSE M++CA T D + +L P G +
Sbjct: 74 MRGETSECMLLCAETDDGSESVLLTPERMMPAGVRV 109
>1pyb_A Methionyl-tRNA synthetase beta subunit; oligonucleotide,
oligosaccharide-binding fold, OB-fold, beta-barrel, RNA
binding protein; 2.50A {Aquifex aeolicus} SCOP: b.40.4.4
Length = 111
Score = 40.6 bits (96), Expect = 4e-06
Identities = 8/34 (23%), Positives = 18/34 (52%)
Query: 1 MRGVTSEAMVMCASTPDKVEILAPPSAAKPGDLI 34
+ G+ S+ M++ AS + + ++ P K G +
Sbjct: 77 IFGIESQGMILAASDGENLSVIVPDRDVKEGAKL 110
>2cwp_A Metrs related protein; structural GEN riken structural
genomics/proteomics initiative, RSGI; 2.10A {Pyrococcus
horikoshii}
Length = 112
Score = 37.2 bits (87), Expect = 1e-04
Identities = 11/35 (31%), Positives = 17/35 (48%), Gaps = 1/35 (2%)
Query: 1 MRGVTSEAMVMCASTPD-KVEILAPPSAAKPGDLI 34
GV S+ M++ A T D KV ++ P G +
Sbjct: 77 FSGVESQGMLILAETEDGKVYLIPVPEEVPVGARV 111
>1gd7_A CSAA protein; oligonucleotide-binding fold, functional dimer,
hydrophobic cavity, riken structural genomics/proteomics
initiative, RSGI; 2.00A {Thermus thermophilus} SCOP:
b.40.4.4
Length = 109
Score = 31.7 bits (73), Expect = 0.010
Identities = 9/35 (25%), Positives = 15/35 (42%), Gaps = 1/35 (2%)
Query: 1 MRGVTSEAMVMCASTPD-KVEILAPPSAAKPGDLI 34
+ G SE +V+ +V +LAP G +
Sbjct: 74 VAGFLSEVLVLGVPDEAGRVVLLAPDREVPLGGKV 108
>3g48_A Chaperone CSAA; structural genomics, niaid structural centers for
infectious diseases, center for structural GENO
infectious diseases; 1.50A {Bacillus anthracis}
Length = 112
Score = 31.0 bits (71), Expect = 0.023
Identities = 9/35 (25%), Positives = 13/35 (37%), Gaps = 1/35 (2%)
Query: 1 MRGVTSEAMVMCASTPD-KVEILAPPSAAKPGDLI 34
+ G SE +V+ V +L P G I
Sbjct: 77 VAGFKSEVLVLGGVPEAGDVVLLQPNMELPNGTKI 111
>2nzh_A Protein CSAA; beta barrel, oligonucleotide/oligosaccharide binding
fold, H chaperone; 1.90A {Bacillus subtilis} PDB: 2nzo_A
Length = 113
Score = 31.0 bits (71), Expect = 0.024
Identities = 9/35 (25%), Positives = 13/35 (37%), Gaps = 1/35 (2%)
Query: 1 MRGVTSEAMVMCASTPD-KVEILAPPSAAKPGDLI 34
+ G SE +V+ V +L P G I
Sbjct: 78 IAGFKSEVLVLGGIPGQGDVVLLQPDQPVPNGTKI 112
>2q2i_A AGR_C_4014P, secretion chaperone; beta barrel, OB fold, homodimer,
protein secretio; 1.55A {Agrobacterium tumefaciens str}
Length = 116
Score = 29.4 bits (67), Expect = 0.077
Identities = 4/35 (11%), Positives = 13/35 (37%), Gaps = 1/35 (2%)
Query: 1 MRGVTSEAMVMCASTPD-KVEILAPPSAAKPGDLI 34
+ SE + + + + + + A G+ +
Sbjct: 81 IGPFRSEVLTLGFADANGDIVLAAVERPVPNGEKM 115
>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 = 29.8 bits (66), Expect = 0.10
Identities = 9/91 (9%), Positives = 24/91 (26%), Gaps = 33/91 (36%)
Query: 38 GYTRNPDPVLNPKKKIFETVAPDLKTNDSNQATYKGK----------------------- 74
+P+ VL +K+ + P+ + + + K +
Sbjct: 190 KNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLV 249
Query: 75 ---VWTVENVEGF-------VTSQSLANVNI 95
V + F +T++ +
Sbjct: 250 LLNVQNAKAWNAFNLSCKILLTTRFKQVTDF 280
>2q2h_A AGR_C_4014P, secretion chaperone, phage-display derived peptid;
beta barrel, OB fold, homodimer, protein secretio; HET:
CIT; 1.65A {Agrobacterium tumefaciens str}
Length = 131
Score = 28.4 bits (64), Expect = 0.21
Identities = 4/35 (11%), Positives = 13/35 (37%), Gaps = 1/35 (2%)
Query: 1 MRGVTSEAMVMCASTPD-KVEILAPPSAAKPGDLI 34
+ SE + + + + + + A G+ +
Sbjct: 96 IGPFRSEVLTLGFADANGDIVLAAVERPVPNGEKM 130
>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA
replication, MCM complex, AAA+ Pro ATP-binding,
DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}
Length = 595
Score = 26.5 bits (59), Expect = 1.3
Identities = 8/32 (25%), Positives = 15/32 (46%), Gaps = 2/32 (6%)
Query: 28 AKPGDLIQVEG-YTRNPDPVLNPKKK-IFETV 57
A+PGD ++V G D + + +F+
Sbjct: 219 ARPGDRVKVTGILDIKQDSPVKRGSRAVFDIY 250
>2e8g_A Hypothetical protein PH0536;
oligonucleotide/oligosaccharide-binding fold,
alpha-helices bundle, structural genomics, NPPSFA; 1.70A
{Pyrococcus horikoshii}
Length = 241
Score = 25.4 bits (55), Expect = 3.4
Identities = 12/60 (20%), Positives = 15/60 (25%), Gaps = 20/60 (33%)
Query: 1 MRGVTSEAMVMCASTP-----DKVEILAPPSAAKPGDLIQVEGYTRNPDPVLNPKKKIFE 55
G+ SE M + K EI P P LN + E
Sbjct: 192 FFGIVSEGM-FLGAGEGVLKNVKGEIGGLPKGI--------------PLEALNETRNAVE 236
>2vl6_A SSO MCM N-TER, minichromosome maintenance protein MCM; helicase,
hydrolase, zinc-finger, ATP-binding, DNA-BIND ssDNA
binding; 2.8A {Sulfolobus solfataricus}
Length = 268
Score = 25.0 bits (55), Expect = 4.3
Identities = 8/32 (25%), Positives = 15/32 (46%), Gaps = 2/32 (6%)
Query: 28 AKPGDLIQVEG-YTRNPDPVLNPKKK-IFETV 57
A+PGD ++V G D + + +F+
Sbjct: 225 ARPGDRVKVTGILDIKQDSPVKRGSRAVFDIY 256
>2p31_A CL683, glutathione peroxidase 7; thioredoxin fold, NPGPX,
phospholipid hydroperoxidase, struc genomics,
structural genomics consortium, SGC; 2.00A {Homo
sapiens}
Length = 181
Score = 24.9 bits (55), Expect = 4.5
Identities = 7/32 (21%), Positives = 16/32 (50%)
Query: 50 KKKIFETVAPDLKTNDSNQATYKGKVWTVENV 81
++ ++ A +++ + Y+G V V NV
Sbjct: 26 EQDFYDFKAVNIRGKLVSLEKYRGSVSLVVNV 57
>2p5q_A Glutathione peroxidase 5; thioredoxin fold, oxidoreductase; 2.00A
{Populus trichocarpa x populusdeltoides} PDB: 2p5r_A
Length = 170
Score = 24.5 bits (54), Expect = 5.7
Identities = 12/41 (29%), Positives = 19/41 (46%), Gaps = 3/41 (7%)
Query: 51 KKIFETVAPDLKTNDSNQATYKGKVWTVENVE---GFVTSQ 88
+ + + D K ND + + +KGKV + NV G S
Sbjct: 10 ESVHDFTVKDAKENDVDLSIFKGKVLLIVNVASKCGMTNSN 50
>3c9u_A Thiamine monophosphate kinase; beta barrel, alpha-beta structure,
transferase; HET: TPP ADP; 1.48A {Aquifex aeolicus}
SCOP: d.79.4.1 d.139.1.1 PDB: 3c9r_A* 3c9t_A* 3c9s_A*
1vqv_A
Length = 342
Score = 24.5 bits (54), Expect = 6.2
Identities = 5/14 (35%), Positives = 7/14 (50%)
Query: 26 SAAKPGDLIQVEGY 39
A+ GD + V G
Sbjct: 179 DGARLGDSVFVSGT 192
>1gm5_A RECG; helicase, replication restart; HET: DNA ADP; 3.24A
{Thermotoga maritima} SCOP: a.24.21.1 b.40.4.9 c.37.1.19
c.37.1.19
Length = 780
Score = 24.5 bits (54), Expect = 6.4
Identities = 6/39 (15%), Positives = 13/39 (33%)
Query: 22 LAPPSAAKPGDLIQVEGYTRNPDPVLNPKKKIFETVAPD 60
+ + PG+ + +G + + I V D
Sbjct: 156 IFKLNDLLPGEKVTTQGKIVSVETKKFQNMNILTAVLSD 194
>3dwv_A Glutathione peroxidase-like protein; alpha beta, 3-layer(ABA)
sandwich, glutaredoxin fold, oxidoreductase; 1.41A
{Trypanosoma brucei} PDB: 2rm5_A 2rm6_A 3e0u_A
Length = 187
Score = 24.5 bits (54), Expect = 6.8
Identities = 10/46 (21%), Positives = 16/46 (34%)
Query: 36 VEGYTRNPDPVLNPKKKIFETVAPDLKTNDSNQATYKGKVWTVENV 81
G R+ ++ IF+ D N +KG + NV
Sbjct: 9 HHGSLRSSRKKMSAASSIFDFEVLDADHKPYNLVQHKGSPLLIYNV 54
>2gs3_A PHGPX, GPX-4, phospholipid hydroperoxide glutathione peroxidase;
GSHPX-4,phospholipid hydroperoxide; 1.90A {Homo
sapiens}
Length = 185
Score = 24.2 bits (53), Expect = 7.2
Identities = 11/41 (26%), Positives = 16/41 (39%), Gaps = 3/41 (7%)
Query: 51 KKIFETVAPDLKTNDSNQATYKGKVWTVENVE---GFVTSQ 88
+ + E A D+ + N Y+G V V NV G
Sbjct: 27 RSMHEFSAKDIDGHMVNLDKYRGFVCIVTNVASQGGKTEVN 67
>3kij_A Probable glutathione peroxidase 8; human PDI-peroxidase,
membrane, oxidoreductase, transmembrane; 1.80A {Homo
sapiens} PDB: 3cyn_A
Length = 180
Score = 24.2 bits (53), Expect = 8.4
Identities = 10/31 (32%), Positives = 12/31 (38%)
Query: 51 KKIFETVAPDLKTNDSNQATYKGKVWTVENV 81
+ D K + YKGKV V NV
Sbjct: 16 NSFYAFEVKDAKGRTVSLEKYKGKVSLVVNV 46
>3gt2_A Putative uncharacterized protein; P60 domain, antigen, unknown
function; HET: EDO; 1.75A {Mycobacterium avium subsp}
Length = 142
Score = 23.9 bits (52), Expect = 8.4
Identities = 6/11 (54%), Positives = 7/11 (63%)
Query: 24 PPSAAKPGDLI 34
P A+ GDLI
Sbjct: 86 LPQQARKGDLI 96
>3hrz_A Cobra venom factor; serine protease, glycosilated, multi-domain,
complement SYST convertase, complement alternate
pathway; HET: NAG P6G; 2.20A {Naja kaouthia} PDB:
3frp_A* 3hs0_A*
Length = 627
Score = 24.3 bits (51), Expect = 8.5
Identities = 13/66 (19%), Positives = 25/66 (37%)
Query: 2 RGVTSEAMVMCASTPDKVEILAPPSAAKPGDLIQVEGYTRNPDPVLNPKKKIFETVAPDL 61
VT ++ + ++P ++ P KPG ++ Y NPD + +
Sbjct: 306 MVVTEQSGIHIVASPYQIHFTKTPKYFKPGMPYELTVYVTNPDGSPAAHVPVVSEAFHSM 365
Query: 62 KTNDSN 67
T S+
Sbjct: 366 GTTLSD 371
>3mcq_A Thiamine-monophosphate kinase; structural genomics, joint center
for structural genomics, J protein structure initiative,
PSI-2; HET: MSE PGE PG4 1PE; 1.91A {Methylobacillus
flagellatus}
Length = 319
Score = 24.1 bits (53), Expect = 9.3
Identities = 6/14 (42%), Positives = 7/14 (50%)
Query: 26 SAAKPGDLIQVEGY 39
S A+ D I V G
Sbjct: 144 STARADDDIWVSGP 157
>3cmi_A Peroxiredoxin HYR1; thioredoxin-like fold, oxidoreductase,
peroxidase, redox-ACT center; 2.02A {Saccharomyces
cerevisiae}
Length = 171
Score = 24.1 bits (53), Expect = 9.5
Identities = 12/41 (29%), Positives = 16/41 (39%), Gaps = 4/41 (9%)
Query: 51 KKIFETVAPDLKTNDSNQATYKGKVWTVENVE---GFVTSQ 88
+ ++ D K KGKV + NV GF T Q
Sbjct: 10 SEFYKLAPVDKKGQPFPFDQLKGKVVLIVNVASKCGF-TPQ 49
>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 = 24.1 bits (51), Expect = 9.6
Identities = 7/26 (26%), Positives = 12/26 (46%), Gaps = 8/26 (30%)
Query: 18 KVE----ILAPPSAAKPGDLIQ--VE 37
K++ + A SA P I+ +E
Sbjct: 24 KLQASLKLYADDSA--PALAIKATME 47
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
0.310 0.127 0.362
Gapped
Lambda K H
0.267 0.0521 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,392,453
Number of extensions: 71031
Number of successful extensions: 136
Number of sequences better than 10.0: 1
Number of HSP's gapped: 132
Number of HSP's successfully gapped: 38
Length of query: 96
Length of database: 6,701,793
Length adjustment: 62
Effective length of query: 34
Effective length of database: 4,970,691
Effective search space: 169003494
Effective search space used: 169003494
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 51 (23.9 bits)