RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 037036
(87 letters)
>3v2d_O 50S ribosomal protein L14; ribosome associated inhibitor A, RAIA,
protein Y, stress RES stationary phase, ribosome
hibernation, ribosome; 2.70A {Thermus thermophilus}
PDB: 2j03_O 2jl6_O 2jl8_O 2v47_O 2v49_O 2wdi_O 2wdj_O
2wdl_O 2wdn_O 2wh2_O 2wh4_O 2wrj_O 2wrl_O 2wro_O 2wrr_O
2x9s_O 2x9u_O 2xg0_O 2xg2_O 2xqe_O ...
Length = 122
Score = 38.1 bits (88), Expect = 5e-05
Identities = 22/74 (29%), Positives = 41/74 (55%), Gaps = 1/74 (1%)
Query: 1 ASNRRYAHILRNVFVVVIKKAIPKMPLEVSDVFTTLIVCTCTNLRRDNGIIIAYDDSTTA 60
SN +YA + +V V +K+AIP+ ++ DV ++V T ++R +G I +DD+
Sbjct: 27 GSNAKYATV-GDVIVASVKEAIPRGAVKEGDVVKAVVVRTKKEIKRPDGSAIRFDDNAAV 85
Query: 61 VIHQKEKFEGNSSF 74
+I+ + + G F
Sbjct: 86 IINNQLEPRGTRVF 99
>3bbo_M Ribosomal protein L14; large ribosomal subunit, spinach
chloroplast ribosome, ribonucleoprotein particle,
macromolecular complex; 9.40A {Spinacea oleracea}
Length = 121
Score = 36.9 bits (85), Expect = 1e-04
Identities = 36/70 (51%), Positives = 47/70 (67%), Gaps = 1/70 (1%)
Query: 2 SNRRYAHILRNVFVVVIKKAIPKMPLEVSDVFTTLIVCTCTNLRRDNGIIIAYDDSTTAV 61
SNRRYA I +V V VIK+AIP PLE S+V ++V TC L+RDNG+II YDD+ +
Sbjct: 28 SNRRYARI-GDVIVAVIKEAIPNTPLERSEVIRAVVVRTCKELKRDNGMIIRYDDNAAVI 86
Query: 62 IHQKEKFEGN 71
I Q+ +G
Sbjct: 87 IDQEGNPKGT 96
>1whi_A Ribosomal protein L14; rRNA-binding; 1.50A {Geobacillus
stearothermophilus} SCOP: b.39.1.1 PDB: 1giy_N 1ml5_n*
1c04_D 1yl3_N 2b66_O 2b9n_O 2b9p_O 487d_M
Length = 122
Score = 36.6 bits (84), Expect = 1e-04
Identities = 21/70 (30%), Positives = 35/70 (50%), Gaps = 1/70 (1%)
Query: 2 SNRRYAHILRNVFVVVIKKAIPKMPLEVSDVFTTLIVCTCTNLRRDNGIIIAYDDSTTAV 61
S RRYA+I +V V +K A P ++ V ++V T +RR +G I +D++ +
Sbjct: 28 SGRRYANI-GDVVVATVKDATPGGVVKKGQVVKAVVVRTKRGVRRPDGSYIRFDENACVI 86
Query: 62 IHQKEKFEGN 71
I + G
Sbjct: 87 IRDDKSPRGT 96
>3r8s_K 50S ribosomal protein L14; protein biosynthesis, RNA, tRNA,
transfer RNA, 23S ribosomal subunit, ribosome recycling
factor, RRF, ribosome; 3.00A {Escherichia coli} PDB:
3oat_K* 3oas_K* 3ofd_K 3ofc_K 3ofr_K* 3ofz_K* 3og0_K
3ofq_K 3r8t_K 3i1n_K 1p85_I 1p86_I 1vs8_K 1vs6_K 2aw4_K
2awb_K 1vt2_K 2i2v_K 2i2t_K* 2qao_K* ...
Length = 122
Score = 33.5 bits (76), Expect = 0.002
Identities = 19/66 (28%), Positives = 39/66 (59%), Gaps = 1/66 (1%)
Query: 2 SNRRYAHILRNVFVVVIKKAIPKMPLEVSDVFTTLIVCTCTNLRRDNGIIIAYDDSTTAV 61
S+RRYA + ++ + IK+AIP+ ++ DV ++V T +RR +G +I +D + +
Sbjct: 28 SHRRYAGV-GDIIKITIKEAIPRGKVKKGDVLKAVVVRTKKGVRRPDGSVIRFDGNACVL 86
Query: 62 IHQKEK 67
++ +
Sbjct: 87 LNNNSE 92
>3a5r_A Benzalacetone synthase; chalcone synthase, type III polyketide
synthase, transferase, acyltransferase; HET: HC4; 1.60A
{Rheum palmatum} PDB: 3a5q_A* 3a5s_A
Length = 387
Score = 30.7 bits (69), Expect = 0.038
Identities = 9/42 (21%), Positives = 15/42 (35%), Gaps = 1/42 (2%)
Query: 1 ASNRRYAHILRNVFVVVIKKAIPKMPLEVSDVFTTLIVCTCT 42
++ + + KAI + S + T LIVC
Sbjct: 89 VRHKMQVKGVAELGKEAALKAIKEWGQPKSKI-THLIVCCLA 129
>3awk_A Chalcone synthase-like polyketide synthase; type III polyketide
synthase, transferase; 2.00A {Huperzia serrata} PDB:
3awj_A
Length = 402
Score = 28.8 bits (64), Expect = 0.18
Identities = 6/42 (14%), Positives = 12/42 (28%), Gaps = 1/42 (2%)
Query: 1 ASNRRYAHILRNVFVVVIKKAIPKMPLEVSDVFTTLIVCTCT 42
+ + AI + S + T L+ T +
Sbjct: 106 PRQDIAVLEVPKLAKEAAISAIKQWGQPKSKI-THLVFATTS 146
>3oit_A OS07G0271500 protein; type III polyketide synthases, transferase;
2.00A {Oryza sativa} PDB: 3ale_A
Length = 387
Score = 28.3 bits (63), Expect = 0.24
Identities = 11/42 (26%), Positives = 18/42 (42%), Gaps = 1/42 (2%)
Query: 1 ASNRRYAHILRNVFVVVIKKAIPKMPLEVSDVFTTLIVCTCT 42
A A + + KKAI + +D+ T L+V T +
Sbjct: 87 ARLDIAADAVPELAAEAAKKAIAEWGRPAADI-THLVVTTNS 127
>3euo_A Type III pentaketide synthase; alpha helix, acyltransferase,
transferase; 1.75A {Neurospora crassa} PDB: 3eut_A*
3euq_A*
Length = 379
Score = 28.4 bits (63), Expect = 0.24
Identities = 8/42 (19%), Positives = 18/42 (42%), Gaps = 1/42 (2%)
Query: 1 ASNRRYAHILRNVFVVVIKKAIPKMPLEVSDVFTTLIVCTCT 42
+ + + V +KA+ + L + + T ++ TCT
Sbjct: 72 ELHEVFMSDGVPLAVEASRKAMAEARLVPAQI-THMVSTTCT 112
>3e1h_A PKSIIINC, putative uncharacterized protein; resorcinolic lipid
synthase, type III PKS, acyltransferase, transferase;
2.58A {Neurospora crassa}
Length = 465
Score = 28.6 bits (63), Expect = 0.25
Identities = 8/42 (19%), Positives = 18/42 (42%), Gaps = 1/42 (2%)
Query: 1 ASNRRYAHILRNVFVVVIKKAIPKMPLEVSDVFTTLIVCTCT 42
+ + + V +KA+ + L + + T ++ TCT
Sbjct: 101 ELHEVFMSDGVPLAVEASRKAMAEARLVPAQI-THMVSTTCT 141
>1i88_A CHS2, chalcone synthase 2; polyketide synthase, transferase; 1.45A
{Medicago sativa} SCOP: c.95.1.2 c.95.1.2 PDB: 1i89_A
1i86_A 1i8b_A 1bi5_A 1cml_A* 1d6f_A* 1chw_A* 1cgz_A*
1cgk_A* 1bq6_A* 1jwx_A 1d6i_A 1d6h_A* 1u0v_A 1u0w_A*
1z1e_A* 1z1f_A*
Length = 389
Score = 27.9 bits (62), Expect = 0.35
Identities = 10/40 (25%), Positives = 15/40 (37%), Gaps = 1/40 (2%)
Query: 3 NRRYAHILRNVFVVVIKKAIPKMPLEVSDVFTTLIVCTCT 42
+ + KAI + S + T LIVCT +
Sbjct: 95 QDMVVVEVPRLGKEAAVKAIKEWGQPKSKI-THLIVCTTS 133
>1xes_A Dihydropinosylvin synthase; native structure, transferase; HET:
3IO; 1.70A {Pinus sylvestris} PDB: 1xet_A* 1u0u_A
Length = 413
Score = 28.0 bits (62), Expect = 0.38
Identities = 11/45 (24%), Positives = 17/45 (37%), Gaps = 1/45 (2%)
Query: 1 ASNRRYAHILRNVFVVVIKKAIPKMPLEVSDVFTTLIVCTCTNLR 45
A A + + +KAI + S + T LI C+ T
Sbjct: 116 ARQAMLAMEVPRLAKEAAEKAIQEWGQSKSGI-THLIFCSTTTPD 159
>3v7i_A Putative polyketide synthase; type III polyketide synthase,
acyltransferase, transferase,; 2.90A {Streptomyces
coelicolor}
Length = 413
Score = 27.6 bits (61), Expect = 0.46
Identities = 8/42 (19%), Positives = 14/42 (33%), Gaps = 1/42 (2%)
Query: 3 NRRYAHILRNVFVVVIKKAIPKMPLEVSDVFTTLIVCTCTNL 44
++ + A+ L+V+DV LI T
Sbjct: 130 TAPAWEAVQAYGERAARGALQIAGLDVADV-DCLITSNSTTP 170
>1ted_A PKS18; thiolase fold, substrate binding tunnel, transferase; HET:
MYR; 2.25A {Mycobacterium tuberculosis} SCOP: c.95.1.2
PDB: 1tee_A
Length = 393
Score = 27.4 bits (61), Expect = 0.51
Identities = 7/26 (26%), Positives = 15/26 (57%), Gaps = 1/26 (3%)
Query: 17 VIKKAIPKMPLEVSDVFTTLIVCTCT 42
V K+A+ +P +++ L++ T T
Sbjct: 120 VSKRALAGLPYRAAEI-GLLVLATST 144
>1ee0_A 2-pyrone synthase; polyketide synthase, thiolase fold, transferase;
HET: CAA; 2.05A {Gerbera hybrid cultivar} SCOP: c.95.1.2
c.95.1.2 PDB: 1qlv_A
Length = 402
Score = 27.2 bits (60), Expect = 0.67
Identities = 10/42 (23%), Positives = 15/42 (35%), Gaps = 1/42 (2%)
Query: 3 NRRYAHILRNVFVVVIKKAIPKMPLEVSDVFTTLIVCTCTNL 44
+ + KAI + L S + T LI CT +
Sbjct: 100 QDLVVTGVPMLGKEAAVKAIDEWGLPKSKI-THLIFCTTAGV 140
>1u0m_A Putative polyketide synthase; type III polyketide synthase, PKS,
bacterial, thiolase fold, beta-alpha-beta-alpha fold,
catalytic triad; HET: 15P; 2.22A {Streptomyces
coelicolor} SCOP: c.95.1.2 c.95.1.2
Length = 382
Score = 26.9 bits (60), Expect = 0.84
Identities = 10/42 (23%), Positives = 20/42 (47%), Gaps = 1/42 (2%)
Query: 1 ASNRRYAHILRNVFVVVIKKAIPKMPLEVSDVFTTLIVCTCT 42
N+ Y ++ VI++A+ L +D+ +I +CT
Sbjct: 75 DRNKVYEREAKSRVPAVIQRALDDAELLATDI-DVIIYVSCT 115
>1xoc_A Oligopeptide-binding protein APPA; oligopeptide, APPA, transport,
transport protein; 1.55A {Bacillus subtilis} SCOP:
c.94.1.1
Length = 520
Score = 26.5 bits (59), Expect = 1.2
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 67 KFEGNSSFWCGRPEIDKVEF 86
K E N ++ GRP +D V +
Sbjct: 200 KLEANDDYFEGRPYLDTVTY 219
>3drf_A Oligopeptide-binding protein OPPA; oligo-peptide binding,
voluminous binding cavity, venus FLY- trap, peptide
binding protein; 1.30A {Lactococcus lactis} PDB: 3drg_A
3drh_A 3dri_A 3drj_A 3drk_A 3fto_A 3rya_A 3ryb_A
Length = 590
Score = 26.3 bits (58), Expect = 1.3
Identities = 4/23 (17%), Positives = 13/23 (56%)
Query: 64 QKEKFEGNSSFWCGRPEIDKVEF 86
+ K+ N +W +P+++ + +
Sbjct: 233 ESIKYVPNPYYWGEKPKLNSITY 255
>3ov2_A Curcumin synthase; type III polyketide synthase, transferase; 2.32A
{Curcuma longa} PDB: 3ov3_A
Length = 393
Score = 26.4 bits (58), Expect = 1.3
Identities = 7/42 (16%), Positives = 16/42 (38%), Gaps = 1/42 (2%)
Query: 1 ASNRRYAHILRNVFVVVIKKAIPKMPLEVSDVFTTLIVCTCT 42
+ + +KAI + S++ T L+ C+ +
Sbjct: 93 DRQDIVVEEIPRLAKEAAEKAIKEWGRPKSEI-THLVFCSIS 133
>2noo_A NIKA, nickel-binding periplasmic protein; nickel-bound, transport,
iodine, hydrolase; HET: TYI; 1.65A {Escherichia coli
K12} PDB: 3mvx_A* 3dp8_A* 3e3k_A* 1zlq_A* 3mvw_A*
3mvy_A* 3mvz_A* 3mw0_A* 3mz9_A* 1uiu_A 1uiv_A 3mzb_A*
3qim_A
Length = 502
Score = 26.2 bits (58), Expect = 1.6
Identities = 7/20 (35%), Positives = 11/20 (55%)
Query: 67 KFEGNSSFWCGRPEIDKVEF 86
F N ++W +P I K+ F
Sbjct: 177 VFVRNENYWGEKPAIKKITF 196
>2grv_A LPQW; substrate-binding protein scaffold, biosynthetic protein;
2.40A {Mycobacterium smegmatis str}
Length = 621
Score = 25.7 bits (56), Expect = 2.4
Identities = 6/19 (31%), Positives = 7/19 (36%)
Query: 68 FEGNSSFWCGRPEIDKVEF 86
N FW + D V F
Sbjct: 234 LARNDRFWSVPAKPDLVLF 252
>3tpa_A Heme-binding protein A; glutathione binding protein, SBP; 2.00A
{Haemophilus parasuis 29755}
Length = 521
Score = 25.4 bits (56), Expect = 2.5
Identities = 5/20 (25%), Positives = 13/20 (65%)
Query: 67 KFEGNSSFWCGRPEIDKVEF 86
++ N +W G+ +I+++ F
Sbjct: 204 RYTANVDYWKGKADIERLIF 223
>3rqt_A Putative uncharacterized protein; ligand binding component,
ABC-type import system, nickel, SI DI-peptides,
structural genomics; HET: MSE HIS EPE; 1.50A
{Staphylococcus aureus}
Length = 486
Score = 25.3 bits (56), Expect = 2.5
Identities = 4/20 (20%), Positives = 9/20 (45%)
Query: 67 KFEGNSSFWCGRPEIDKVEF 86
+W G+P++D +
Sbjct: 181 SLSNFKDYWQGKPKLDHITV 200
>3m8u_A Heme-binding protein A; glutathione binding protein, ABC-type
transport system, PERI component, transport protein;
HET: GDS; 1.85A {Haemophilus parasuis}
Length = 522
Score = 25.4 bits (56), Expect = 2.8
Identities = 5/20 (25%), Positives = 13/20 (65%)
Query: 67 KFEGNSSFWCGRPEIDKVEF 86
++ + +W G+ +ID++ F
Sbjct: 199 RYLAHKEYWKGKADIDRLIF 218
>3t66_A Nickel ABC transporter (nickel-binding protein); structural
genomics, PSI-biology, NEW YORK structural genomi
research consortium, nysgrc; 2.80A {Bacillus halodurans}
Length = 496
Score = 25.3 bits (56), Expect = 3.0
Identities = 5/20 (25%), Positives = 9/20 (45%)
Query: 67 KFEGNSSFWCGRPEIDKVEF 86
+ +W G ++D V F
Sbjct: 174 ELVRYDEYWDGASKLDSVTF 193
>3ry3_A Putative solute-binding protein; structural genomics, IDP00509,
center for structural genomic infectious diseases,
csgid, transport prote; 2.43A {Yersinia pestis}
Length = 528
Score = 25.0 bits (55), Expect = 3.3
Identities = 6/23 (26%), Positives = 11/23 (47%)
Query: 64 QKEKFEGNSSFWCGRPEIDKVEF 86
Q+ E N + + + DK+ F
Sbjct: 191 QQMIVEANPYYAGNKNDFDKLIF 213
>1dpe_A Dipeptide-binding protein; peptide transport, periplasmic,
chemotaxis binding proteins for active transport; 2.00A
{Escherichia coli K12} SCOP: c.94.1.1 PDB: 1dpp_A
Length = 507
Score = 25.0 bits (55), Expect = 4.3
Identities = 5/20 (25%), Positives = 12/20 (60%)
Query: 67 KFEGNSSFWCGRPEIDKVEF 86
+++ +W +P+ID + F
Sbjct: 197 RYKAFDGYWGTKPQIDTLVF 216
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 0.138 0.422
Gapped
Lambda K H
0.267 0.0582 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,355,558
Number of extensions: 66610
Number of successful extensions: 137
Number of sequences better than 10.0: 1
Number of HSP's gapped: 137
Number of HSP's successfully gapped: 26
Length of query: 87
Length of database: 6,701,793
Length adjustment: 55
Effective length of query: 32
Effective length of database: 5,166,138
Effective search space: 165316416
Effective search space used: 165316416
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 (23.7 bits)