RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1551
(190 letters)
>gnl|CDD|201589 pfam01084, Ribosomal_S18, Ribosomal protein S18.
Length = 54
Score = 43.6 bits (104), Expect = 1e-06
Identities = 19/45 (42%), Positives = 28/45 (62%), Gaps = 1/45 (2%)
Query: 127 NIKLLEQFISPVNGEILSYMKTGVCQKQHLKLLVAITQAKNKGLI 171
+++LL +FIS G+IL TG+C KQ KL AI +A+ L+
Sbjct: 11 DVELLRRFISE-RGKILPRRITGLCAKQQRKLAKAIKRARILALL 54
>gnl|CDD|177016 CHL00077, rps18, ribosomal protein S18.
Length = 86
Score = 38.4 bits (90), Expect = 2e-04
Identities = 21/51 (41%), Positives = 27/51 (52%), Gaps = 5/51 (9%)
Query: 127 NIKLLEQFISPVNGEILSYMKTGVCQKQHLKLLVAITQAKNKGLITFDLPF 177
N+ LL +FIS G+ILS T + KQ + AI QA+ L LPF
Sbjct: 32 NMSLLSRFISE-QGKILSRRVTRLTLKQQRLITKAIKQARILSL----LPF 77
>gnl|CDD|178997 PRK00391, rpsR, 30S ribosomal protein S18; Reviewed.
Length = 79
Score = 36.3 bits (85), Expect = 0.001
Identities = 21/65 (32%), Positives = 33/65 (50%), Gaps = 5/65 (7%)
Query: 113 CPICRDEYLIIHPYNIKLLEQFISPVNGEILSYMKTGVCQKQHLKLLVAITQAKNKGLIT 172
C C ++ I +++LL++FIS G+IL TG K +L AI +A+ L
Sbjct: 17 CRFCAEKIEYIDYKDVELLKKFISE-RGKILPRRITGTSAKHQRQLATAIKRARFLAL-- 73
Query: 173 FDLPF 177
LP+
Sbjct: 74 --LPY 76
>gnl|CDD|223316 COG0238, RpsR, Ribosomal protein S18 [Translation, ribosomal
structure and biogenesis].
Length = 75
Score = 35.7 bits (83), Expect = 0.001
Identities = 18/59 (30%), Positives = 29/59 (49%), Gaps = 1/59 (1%)
Query: 113 CPICRDEYLIIHPYNIKLLEQFISPVNGEILSYMKTGVCQKQHLKLLVAITQAKNKGLI 171
C + I +++LL++FIS G+IL TG K +L AI +A+ L+
Sbjct: 18 CRFTAEGIEEIDYKDVELLKRFISE-RGKILPRRITGTSAKHQRRLARAIKRARYLALL 75
>gnl|CDD|184031 PRK13401, PRK13401, 30S ribosomal protein S18; Provisional.
Length = 82
Score = 34.7 bits (80), Expect = 0.004
Identities = 17/82 (20%), Positives = 29/82 (35%), Gaps = 5/82 (6%)
Query: 103 RSGIIATGNPCPICRDEYLIIHPYNIKLLEQFISPVNGEILSYMKTGVCQKQHLKLLVAI 162
+ + + LL FIS G+I S TG+ +Q ++ AI
Sbjct: 6 ARKGPTKAKKNLLDSLGIESVDYKDTALLRTFISD-RGKIRSRRVTGLTVQQQRQVATAI 64
Query: 163 TQAKNKGLITFDLPFREYNYKD 184
A+ L LP+ + +
Sbjct: 65 KNAREMAL----LPYPGRDRQR 82
>gnl|CDD|232851 TIGR00165, S18, ribosomal protein S18. This ribosomal small
subunit protein is found in all eubacteria so far, as
well as in chloroplasts. YER050C from Saccharomyces
cerevisiae and a related protein from Caenorhabditis
elegans appear to be homologous and may represent
mitochondrial forms. The trusted cutoff is set high
enough that these two candidate S18 proteins are not
categorized automatically [Protein synthesis, Ribosomal
proteins: synthesis and modification].
Length = 70
Score = 32.4 bits (74), Expect = 0.024
Identities = 19/61 (31%), Positives = 30/61 (49%), Gaps = 1/61 (1%)
Query: 113 CPICRDEYLIIHPYNIKLLEQFISPVNGEILSYMKTGVCQKQHLKLLVAITQAKNKGLIT 172
C + I ++ LL++FIS G+IL TG K +L VAI +A+ L+
Sbjct: 8 CRFTAEGIQFIDYKDLDLLKKFISE-RGKILPRRITGTSAKYQRRLAVAIKRARYLALLP 66
Query: 173 F 173
+
Sbjct: 67 Y 67
>gnl|CDD|184783 PRK14662, acpS, 4'-phosphopantetheinyl transferase; Provisional.
Length = 120
Score = 29.8 bits (67), Expect = 0.46
Identities = 10/30 (33%), Positives = 19/30 (63%), Gaps = 1/30 (3%)
Query: 53 RRNPVPVEISIRYLASEAYQKCYGDEPVWK 82
+ +P P ++ R+ A EA+QKC+ + W+
Sbjct: 42 KADPAP-SLAARFAAKEAFQKCWPESHGWR 70
>gnl|CDD|234616 PRK00076, recR, recombination protein RecR; Reviewed.
Length = 196
Score = 29.7 bits (68), Expect = 0.58
Identities = 9/26 (34%), Positives = 12/26 (46%)
Query: 95 KKTRKTCIRSGIIATGNPCPICRDEY 120
K+ K C G + +PC IC D
Sbjct: 50 KEKIKHCSVCGNLTEQDPCEICSDPR 75
>gnl|CDD|202123 pfam02132, RecR, RecR protein.
Length = 41
Score = 27.5 bits (62), Expect = 0.58
Identities = 7/21 (33%), Positives = 10/21 (47%)
Query: 99 KTCIRSGIIATGNPCPICRDE 119
+ C G + +PC IC D
Sbjct: 18 RHCSVCGNLTETDPCEICSDP 38
>gnl|CDD|223430 COG0353, RecR, Recombinational DNA repair protein (RecF pathway)
[DNA replication, recombination, and repair].
Length = 198
Score = 29.5 bits (67), Expect = 0.79
Identities = 10/26 (38%), Positives = 13/26 (50%)
Query: 95 KKTRKTCIRSGIIATGNPCPICRDEY 120
K+ K C G + +PC IC DE
Sbjct: 51 KENIKHCSVCGNLTESDPCDICSDES 76
>gnl|CDD|232995 TIGR00487, IF-2, translation initiation factor IF-2. This model
discriminates eubacterial (and mitochondrial)
translation initiation factor 2 (IF-2), encoded by the
infB gene in bacteria, from similar proteins in the
Archaea and Eukaryotes. In the bacteria and in
organelles, the initiator tRNA is charged with
N-formyl-Met instead of Met. This translation factor
acts in delivering the initator tRNA to the ribosome. It
is one of a number of GTP-binding translation factors
recognized by the pfam model GTP_EFTU [Protein
synthesis, Translation factors].
Length = 587
Score = 29.3 bits (66), Expect = 1.1
Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 2/49 (4%)
Query: 102 IRSGIIATGNPCPICRDEYLIIHPYNIKLLEQFISPVNGEILSYMKTGV 150
+ G+I GNP + RD ++I I L++F V E+ + + G+
Sbjct: 514 VTEGVIKRGNPLRVIRDG-VVIFEGEIDSLKRFKDDVK-EVSNGYECGI 560
>gnl|CDD|184030 PRK13400, PRK13400, 30S ribosomal protein S18; Provisional.
Length = 147
Score = 28.1 bits (62), Expect = 2.0
Identities = 17/61 (27%), Positives = 28/61 (45%), Gaps = 1/61 (1%)
Query: 113 CPICRDEYLIIHPYNIKLLEQFISPVNGEILSYMKTGVCQKQHLKLLVAITQAKNKGLIT 172
C C ++ I + L ++IS G+I +TG C + L AI +A+ L+
Sbjct: 25 CSFCAEKVSRIDYKDSAKLARYISD-RGKIEPRRRTGTCARHQRALANAIKRARFIALMP 83
Query: 173 F 173
F
Sbjct: 84 F 84
>gnl|CDD|224684 COG1770, PtrB, Protease II [Amino acid transport and metabolism].
Length = 682
Score = 28.8 bits (65), Expect = 2.1
Identities = 15/69 (21%), Positives = 23/69 (33%), Gaps = 5/69 (7%)
Query: 6 TAPVIPESEVWDVWIPPQRQFSLSRICCEEEGT--EENKDEKPVDPAKDRRNPVPVEISI 63
APV + W IP + L + + E ++ P +DR+ E
Sbjct: 298 RAPVSADKSNWRELIPHREDVRLEGVDLFADHLVLLERQEGLPRVVVRDRKTG---EERG 354
Query: 64 RYLASEAYQ 72
EAY
Sbjct: 355 IAFDDEAYS 363
>gnl|CDD|181084 PRK07688, PRK07688, thiamine/molybdopterin biosynthesis
ThiF/MoeB-like protein; Validated.
Length = 339
Score = 28.0 bits (63), Expect = 3.4
Identities = 16/41 (39%), Positives = 22/41 (53%), Gaps = 5/41 (12%)
Query: 135 ISPVNGEILSYMKTGVCQKQHLKLLVAITQAKNKGLITFDL 175
ISP + SY T + LKLLV +A GL++FD+
Sbjct: 187 ISPAVQIVASYQVT-----EALKLLVGDYEALRDGLVSFDV 222
>gnl|CDD|222915 PHA02670, PHA02670, ORF112 putative chemokine-binding protein;
Provisional.
Length = 287
Score = 27.3 bits (60), Expect = 4.7
Identities = 13/29 (44%), Positives = 18/29 (62%), Gaps = 1/29 (3%)
Query: 36 EGTEENKDEKPVDPAKDR-RNPVPVEISI 63
+ T+E PVD + DR RNP PV+ S+
Sbjct: 196 DLTDEPTTTPPVDTSVDRKRNPDPVDFSL 224
>gnl|CDD|214394 CHL00200, trpA, tryptophan synthase alpha subunit; Provisional.
Length = 263
Score = 27.4 bits (61), Expect = 4.8
Identities = 13/26 (50%), Positives = 17/26 (65%)
Query: 157 KLLVAITQAKNKGLITFDLPFREYNY 182
K + I+QA KGLI DLP+ E +Y
Sbjct: 110 KFIKKISQAGVKGLIIPDLPYEESDY 135
>gnl|CDD|239323 cd03025, DsbA_FrnE_like, DsbA family, FrnE-like subfamily; composed
of uncharacterized proteins containing a CXXC motif with
similarity to DsbA and FrnE. FrnE is presumed to be a
thiol oxidoreductase involved in polyketide
biosynthesis, specifically in the production of the
aromatic antibiotics frenolicin and nanaomycins.
Length = 193
Score = 26.9 bits (60), Expect = 5.7
Identities = 13/65 (20%), Positives = 23/65 (35%), Gaps = 7/65 (10%)
Query: 74 CYGDEPVWKYYRRNHKGMFAPKKTRKTCIRSGIIATGNPCPICRDEYLIIHPY--NIKLL 131
CYG EP+ + + + G G++ N I + + +H + I L
Sbjct: 14 CYGFEPLLEKLKEEYGGGI-----EVELHLGGLLPGNNARQITKQWRIYVHWHKARIALT 68
Query: 132 EQFIS 136
Q
Sbjct: 69 GQPFG 73
>gnl|CDD|220475 pfam09930, DUF2162, Predicted transporter (DUF2162). Members of
this family of bacterial proteins are thought to be
membrane transporters, but their exact function has not,
as yet, been elucidated.
Length = 228
Score = 26.9 bits (60), Expect = 6.3
Identities = 10/30 (33%), Positives = 14/30 (46%), Gaps = 3/30 (10%)
Query: 90 GMFAPKK---TRKTCIRSGIIATGNPCPIC 116
G+F KK K + +A PCP+C
Sbjct: 82 GIFTIKKWKVHGKDVSKRTFLAMSAPCPVC 111
>gnl|CDD|201880 pfam01596, Methyltransf_3, O-methyltransferase. Members of this
family are O-methyltransferases. The family includes
catechol o-methyltransferase, caffeoyl-CoA
O-methyltransferase and a family of bacterial
O-methyltransferases that may be involved in antibiotic
production.
Length = 204
Score = 26.5 bits (59), Expect = 8.4
Identities = 8/25 (32%), Positives = 13/25 (52%)
Query: 143 LSYMKTGVCQKQHLKLLVAITQAKN 167
LS M+ + Q L +L+ + AK
Sbjct: 23 LSPMQISPEEGQFLSMLLKLIGAKR 47
>gnl|CDD|238982 cd02024, NRK1, Nicotinamide riboside kinase (NRK) is an enzyme
involved in the metabolism of nicotinamide adenine
dinucleotide (NAD+). This enzyme catalyzes the
phosphorylation of nicotinamide riboside (NR) to form
nicotinamide mononucleotide (NMN). It defines the NR
salvage pathway of NAD+ biosynthesis in addition to the
pathways through nicotinic acid mononucleotide (NaMN).
This enzyme can also phosphorylate the anticancer drug
tiazofurin, which is an analog of nicotinamide riboside.
Length = 187
Score = 26.1 bits (58), Expect = 9.7
Identities = 8/18 (44%), Positives = 10/18 (55%)
Query: 75 YGDEPVWKYYRRNHKGMF 92
Y D VW Y ++H MF
Sbjct: 167 YFDGHVWPMYLKHHAEMF 184
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.319 0.138 0.433
Gapped
Lambda K H
0.267 0.0721 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,828,879
Number of extensions: 883154
Number of successful extensions: 677
Number of sequences better than 10.0: 1
Number of HSP's gapped: 675
Number of HSP's successfully gapped: 28
Length of query: 190
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 99
Effective length of database: 6,901,388
Effective search space: 683237412
Effective search space used: 683237412
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: 56 (25.4 bits)