RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 030918
(169 letters)
>gnl|CDD|201105 pfam00238, Ribosomal_L14, Ribosomal protein L14p/L23e.
Length = 122
Score = 171 bits (437), Expect = 4e-56
Identities = 72/117 (61%), Positives = 85/117 (72%), Gaps = 2/117 (1%)
Query: 51 IQMRTVLKVVDNSGAKTVMCIQPLKG--RKVARLGDTIVASVKEAMPTGKVKKGQVVHAV 108
IQ+ T L V DNSGAK V CI+ L G +K A++GD IV SVK+A+P GKVKKG VV AV
Sbjct: 2 IQVGTRLNVADNSGAKKVKCIKVLGGSRKKYAKVGDIIVVSVKKAIPKGKVKKGDVVKAV 61
Query: 109 VVRAAMQHGRFDGSEVRFDDNAVVLVNKAGEPTGTRVFGPVPHELRRKKHVSILTLA 165
+VR + R DGS +RFDDNAVVL+N GEP GTR+FGPV ELR KK IL+LA
Sbjct: 62 IVRTKKEVRRKDGSYIRFDDNAVVLINNKGEPKGTRIFGPVARELRAKKFPKILSLA 118
>gnl|CDD|180117 PRK05483, rplN, 50S ribosomal protein L14; Validated.
Length = 122
Score = 171 bits (436), Expect = 6e-56
Identities = 73/117 (62%), Positives = 83/117 (70%), Gaps = 2/117 (1%)
Query: 51 IQMRTVLKVVDNSGAKTVMCIQPLKG--RKVARLGDTIVASVKEAMPTGKVKKGQVVHAV 108
IQ T L V DNSGAK VMCI+ L G R+ A +GD IV SVKEA+P GKVKKG VV AV
Sbjct: 2 IQQETRLNVADNSGAKEVMCIKVLGGSKRRYASIGDVIVVSVKEAIPRGKVKKGDVVKAV 61
Query: 109 VVRAAMQHGRFDGSEVRFDDNAVVLVNKAGEPTGTRVFGPVPHELRRKKHVSILTLA 165
VVR R DGS +RFDDNA VL+N GEP GTR+FGPV ELR KK + I++LA
Sbjct: 62 VVRTKKGVRRPDGSYIRFDDNAAVLLNNDGEPRGTRIFGPVARELRDKKFMKIVSLA 118
>gnl|CDD|223171 COG0093, RplN, Ribosomal protein L14 [Translation, ribosomal
structure and biogenesis].
Length = 122
Score = 155 bits (395), Expect = 1e-49
Identities = 67/117 (57%), Positives = 83/117 (70%), Gaps = 2/117 (1%)
Query: 51 IQMRTVLKVVDNSGAKTVMCIQPLKG--RKVARLGDTIVASVKEAMPTGKVKKGQVVHAV 108
IQ++T L V DNSGAK VMCI+ L G R+ A +GD IV SVK+A+P G VKKG VV AV
Sbjct: 2 IQVQTRLNVADNSGAKEVMCIKVLGGSRRRYAGVGDIIVVSVKKAIPRGMVKKGDVVKAV 61
Query: 109 VVRAAMQHGRFDGSEVRFDDNAVVLVNKAGEPTGTRVFGPVPHELRRKKHVSILTLA 165
VVR + R DGS ++FDDNA V++N GEP GTR+FGPV ELR + + I +LA
Sbjct: 62 VVRTKKEVRRPDGSYIKFDDNAAVIINPDGEPRGTRIFGPVARELRERGFMKIASLA 118
>gnl|CDD|130139 TIGR01067, rplN_bact, ribosomal protein L14, bacterial/organelle.
This model distinguishes bacterial and most organellar
examples of ribosomal protein L14 from all archaeal and
eukaryotic forms [Protein synthesis, Ribosomal proteins:
synthesis and modification].
Length = 122
Score = 149 bits (379), Expect = 2e-47
Identities = 67/118 (56%), Positives = 81/118 (68%), Gaps = 2/118 (1%)
Query: 51 IQMRTVLKVVDNSGAKTVMCIQPLKG--RKVARLGDTIVASVKEAMPTGKVKKGQVVHAV 108
IQ ++ L V DNSGAK V CI+ L G R+ A +GD IV VK+A+P GKVKKG VV AV
Sbjct: 2 IQQQSRLNVADNSGAKKVQCIKVLGGSRRRYATVGDVIVVVVKDAIPNGKVKKGDVVKAV 61
Query: 109 VVRAAMQHGRFDGSEVRFDDNAVVLVNKAGEPTGTRVFGPVPHELRRKKHVSILTLAE 166
+VR R DGS +RFDDNA VL+NK EP GTR+FGPV ELR K + I++LA
Sbjct: 62 IVRTKKGVRRKDGSYIRFDDNACVLINKNKEPRGTRIFGPVARELRDKGFMKIVSLAP 119
>gnl|CDD|176997 CHL00057, rpl14, ribosomal protein L14.
Length = 122
Score = 144 bits (366), Expect = 2e-45
Identities = 58/117 (49%), Positives = 79/117 (67%), Gaps = 2/117 (1%)
Query: 51 IQMRTVLKVVDNSGAKTVMCIQPLKG--RKVARLGDTIVASVKEAMPTGKVKKGQVVHAV 108
IQ +T L V DNSGA+ +MCI+ L RK A +GD I+A VKEA+P +K+ +VV AV
Sbjct: 2 IQPQTYLNVADNSGARKLMCIRVLGASNRKYAHIGDVIIAVVKEAVPNMPLKRSEVVRAV 61
Query: 109 VVRAAMQHGRFDGSEVRFDDNAVVLVNKAGEPTGTRVFGPVPHELRRKKHVSILTLA 165
+VR + R +G +RFDDNA V++++ G P GTRVFGP+ ELR K I++LA
Sbjct: 62 IVRTCKELKRDNGMIIRFDDNAAVVIDQEGNPKGTRVFGPIARELREKNFTKIVSLA 118
>gnl|CDD|181478 PRK08571, rpl14p, 50S ribosomal protein L14P; Reviewed.
Length = 132
Score = 86.5 bits (215), Expect = 2e-22
Identities = 45/108 (41%), Positives = 62/108 (57%), Gaps = 9/108 (8%)
Query: 51 IQMRTVLKVVDNSGAKTVMCIQ--PLKGRK----VARLGDTIVASVKEAMPTGKVKKGQV 104
+ + L DN+GAK V I KG K A +GD +V SVK+ P +++K QV
Sbjct: 12 LPVGARLVCADNTGAKEVEIISVKGYKGVKRRLPKAGVGDMVVVSVKKGTP--EMRK-QV 68
Query: 105 VHAVVVRAAMQHGRFDGSEVRFDDNAVVLVNKAGEPTGTRVFGPVPHE 152
+ AVVVR ++ R DG+ V+F+DNA V+V G P GT + GPV E
Sbjct: 69 LRAVVVRQRKEYRRPDGTRVKFEDNAAVIVTPEGTPKGTEIKGPVARE 116
>gnl|CDD|132712 TIGR03673, rpl14p_arch, 50S ribosomal protein L14P. Part of the
50S ribosomal subunit. Forms a cluster with proteins L3
and L24e, part of which may contact the 16S rRNA in 2
intersubunit bridges.
Length = 131
Score = 84.7 bits (210), Expect = 1e-21
Identities = 46/108 (42%), Positives = 62/108 (57%), Gaps = 9/108 (8%)
Query: 51 IQMRTVLKVVDNSGAKTVMCI--QPLKGRK----VARLGDTIVASVKEAMPTGKVKKGQV 104
+ + +L DN+GAK V I + KG K A +GD +V SVK+ P + QV
Sbjct: 11 LPVGALLVCADNTGAKEVEVISVKGYKGVKRRLPCAGVGDMVVVSVKKGTPE---MRKQV 67
Query: 105 VHAVVVRAAMQHGRFDGSEVRFDDNAVVLVNKAGEPTGTRVFGPVPHE 152
AVVVR ++ R DG+ V+F+DNAVV+V GEP GT + GPV E
Sbjct: 68 FKAVVVRQRKEYRRPDGTRVKFEDNAVVIVTPDGEPKGTEIKGPVARE 115
>gnl|CDD|185418 PTZ00054, PTZ00054, 60S ribosomal protein L23; Provisional.
Length = 139
Score = 60.5 bits (147), Expect = 3e-12
Identities = 39/103 (37%), Positives = 59/103 (57%), Gaps = 9/103 (8%)
Query: 56 VLKVVDNSGAKT--VMCIQPLKGR----KVARLGDTIVASVKEAMPTGKVKKGQVVHAVV 109
V+ DNSGAK ++ ++ + GR A LGD ++A+VK+ P + K V++AV+
Sbjct: 24 VVNCADNSGAKNLYIIAVKGIHGRLNRLPSASLGDMVLATVKKGKPELRKK---VLNAVI 80
Query: 110 VRAAMQHGRFDGSEVRFDDNAVVLVNKAGEPTGTRVFGPVPHE 152
+R R DG + F+DNA V+VN GE G+ + GPV E
Sbjct: 81 IRQRKAWRRKDGVFIYFEDNAGVIVNPKGEMKGSAITGPVAKE 123
>gnl|CDD|140341 PTZ00320, PTZ00320, ribosomal protein L14; Provisional.
Length = 188
Score = 33.1 bits (75), Expect = 0.035
Identities = 19/68 (27%), Positives = 30/68 (44%)
Query: 98 KVKKGQVVHAVVVRAAMQHGRFDGSEVRFDDNAVVLVNKAGEPTGTRVFGPVPHELRRKK 157
+VK G + ++ + R G + FD N +L+N P GTRV + K
Sbjct: 117 RVKPGNIYWVCLLSRRQTNTRMSGLQTNFDRNTCILMNDQRVPLGTRVMYCAGRHVNHKY 176
Query: 158 HVSILTLA 165
H+ + LA
Sbjct: 177 HLKAVVLA 184
>gnl|CDD|232937 TIGR00358, 3_prime_RNase, VacB and RNase II family 3'-5'
exoribonucleases. This model is defined to identify a
pair of paralogous 3-prime exoribonucleases in E. coli,
plus the set of proteins apparently orthologous to one
or the other in other eubacteria. VacB was characterized
originally as required for the expression of virulence
genes, but is now recognized as the exoribonuclease
RNase R (Rnr). Its paralog in E. coli and H. influenzae
is designated exoribonuclease II (Rnb). Both are
involved in the degradation of mRNA, and consequently
have strong pleiotropic effects that may be difficult to
disentangle. Both these proteins share domain-level
similarity (RNB, S1) with a considerable number of other
proteins, and full-length similarity scoring below the
trusted cutoff to proteins associated with various
phenotypes but uncertain biochemistry; it may be that
these latter proteins are also 3-prime exoribonucleases
[Transcription, Degradation of RNA].
Length = 654
Score = 28.1 bits (63), Expect = 2.2
Identities = 11/66 (16%), Positives = 22/66 (33%), Gaps = 7/66 (10%)
Query: 40 GNFLSQQQRTFIQMRTVLKVVDNSGAKTVMCIQPLKGRKVARLGDTIVASVKEAMPTGKV 99
G FL + F+ V D+ + + + GD +V + E +
Sbjct: 87 GKFLGENDFGFV-------VPDDPRIYLDIIVPKASVKNELAEGDKVVVELTEYPLRRNL 139
Query: 100 KKGQVV 105
G++
Sbjct: 140 FYGEIT 145
>gnl|CDD|203838 pfam08013, Tagatose_6_P_K, Tagatose 6 phosphate kinase. Proteins
in this family are tagatose 6 phosphate kinases.
Length = 423
Score = 26.8 bits (60), Expect = 6.5
Identities = 7/19 (36%), Positives = 11/19 (57%)
Query: 106 HAVVVRAAMQHGRFDGSEV 124
H +V+ AA++ GS V
Sbjct: 25 HPLVLEAALRQALATGSPV 43
>gnl|CDD|171440 PRK12365, PRK12365, ribonucleotide-diphosphate reductase subunit
alpha; Provisional.
Length = 1046
Score = 26.8 bits (59), Expect = 6.7
Identities = 18/70 (25%), Positives = 31/70 (44%), Gaps = 12/70 (17%)
Query: 4 SLASKWSRVILVGRSLLGGLGNNLSGLSSTSHEMASGNFLSQQQRTFIQMRTVLKVVDNS 63
++ SKW+ GG+GN+ + + +T + N SQ FI++ V N
Sbjct: 477 AMLSKWA----------GGIGNDWTAVRATGALIKGTNGKSQGVIPFIKVANDTAVAVNQ 526
Query: 64 GAKT--VMCI 71
G K +C+
Sbjct: 527 GGKRKGAVCV 536
>gnl|CDD|235251 PRK04196, PRK04196, V-type ATP synthase subunit B; Provisional.
Length = 460
Score = 26.7 bits (60), Expect = 8.0
Identities = 14/42 (33%), Positives = 20/42 (47%), Gaps = 10/42 (23%)
Query: 128 DNAVVLVNKAGEPTGTRVFGPVPHELRRKKHVSILTLAEHLA 169
+ +VV +N A +P R+ P R LT AE+LA
Sbjct: 204 ERSVVFLNLADDPAIERILTP-----R-----MALTAAEYLA 235
>gnl|CDD|225709 COG3168, PilP, Tfp pilus assembly protein PilP [Cell motility and
secretion / Intracellular trafficking and secretion].
Length = 170
Score = 25.9 bits (57), Expect = 8.6
Identities = 17/54 (31%), Positives = 25/54 (46%), Gaps = 8/54 (14%)
Query: 97 GKVKKGQVVHAVV--------VRAAMQHGRFDGSEVRFDDNAVVLVNKAGEPTG 142
G +K GQ V A++ VR G+ G VR D+++VL + TG
Sbjct: 102 GTLKSGQGVSALIEAPGGVYRVRVGQYLGQNYGRVVRITDDSIVLNELVPDGTG 155
>gnl|CDD|132260 TIGR03216, OH_muco_semi_DH, 2-hydroxymuconic semialdehyde
dehydrogenase. Members of this protein family are
2-hydroxymuconic semialdehyde dehydrogenase. Many
aromatic compounds are catabolized by way of the
catechol, via the meta-cleavage pathway, to pyruvate and
acetyl-CoA. This enzyme performs the second of seven
steps in that pathway for catechol degradation [Energy
metabolism, Other].
Length = 481
Score = 26.2 bits (58), Expect = 9.3
Identities = 26/87 (29%), Positives = 35/87 (40%), Gaps = 16/87 (18%)
Query: 63 SGAKTVMCIQPLKGRKVARLGDTIVASVKEAM---------PTGKVKKGQVVHAVVVRAA 113
KT I P+ GR +AR+ + A V A+ P GK+ V RA
Sbjct: 11 ESGKTFANINPVDGRVIARVHEAGAAEVDAAVAAARAALKGPWGKM-------TVAERAD 63
Query: 114 MQHGRFDGSEVRFDDNAVVLVNKAGEP 140
+ + D E RFDD V G+P
Sbjct: 64 LLYAVADEIERRFDDFLAAEVADTGKP 90
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 0.132 0.369
Gapped
Lambda K H
0.267 0.0710 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,346,794
Number of extensions: 752682
Number of successful extensions: 741
Number of sequences better than 10.0: 1
Number of HSP's gapped: 729
Number of HSP's successfully gapped: 36
Length of query: 169
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 79
Effective length of database: 6,945,742
Effective search space: 548713618
Effective search space used: 548713618
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 (25.0 bits)