RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 031097
(166 letters)
>gnl|CDD|201105 pfam00238, Ribosomal_L14, Ribosomal protein L14p/L23e.
Length = 122
Score = 173 bits (440), Expect = 1e-56
Identities = 72/117 (61%), Positives = 85/117 (72%), Gaps = 2/117 (1%)
Query: 48 IQMRTVLKVVDNSGAKTVMCIQPLKG--RKVARLGDTIVASVKEAMPTGKVKKGQVVHAV 105
IQ+ T L V DNSGAK V CI+ L G +K A++GD IV SVK+A+P GKVKKG VV AV
Sbjct: 2 IQVGTRLNVADNSGAKKVKCIKVLGGSRKKYAKVGDIIVVSVKKAIPKGKVKKGDVVKAV 61
Query: 106 VVRAAMQHGRFDGSEVRFDDNAVVLVNKAGEPTGTRVFGPVPHELRRKKHVSILTLA 162
+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 = 172 bits (438), Expect = 3e-56
Identities = 73/117 (62%), Positives = 83/117 (70%), Gaps = 2/117 (1%)
Query: 48 IQMRTVLKVVDNSGAKTVMCIQPLKG--RKVARLGDTIVASVKEAMPTGKVKKGQVVHAV 105
IQ T L V DNSGAK VMCI+ L G R+ A +GD IV SVKEA+P GKVKKG VV AV
Sbjct: 2 IQQETRLNVADNSGAKEVMCIKVLGGSKRRYASIGDVIVVSVKEAIPRGKVKKGDVVKAV 61
Query: 106 VVRAAMQHGRFDGSEVRFDDNAVVLVNKAGEPTGTRVFGPVPHELRRKKHVSILTLA 162
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 = 156 bits (397), Expect = 5e-50
Identities = 67/117 (57%), Positives = 83/117 (70%), Gaps = 2/117 (1%)
Query: 48 IQMRTVLKVVDNSGAKTVMCIQPLKG--RKVARLGDTIVASVKEAMPTGKVKKGQVVHAV 105
IQ++T L V DNSGAK VMCI+ L G R+ A +GD IV SVK+A+P G VKKG VV AV
Sbjct: 2 IQVQTRLNVADNSGAKEVMCIKVLGGSRRRYAGVGDIIVVSVKKAIPRGMVKKGDVVKAV 61
Query: 106 VVRAAMQHGRFDGSEVRFDDNAVVLVNKAGEPTGTRVFGPVPHELRRKKHVSILTLA 162
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 = 150 bits (381), Expect = 1e-47
Identities = 67/118 (56%), Positives = 81/118 (68%), Gaps = 2/118 (1%)
Query: 48 IQMRTVLKVVDNSGAKTVMCIQPLKG--RKVARLGDTIVASVKEAMPTGKVKKGQVVHAV 105
IQ ++ L V DNSGAK V CI+ L G R+ A +GD IV VK+A+P GKVKKG VV AV
Sbjct: 2 IQQQSRLNVADNSGAKKVQCIKVLGGSRRRYATVGDVIVVVVKDAIPNGKVKKGDVVKAV 61
Query: 106 VVRAAMQHGRFDGSEVRFDDNAVVLVNKAGEPTGTRVFGPVPHELRRKKHVSILTLAE 163
+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 = 145 bits (368), Expect = 1e-45
Identities = 58/117 (49%), Positives = 79/117 (67%), Gaps = 2/117 (1%)
Query: 48 IQMRTVLKVVDNSGAKTVMCIQPLKG--RKVARLGDTIVASVKEAMPTGKVKKGQVVHAV 105
IQ +T L V DNSGA+ +MCI+ L RK A +GD I+A VKEA+P +K+ +VV AV
Sbjct: 2 IQPQTYLNVADNSGARKLMCIRVLGASNRKYAHIGDVIIAVVKEAVPNMPLKRSEVVRAV 61
Query: 106 VVRAAMQHGRFDGSEVRFDDNAVVLVNKAGEPTGTRVFGPVPHELRRKKHVSILTLA 162
+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 = 86.9 bits (216), Expect = 1e-22
Identities = 45/108 (41%), Positives = 62/108 (57%), Gaps = 9/108 (8%)
Query: 48 IQMRTVLKVVDNSGAKTVMCIQ--PLKGRK----VARLGDTIVASVKEAMPTGKVKKGQV 101
+ + L DN+GAK V I KG K A +GD +V SVK+ P +++K QV
Sbjct: 12 LPVGARLVCADNTGAKEVEIISVKGYKGVKRRLPKAGVGDMVVVSVKKGTP--EMRK-QV 68
Query: 102 VHAVVVRAAMQHGRFDGSEVRFDDNAVVLVNKAGEPTGTRVFGPVPHE 149
+ 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 = 9e-22
Identities = 46/108 (42%), Positives = 62/108 (57%), Gaps = 9/108 (8%)
Query: 48 IQMRTVLKVVDNSGAKTVMCI--QPLKGRK----VARLGDTIVASVKEAMPTGKVKKGQV 101
+ + +L DN+GAK V I + KG K A +GD +V SVK+ P + QV
Sbjct: 11 LPVGALLVCADNTGAKEVEVISVKGYKGVKRRLPCAGVGDMVVVSVKKGTPE---MRKQV 67
Query: 102 VHAVVVRAAMQHGRFDGSEVRFDDNAVVLVNKAGEPTGTRVFGPVPHE 149
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 = 60.1 bits (146), Expect = 3e-12
Identities = 39/103 (37%), Positives = 59/103 (57%), Gaps = 9/103 (8%)
Query: 53 VLKVVDNSGAKT--VMCIQPLKGR----KVARLGDTIVASVKEAMPTGKVKKGQVVHAVV 106
V+ DNSGAK ++ ++ + GR A LGD ++A+VK+ P + K V++AV+
Sbjct: 24 VVNCADNSGAKNLYIIAVKGIHGRLNRLPSASLGDMVLATVKKGKPELRKK---VLNAVI 80
Query: 107 VRAAMQHGRFDGSEVRFDDNAVVLVNKAGEPTGTRVFGPVPHE 149
+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 = 0.038
Identities = 19/68 (27%), Positives = 30/68 (44%)
Query: 95 KVKKGQVVHAVVVRAAMQHGRFDGSEVRFDDNAVVLVNKAGEPTGTRVFGPVPHELRRKK 154
+VK G + ++ + R G + FD N +L+N P GTRV + K
Sbjct: 117 RVKPGNIYWVCLLSRRQTNTRMSGLQTNFDRNTCILMNDQRVPLGTRVMYCAGRHVNHKY 176
Query: 155 HVSILTLA 162
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 = 28.5 bits (64), Expect = 2.1
Identities = 11/66 (16%), Positives = 22/66 (33%), Gaps = 7/66 (10%)
Query: 37 GNFLSQQQRTFIQMRTVLKVVDNSGAKTVMCIQPLKGRKVARLGDTIVASVKEAMPTGKV 96
G FL + F+ V D+ + + + GD +V + E +
Sbjct: 87 GKFLGENDFGFV-------VPDDPRIYLDIIVPKASVKNELAEGDKVVVELTEYPLRRNL 139
Query: 97 KKGQVV 102
G++
Sbjct: 140 FYGEIT 145
>gnl|CDD|171440 PRK12365, PRK12365, ribonucleotide-diphosphate reductase subunit
alpha; Provisional.
Length = 1046
Score = 28.0 bits (62), Expect = 2.7
Identities = 18/67 (26%), Positives = 31/67 (46%), Gaps = 9/67 (13%)
Query: 4 SLASKWSRVGRSLLGGLGNNLSGLSSTSHEMASGNFLSQQQRTFIQMRTVLKVVDNSGAK 63
++ SKW+ GG+GN+ + + +T + N SQ FI++ V N G K
Sbjct: 477 AMLSKWA-------GGIGNDWTAVRATGALIKGTNGKSQGVIPFIKVANDTAVAVNQGGK 529
Query: 64 T--VMCI 68
+C+
Sbjct: 530 RKGAVCV 536
>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 = 6.3
Identities = 7/19 (36%), Positives = 11/19 (57%)
Query: 103 HAVVVRAAMQHGRFDGSEV 121
H +V+ AA++ GS V
Sbjct: 25 HPLVLEAALRQALATGSPV 43
>gnl|CDD|235251 PRK04196, PRK04196, V-type ATP synthase subunit B; Provisional.
Length = 460
Score = 26.7 bits (60), Expect = 7.2
Identities = 14/42 (33%), Positives = 20/42 (47%), Gaps = 10/42 (23%)
Query: 125 DNAVVLVNKAGEPTGTRVFGPVPHELRRKKHVSILTLAEHLA 166
+ +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 = 8.4
Identities = 17/54 (31%), Positives = 25/54 (46%), Gaps = 8/54 (14%)
Query: 94 GKVKKGQVVHAVV--------VRAAMQHGRFDGSEVRFDDNAVVLVNKAGEPTG 139
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: 60 SGAKTVMCIQPLKGRKVARLGDTIVASVKEAM---------PTGKVKKGQVVHAVVVRAA 110
KT I P+ GR +AR+ + A V A+ P GK+ V RA
Sbjct: 11 ESGKTFANINPVDGRVIARVHEAGAAEVDAAVAAARAALKGPWGKM-------TVAERAD 63
Query: 111 MQHGRFDGSEVRFDDNAVVLVNKAGEP 137
+ + D E RFDD V G+P
Sbjct: 64 LLYAVADEIERRFDDFLAAEVADTGKP 90
>gnl|CDD|237510 PRK13795, PRK13795, hypothetical protein; Provisional.
Length = 636
Score = 26.1 bits (58), Expect = 9.8
Identities = 17/63 (26%), Positives = 25/63 (39%), Gaps = 11/63 (17%)
Query: 78 RLGDTIVASVKEAMPTGKVKKGQVVHAVVVRAAMQHGRFDGSEVRFDDNAVVLVNKAGEP 137
RL ++ P +K G+ V A V A D + D+ VV+V + GE
Sbjct: 124 RLKKWVIVDKGALEP---IKNGKNVLAPGVVEA------DLDIKKGDE--VVVVTEDGEV 172
Query: 138 TGT 140
G
Sbjct: 173 VGV 175
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
0.318 0.131 0.368
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: 8,158,531
Number of extensions: 731041
Number of successful extensions: 719
Number of sequences better than 10.0: 1
Number of HSP's gapped: 707
Number of HSP's successfully gapped: 36
Length of query: 166
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 76
Effective length of database: 6,945,742
Effective search space: 527876392
Effective search space used: 527876392
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.0 bits)