RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1547
(216 letters)
>gnl|CDD|214854 smart00849, Lactamase_B, Metallo-beta-lactamase superfamily. Apart
from the beta-lactamases a number of other proteins
contain this domain. These proteins include
thiolesterases, members of the glyoxalase II family,
that catalyse the hydrolysis of S-D-lactoyl-glutathione
to form glutathione and D-lactic acid and a competence
protein that is essential for natural transformation in
Neisseria gonorrhoeae and could be a transporter
involved in DNA uptake. Except for the competence
protein these proteins bind two zinc ions per molecule
as cofactor.
Length = 177
Score = 127 bits (320), Expect = 4e-37
Identities = 52/180 (28%), Positives = 83/180 (46%), Gaps = 13/180 (7%)
Query: 32 NTYILGTGSRRLLLDTGEPDHMEYIENLKQVLNKESISLEHIVLSHWHNDHVGGLKDIFE 91
N+Y++ +L+DTG + + + LK++ K+ ++ I+L+H H DH+GGL ++ E
Sbjct: 1 NSYLVRDDGGAILIDTGPGEAEDLLAELKKLGPKK---IDAIILTHGHPDHIGGLPELLE 57
Query: 92 HINPD----SATIWKFKGTEKDEAQATDFVPENKTVQTLTDGQLLKVEGATLRVIHTPGH 147
T K + +TL DG L + G L VIHTPGH
Sbjct: 58 APGAPVYAPEGTAELLKDLLALLGELGAEAEPAPPDRTLKDGDELDLGGGELEVIHTPGH 117
Query: 148 TTDHIVLKLEEENVVFSGDTILGEGT------TVFSDLISYIESLRRIRSLKPDIIYPAH 201
T IVL L E ++F+GD + G + +ESL ++ L P ++ P H
Sbjct: 118 TPGSIVLYLPEGKILFTGDLLFAGGDGRTLVDGGDAAASDALESLLKLLKLLPKLVVPGH 177
>gnl|CDD|223565 COG0491, GloB, Zn-dependent hydrolases, including glyoxylases
[General function prediction only].
Length = 252
Score = 109 bits (274), Expect = 2e-29
Identities = 59/201 (29%), Positives = 85/201 (42%), Gaps = 19/201 (9%)
Query: 23 PGPMTLQGTNTYILGTGSRRLLL-DTGEPDHMEYIENLKQVLNKESISLEHIVLSHWHND 81
G L G + Y+L G +L DTG D E L + L + ++ I+L+H H D
Sbjct: 17 IGVGPLSGNSVYLLVDGEGGAVLIDTGLGDAD--AEALLEALAALGLDVDAILLTHGHFD 74
Query: 82 HVGGLKDIFEHIN--------PDSATIWKFKGTEKDEAQATDFVPENKTVQTLTDGQLLK 133
H+GG + E + + + P ++ L DG L
Sbjct: 75 HIGGAAVLKEAFGAAPVIAPAEVPLLLREEILRKAGVTAEAYAAPGASPLRALEDGDELD 134
Query: 134 VEGATLRVIHTPGHTTDHIVLKLEEENVVFSGDTILGEGTTVF------SDLISYIESLR 187
+ G L V+HTPGHT HIV LE+ V+F+GDT+ T V D + SLR
Sbjct: 135 LGGLELEVLHTPGHTPGHIVFLLEDGGVLFTGDTLFAGDTGVGRLDLPGGDAAQLLASLR 194
Query: 188 RIRSLKPD--IIYPAHGPVVE 206
R+ L ++ P HGP
Sbjct: 195 RLLLLLLPDTLVLPGHGPDEY 215
>gnl|CDD|216099 pfam00753, Lactamase_B, Metallo-beta-lactamase superfamily.
Length = 148
Score = 88.6 bits (219), Expect = 2e-22
Identities = 38/145 (26%), Positives = 62/145 (42%), Gaps = 6/145 (4%)
Query: 30 GTNTYILGTGSRRLLLDTGEPDHMEYIENLKQVLNKESISLEHIVLSHWHNDHVGGLKDI 89
G+N+Y++ +L+DTG + L+ + I + I+L+H H DH+GGL ++
Sbjct: 5 GSNSYLVEGDGGAVLIDTGLGADDALLLLALLGLDPKDI--DAIILTHAHADHIGGLPEL 62
Query: 90 FEHINPDSATIWK----FKGTEKDEAQATDFVPENKTVQTLTDGQLLKVEGATLRVIHTP 145
E + D+A+ V L G + G L V P
Sbjct: 63 KEATGAPVVAAPEDAAALLRLGLDDAELRKLVDVLPVDVDLEGGDGILGGGLLLFVTPHP 122
Query: 146 GHTTDHIVLKLEEENVVFSGDTILG 170
GH H+V+ L V+F+GD + G
Sbjct: 123 GHGPGHVVVYLPGGKVLFTGDLLFG 147
>gnl|CDD|234201 TIGR03413, GSH_gloB, hydroxyacylglutathione hydrolase. Members of
this protein family are hydroxyacylglutathione
hydrolase, a detoxification enzyme known as glyoxalase
II. It follows lactoylglutathione lyase, or glyoxalase
I, and acts to remove the toxic metabolite methylglyoxal
and related compounds. This protein belongs to the
broader metallo-beta-lactamase family (pfam00753)
[Cellular processes, Detoxification].
Length = 248
Score = 85.3 bits (212), Expect = 2e-20
Identities = 40/143 (27%), Positives = 66/143 (46%), Gaps = 31/143 (21%)
Query: 69 SLEHIVLSHWHNDHVGGLKDIFEHINPDSATIWKFKGTEKDEAQATDFVPENKTVQTLTD 128
+L I+L+H H+DHVGG+ ++ E A ++ G ++ + D
Sbjct: 43 TLTAILLTHHHHDHVGGVAELLEAF---PAPVY---GPAEERIPGIT--------HPVKD 88
Query: 129 GQLLKVEGATLRVIHTPGHTTDHIVLKLEEENVVFSGDTI-------LGEGT--TVFSDL 179
G + + G V+ PGHT HI L + +F GDT+ L EGT ++
Sbjct: 89 GDTVTLGGLEFEVLAVPGHTLGHIAYYLPDSPALFCGDTLFSAGCGRLFEGTPEQMY--- 145
Query: 180 ISYIESLRRIRSLKPD-IIYPAH 201
+SL+R+ +L D ++Y AH
Sbjct: 146 ----DSLQRLAALPDDTLVYCAH 164
>gnl|CDD|223503 COG0426, FpaA, Uncharacterized flavoproteins [Energy production and
conversion].
Length = 388
Score = 67.3 bits (165), Expect = 3e-13
Identities = 50/205 (24%), Positives = 96/205 (46%), Gaps = 34/205 (16%)
Query: 27 TLQGT--NTYILGTGSRRLLLDTGEPDHM-EYIENLKQVLNKESISLEHIVLSHWHNDHV 83
T +GT N+Y L G + L+DT EY+ENL + ++ + I ++I+++H DH
Sbjct: 30 TPRGTTYNSY-LIVGDKTALIDTVGEKFFDEYLENLSKYIDPKEI--DYIIVNHTEPDHS 86
Query: 84 GGLKDIFEHINPDSATIWKFKGTEKDEAQATDFVPENKTVQTLTDGQLLKVEGATLRVIH 143
G L ++ E + P++ K ++ F + + + + G L + G TL+ I
Sbjct: 87 GSLPELLE-LAPNA----KIICSKLAARFLKGFYHDPEWFKIVKTGDTLDLGGHTLKFIP 141
Query: 144 TPG-HTTDHIVLKLEEENVVFSGD-----------------TILGEGTTVFSDLIS---- 181
P H D + E+ ++FS D +L + +++L++
Sbjct: 142 APFLHWPDTMFTYDPEDKILFSCDAFGAHVCDDYRFDEDIEELLPDMRKYYANLMAPNAR 201
Query: 182 YIES-LRRIRSLKPDIIYPAHGPVV 205
+ L++I+ LK ++I P+HGP+
Sbjct: 202 LVLWALKKIKLLKIEMIAPSHGPIW 226
>gnl|CDD|224158 COG1237, COG1237, Metal-dependent hydrolases of the beta-lactamase
superfamily II [General function prediction only].
Length = 259
Score = 52.0 bits (125), Expect = 4e-08
Identities = 44/208 (21%), Positives = 73/208 (35%), Gaps = 42/208 (20%)
Query: 34 YILGTGSRRLLLDTGEPDHMEYIENLKQVLNKESISLEHIVLSHWHNDHVGGLK------ 87
++ R+L DTG + + N + +L + ++ +VLSH H DH GGL
Sbjct: 25 ALVEDEGTRILFDTGTDSDV-LLHNAR-LLGVDLRDIDAVVLSHGHYDHTGGLPYLLEEN 82
Query: 88 ----DIFEHINPDSATIWKFK--GTEKDEAQATDFVPENKTV---QTLTDGQL--LKVEG 136
++ H + A I F+ G + E A + E +T G++ + E
Sbjct: 83 NPGIPVYAHPDAFKAKIEVFREIGIPELEELARLILSEEPDEIVEGVITLGEIPKVTFEK 142
Query: 137 ATLRVIHTPGHTTDHIVLKLEEEN--VVFSG------DTILGEGTTVFSDLISYI----- 183
P D L +E E VV +G I+ D + +
Sbjct: 143 GGYFEDGEPDPVLDEQALIVETEKGLVVITGCSHPGIVNIVEWAKERSGDRVKAVIGGFH 202
Query: 184 ----------ESLRRIRSLKPDIIYPAH 201
E ++ L + IYP H
Sbjct: 203 LIGASEERLEEVADYLKELGVEKIYPCH 230
>gnl|CDD|182327 PRK10241, PRK10241, hydroxyacylglutathione hydrolase; Provisional.
Length = 251
Score = 51.4 bits (123), Expect = 5e-08
Identities = 45/139 (32%), Positives = 62/139 (44%), Gaps = 28/139 (20%)
Query: 71 EHIVLSHWHNDHVGGLKDIFEHINPDSATIWKFKGTEKDEAQATDFVPENKTVQTLTDGQ 130
E I L+H H+DHVGG+K++ E P I + E + T Q + DG+
Sbjct: 47 EAIFLTHHHHDHVGGVKELVEKF-PQ---IVVYGPQETQDKGTT---------QVVKDGE 93
Query: 131 LLKVEGATLRVIHTPGHTTDHIVLKLEEENVVFSGDTI-------LGEGTTVFSDLISYI 183
V G V TPGHT HI + +F GDT+ L EGT
Sbjct: 94 TAFVLGHEFSVFATPGHTLGHICYF--SKPYLFCGDTLFSGGCGRLFEGTAS-----QMY 146
Query: 184 ESLRRIRSLKPD-IIYPAH 201
+SL++I +L D +I AH
Sbjct: 147 QSLKKINALPDDTLICCAH 165
>gnl|CDD|215223 PLN02398, PLN02398, hydroxyacylglutathione hydrolase.
Length = 329
Score = 51.0 bits (122), Expect = 1e-07
Identities = 46/150 (30%), Positives = 66/150 (44%), Gaps = 31/150 (20%)
Query: 63 LNKESISLEHIVLSHWHNDHVGG---LKDIFEHINPDSATIWKFKGTEKDEAQATDFVPE 119
L++++ +L +I+ +H H DH GG LK + K G+ D+ D +P
Sbjct: 115 LSRKNRNLTYILNTHHHYDHTGGNLELKARYGA---------KVIGSAVDK----DRIPG 161
Query: 120 NKTVQTLTDGQLLKVEGATLRVIHTPGHTTDHIVLKLEEENVVFSGDTI-------LGEG 172
V L DG G + V+ TPGHT HI +F+GDT+ L EG
Sbjct: 162 IDIV--LKDGDKWMFAGHEVLVMETPGHTRGHISFYFPGSGAIFTGDTLFSLSCGKLFEG 219
Query: 173 TTVFSDLISYIESLRRIRSLKPDI-IYPAH 201
T + SL++I SL D IY H
Sbjct: 220 TPE-----QMLSSLQKIISLPDDTNIYCGH 244
>gnl|CDD|225212 COG2333, ComEC, Predicted hydrolase (metallo-beta-lactamase
superfamily) [General function prediction only].
Length = 293
Score = 50.0 bits (120), Expect = 2e-07
Identities = 31/146 (21%), Positives = 55/146 (37%), Gaps = 16/146 (10%)
Query: 29 QGTNTYILGTGSRRLLLDTGEPDHMEYIENLKQVLNKESIS-LEHIVLSHWHNDHVGGLK 87
QG T I + + +L DTG + I L + L+ ++L+H DH+GGL
Sbjct: 53 QGLATLI-RSEGKTILYDTGNSMGQDVIIP---YLKSLGVRKLDQLILTHPDADHIGGLD 108
Query: 88 DIFEHINPDSATIWKFKGTEKDEAQATDFVPENKTVQTLTDGQLLKVEGATLRVIHTPGH 147
++ + I I+ D V++ G + G +V+ G
Sbjct: 109 EVLKTIKVPELWIYA-GSDSTSTFVLRD---AGIPVRSCKAGDSWQWGGVVFQVLSPVGG 164
Query: 148 TT-----DHIVLKLEEEN--VVFSGD 166
+ D VL++ + +GD
Sbjct: 165 VSDDLNNDSCVLRVTFGGNSFLLTGD 190
>gnl|CDD|221727 pfam12706, Lactamase_B_2, Beta-lactamase superfamily domain. This
family is part of the beta-lactamase superfamily and is
related to pfam00753.
Length = 197
Score = 45.2 bits (107), Expect = 5e-06
Identities = 29/143 (20%), Positives = 54/143 (37%), Gaps = 14/143 (9%)
Query: 41 RRLLLDTGEPDHMEYIENLKQVLNKESISLEHIVLSHWHNDHVGGLKDIFEHIN--PDSA 98
R+L+D G + ++ ++LSH H DH+ GL + E I P
Sbjct: 1 TRILIDPGPGTRD--LRQQPLAAPALLPRIDAVLLSHAHADHILGLLTLRELIKRLPKRL 58
Query: 99 TIWKFKGTEKD-----EAQATDFVPENKTVQTLTDGQLLKVEGATLR---VIHTPG--HT 148
++ G +D F + + + G+ ++V G T+ V H G
Sbjct: 59 PVYGPPGVAEDLRAPIFGVLPLFPVFDIEIFEIDIGEDVEVGGLTITAFPVQHGSGRYLL 118
Query: 149 TDHIVLKLEEENVVFSGDTILGE 171
+ ++ + + +SGDT
Sbjct: 119 REGFRIETPGKKIYYSGDTGYIP 141
>gnl|CDD|237023 PRK11921, PRK11921, metallo-beta-lactamase/flavodoxin
domain-containing protein; Provisional.
Length = 394
Score = 43.5 bits (103), Expect = 3e-05
Identities = 40/141 (28%), Positives = 71/141 (50%), Gaps = 18/141 (12%)
Query: 32 NTYILGTGSRRLLLDT-GEPDHMEYIENLKQVLNKESISLEHIVLSHWHNDHVGGLKDIF 90
N+Y++ + +L+DT +P E++ENLK+ ++ + I ++IV +H DH G L ++
Sbjct: 34 NSYLI-KDEKTVLIDTVWQPFAKEFVENLKKEIDLDKI--DYIVANHGEIDHSGALPELM 90
Query: 91 EHINPDSATIWKFKGTEKDEA---QATDFVPENKTVQTLTDGQ--LLKVEGATLRVIHTP 145
+ I PD+ G + + Q +FV KT L G L+ +E ++H P
Sbjct: 91 KEI-PDTPIYCTKNGAKSLKGHYHQDWNFV-VVKTGDRLEIGSNELIFIEA---PMLHWP 145
Query: 146 GHTTDHIVLKLEEENVVFSGD 166
D + L +N++FS D
Sbjct: 146 ----DSMFTYLTGDNILFSND 162
>gnl|CDD|183052 PRK11244, phnP, carbon-phosphorus lyase complex accessory
protein; Provisional.
Length = 250
Score = 41.5 bits (98), Expect = 1e-04
Identities = 18/49 (36%), Positives = 23/49 (46%), Gaps = 9/49 (18%)
Query: 38 TGSRRLLLDTGEPDHMEYIENLKQVLNKESISLEHIVLSHWHNDHVGGL 86
R L+D G PD E SL+ I+L+H+H DHV GL
Sbjct: 44 FNGARTLIDAGLPDLAERFP---------PGSLQQILLTHYHMDHVQGL 83
>gnl|CDD|232940 TIGR00361, ComEC_Rec2, DNA internalization-related competence
protein ComEC/Rec2. Apparant orthologs are found in 5
species so far (Haemophilus influenzae, Escherichia
coli, Bacillus subtilis, Neisseria gonorrhoeae,
Streptococcus pneumoniae), of which all but E. coli are
model systems for the study of competence for natural
transformation. This protein is a predicted multiple
membrane-spanning protein likely to be involved in DNA
internalization. In a large number of bacterial species
not known to exhibit competence, this protein is
replaced by a half-length N-terminal homolog of unknown
function, modelled by the related model ComEC_N-term.
The role for this protein in species that are not
naturally transformable is unknown [Cellular processes,
DNA transformation].
Length = 662
Score = 41.0 bits (96), Expect = 2e-04
Identities = 24/68 (35%), Positives = 35/68 (51%), Gaps = 7/68 (10%)
Query: 29 QGTNTYILGTGSRRLLLDTGEP----DHMEYIENLKQVLNKESISLEHIVLSHWHNDHVG 84
QG +I G + +L DTGEP E + + L + I LE ++LSH DH+G
Sbjct: 449 QGLAMFIGANG-KGILYDTGEPWREGSLGEKV--IIPFLTAKGIKLEALILSHADQDHIG 505
Query: 85 GLKDIFEH 92
G + I +H
Sbjct: 506 GAEIILKH 513
>gnl|CDD|223668 COG0595, COG0595, mRNA degradation ribonucleases J1/J2
(metallo-beta-lactamase superfamily) [Translation,
ribosomal structure and biogenesis; Replication,
recombination and repair].
Length = 555
Score = 40.3 bits (95), Expect = 5e-04
Identities = 29/138 (21%), Positives = 50/138 (36%), Gaps = 31/138 (22%)
Query: 42 RLLLDTGEPDHMEYIENLKQVLNKESISLEHIVLSHWHNDHVGGLKDIFEHINPDSATIW 101
L +D PD EN +V + I L+H H DH+G L + + + A I+
Sbjct: 47 LLGVDLIIPDFSYLEENKDKV--------KGIFLTHGHEDHIGALPYLLKQVL--FAPIY 96
Query: 102 KFKGTE------KDEAQATDFVPENKTVQTLTDGQLLKVEGATLRVIHTPGHTTDH---- 151
+ K++ + + + G +K + H
Sbjct: 97 ---ASPLTAALIKEKLKEHGLFKNENELHEVKPGSEIKFGSFEVEFFP-----VTHSIPD 148
Query: 152 ---IVLKLEEENVVFSGD 166
IV+K E N+V++GD
Sbjct: 149 SLGIVIKTPEGNIVYTGD 166
>gnl|CDD|224156 COG1235, PhnP, Metal-dependent hydrolases of the beta-lactamase
superfamily I [General function prediction only].
Length = 269
Score = 37.8 bits (88), Expect = 0.002
Identities = 36/187 (19%), Positives = 54/187 (28%), Gaps = 37/187 (19%)
Query: 36 LGTGSRRLLLDTGEPDHMEYIENLKQVLNKESISLEHIVLSHWHNDHVGGLKDIFEHINP 95
G G + LL+D G PD Q L L+ I+L+H H+DH+ GL D+
Sbjct: 36 CGVGVKTLLIDAG-PDL------RDQGLRLGVSDLDAILLTHEHSDHIQGLDDLRRAYTL 88
Query: 96 DSATIWKFKGTEKDEAQAT-------DFVPENKTVQTLTDGQLLKVEGATLRVIH--TPG 146
I+ GT + F L V P
Sbjct: 89 P---IYVNPGTLRASTSDRLLGGFPYLFRHPFPPFSLPA--------IGGLEVTPFPVPH 137
Query: 147 HTTDHIVLKLEEENVVFSGDTILGEGTTVFSDLISYI----------ESLRRIRSLKPDI 196
+ + + G T +G G ++Y+ + L P
Sbjct: 138 DAIEPVGFVIIRTGRKLHGGTDIGYGLEWRIGDVAYLTDTELFPSNHDVELLDNGLYPLD 197
Query: 197 IYPAHGP 203
I P
Sbjct: 198 IKDRILP 204
>gnl|CDD|163212 TIGR03307, PhnP, phosphonate metabolism protein PhnP. This
family of proteins found in operons encoding
phosphonate C-P lyase systems as is observed in E. coli
and is a member of the metallo-beta-lactamase
superfamily (pfam00753). As defined by this model, all
instances of this protein are associated with the C-P
lyase, but not all genomes containing the C-P lyase
system contain phnP.
Length = 238
Score = 37.0 bits (86), Expect = 0.004
Identities = 17/52 (32%), Positives = 24/52 (46%), Gaps = 9/52 (17%)
Query: 35 ILGTGSRRLLLDTGEPDHMEYIENLKQVLNKESISLEHIVLSHWHNDHVGGL 86
++ R L+D G D E SL+ I+L+H+H DHV GL
Sbjct: 31 VIEFNGARTLIDAGLTDLAERFP---------PGSLQAILLTHYHMDHVQGL 73
>gnl|CDD|236924 PRK11539, PRK11539, ComEC family competence protein; Provisional.
Length = 755
Score = 37.3 bits (87), Expect = 0.004
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 68 ISLEHIVLSHWHNDHVGGLKDI 89
++ E I+LSH H DH GGL +
Sbjct: 550 LTPEGIILSHEHLDHRGGLASL 571
>gnl|CDD|178088 PLN02469, PLN02469, hydroxyacylglutathione hydrolase.
Length = 258
Score = 36.3 bits (84), Expect = 0.007
Identities = 31/116 (26%), Positives = 53/116 (45%), Gaps = 16/116 (13%)
Query: 57 ENLKQVLNKESISLEHIVLSHWHNDHVGGLKDIFEHINPDSATIWKFKGTEKDEAQATDF 116
E + Q ++ ++ ++ +H H DH GG + I + + I + G+ + T
Sbjct: 34 EKVLQAAHEHGAKIKLVLTTHHHWDHAGGNEKIKKLV----PGIKVYGGSLDNVKGCTHP 89
Query: 117 VPENKTVQTLTDGQLLKVEGATLRVIHTPGHTTDHIVL----KLEEENVVFSGDTI 168
V EN L+ G+ + + +HTP HT HI K E+ VF+GDT+
Sbjct: 90 V-ENGD--KLSLGKDVNI-----LALHTPCHTKGHISYYVTGKEGEDPAVFTGDTL 137
>gnl|CDD|179371 PRK02113, PRK02113, putative hydrolase; Provisional.
Length = 252
Score = 35.1 bits (81), Expect = 0.015
Identities = 19/52 (36%), Positives = 29/52 (55%), Gaps = 7/52 (13%)
Query: 38 TGSRRLLLDTGEPDHMEYIENLKQVLNKESISLEHIVLSHWHNDHVGGLKDI 89
T R+L+D G PD E Q+L ++ ++++H H DHVGGL D+
Sbjct: 42 TEGARILIDCG-PDFRE------QMLRLPFGKIDAVLITHEHYDHVGGLDDL 86
>gnl|CDD|225130 COG2220, COG2220, Predicted Zn-dependent hydrolases of the
beta-lactamase fold [General function prediction only].
Length = 258
Score = 35.2 bits (81), Expect = 0.017
Identities = 19/111 (17%), Positives = 34/111 (30%), Gaps = 20/111 (18%)
Query: 72 HIVLSHWHNDHVG--GLKDIFEH-----INPDSAT-IWKFKGTEKDEAQATDFVPENKTV 123
+I+++H H DH+ L + + + P A + G E + +
Sbjct: 55 YILITHDHYDHLDDETLIALRTNKAPVVVVPLGAGDLLIRDGVEAERVHELGW-----GD 109
Query: 124 QTLTDGQLLKVEGATLR-VIHTPGHTTDHI------VLKLEEENVVFSGDT 167
+ A H PG V++ V +GDT
Sbjct: 110 VIELGDLEITAVPAYHVSARHLPGRGIRPTGLWVGYVIETPGGRVYHAGDT 160
>gnl|CDD|235006 PRK02126, PRK02126, ribonuclease Z; Provisional.
Length = 334
Score = 33.0 bits (76), Expect = 0.096
Identities = 16/53 (30%), Positives = 23/53 (43%), Gaps = 9/53 (16%)
Query: 41 RRLLLDTGEPDHMEYIENLKQVLNKESISLEHIVLSHWHNDHVGGLKDIFEHI 93
R LL D G+ H+ + L + + HI +SH H DH G + H
Sbjct: 28 RALLFDLGDLHHL-----PPREL----LRISHIFVSHTHMDHFIGFDRLLRHC 71
>gnl|CDD|235475 PRK05452, PRK05452, anaerobic nitric oxide reductase
flavorubredoxin; Provisional.
Length = 479
Score = 32.8 bits (75), Expect = 0.11
Identities = 22/72 (30%), Positives = 42/72 (58%), Gaps = 10/72 (13%)
Query: 27 TLQGT--NTYILGTGSRRLLLDTGEPDH---MEYIENLKQVLNKESISLEHIVLSHWHND 81
TL+G+ N+Y++ + +L+DT DH E+++NL+ ++ I ++IV++H D
Sbjct: 29 TLRGSSYNSYLIREE-KNVLIDT--VDHKFSREFVQNLRNEIDLADI--DYIVINHAEED 83
Query: 82 HVGGLKDIFEHI 93
H G L ++ I
Sbjct: 84 HAGALTELMAQI 95
>gnl|CDD|224155 COG1234, ElaC, Metal-dependent hydrolases of the beta-lactamase
superfamily III [General function prediction only].
Length = 292
Score = 32.4 bits (74), Expect = 0.16
Identities = 14/55 (25%), Positives = 22/55 (40%), Gaps = 9/55 (16%)
Query: 34 YILGTGSRRLLLDTGEPDHMEYIENLKQVLNKES--ISLEHIVLSHWHNDHVGGL 86
+L + L D GE Q+L ++ I ++H H DH+ GL
Sbjct: 23 ILLRLEGEKFLFDCGEGT-------QHQLLRAGLPPRKIDAIFITHLHGDHIAGL 70
>gnl|CDD|224157 COG1236, YSH1, Predicted exonuclease of the beta-lactamase fold
involved in RNA processing [Translation, ribosomal
structure and biogenesis].
Length = 427
Score = 32.0 bits (73), Expect = 0.22
Identities = 32/163 (19%), Positives = 63/163 (38%), Gaps = 38/163 (23%)
Query: 30 GTNTYILGTGSRRLLLDTGEP---DHMEYIENLKQVLNKESISLEHIVLSHWHNDHVGGL 86
G + +L TG R+LLD G E ++L+H H DH+G L
Sbjct: 13 GRSCVLLETGGTRILLDCGLFPGDPSPERPLLPPFPKVDA------VLLTHAHLDHIGAL 66
Query: 87 ------------------KDIFEHINPDSATIWKFKGTEKDEAQATDFVPENKTVQTLTD 128
+ + + DS + + + + VP+ ++ L
Sbjct: 67 PYLVRNGFEGPVYATPPTAALLKVLLGDSLKLAEGPDKPPYSEEDVERVPDL--IRPLPY 124
Query: 129 GQLLKVEGATLRVI-----HTPGHTTDHIVLKLEEENVVFSGD 166
G+ ++V G ++V H G + I+L+++ ++++GD
Sbjct: 125 GEPVEVGG--VKVTFYNAGHILG--SAAILLEVDGGRILYTGD 163
>gnl|CDD|100000 cd04951, GT1_WbdM_like, This family is most closely related to the
GT1 family of glycosyltransferases and is named after
WbdM in Escherichia coli. In general
glycosyltransferases catalyze the transfer of sugar
moieties from activated donor molecules to specific
acceptor molecules, forming glycosidic bonds. The
acceptor molecule can be a lipid, a protein, a
heterocyclic compound, or another carbohydrate residue.
This group of glycosyltransferases is most closely
related to the previously defined glycosyltransferase
family 1 (GT1). The members of this family may transfer
UDP, ADP, GDP, or CMP linked sugars. The diverse
enzymatic activities among members of this family
reflect a wide range of biological functions. The
protein structure available for this family has the GTB
topology, one of the two protein topologies observed for
nucleotide-sugar-dependent glycosyltransferases. GTB
proteins have distinct N- and C- terminal domains each
containing a typical Rossmann fold. The two domains have
high structural homology despite minimal sequence
homology. The large cleft that separates the two domains
includes the catalytic center and permits a high degree
of flexibility. The members of this family are found in
bacteria.
Length = 360
Score = 31.5 bits (72), Expect = 0.31
Identities = 17/59 (28%), Positives = 25/59 (42%), Gaps = 4/59 (6%)
Query: 146 GHTTDHIVLKLEEENVVFSGDTI---LGEGTTVFSDLISYIESLRRIRSLKPDIIYPAH 201
GH I L E E TI L S L++ + + +R KPD+++ AH
Sbjct: 29 GHQVAIISLTGESEVKPPIDATIILNLNMSKNPLSFLLALWKLRKILRQFKPDVVH-AH 86
>gnl|CDD|234602 PRK00055, PRK00055, ribonuclease Z; Reviewed.
Length = 270
Score = 30.9 bits (71), Expect = 0.45
Identities = 7/18 (38%), Positives = 12/18 (66%)
Query: 69 SLEHIVLSHWHNDHVGGL 86
++ I ++H H DH+ GL
Sbjct: 53 KIDKIFITHLHGDHIFGL 70
>gnl|CDD|234811 PRK00685, PRK00685, metal-dependent hydrolase; Provisional.
Length = 228
Score = 30.5 bits (70), Expect = 0.47
Identities = 16/52 (30%), Positives = 28/52 (53%), Gaps = 12/52 (23%)
Query: 36 LGTGSRRLLLD---TGEPDHMEYIENLKQVLNKESISLEHIVLSHWHNDHVG 84
+ TG +++L+D TG P L E + +++I+L+H H DH+G
Sbjct: 13 IETGGKKILIDPFITGNP---------LADLKPEDVKVDYILLTHGHGDHLG 55
>gnl|CDD|235661 PRK05981, PRK05981, enoyl-CoA hydratase; Provisional.
Length = 266
Score = 30.5 bits (69), Expect = 0.49
Identities = 14/29 (48%), Positives = 20/29 (68%)
Query: 186 LRRIRSLKPDIIYPAHGPVVEVGLSFSLM 214
LRR+R+L I+ +GP VG+SF+LM
Sbjct: 96 LRRLRNLPCPIVTAVNGPAAGVGMSFALM 124
>gnl|CDD|99980 cd03808, GT1_cap1E_like, This family is most closely related to the
GT1 family of glycosyltransferases. cap1E in
Streptococcus pneumoniae is required for the synthesis
of type 1 capsular polysaccharides.
Length = 359
Score = 30.6 bits (70), Expect = 0.53
Identities = 12/45 (26%), Positives = 20/45 (44%)
Query: 153 VLKLEEENVVFSGDTILGEGTTVFSDLISYIESLRRIRSLKPDII 197
+ +LE V + G F DL + + R +R +PDI+
Sbjct: 40 LEELEALGVKVIPIPLDRRGINPFKDLKALLRLYRLLRKERPDIV 84
>gnl|CDD|233963 TIGR02651, RNase_Z, ribonuclease Z. Processing of the 3-prime
end of tRNA precursors may be the result of
endonuclease or exonuclease activity, and differs in
different species. Member of this family are
ribonuclease Z, a tRNA 3-prime endonuclease that
processes tRNAs to prepare for addition of CCA. In
species where all tRNA sequences already have the CCA
tail, such as E. coli, the need for such an enzyme is
unclear. Protein similar to the E. coli enzyme, matched
by TIGR02649, are designated ribonuclease BN
[Transcription, RNA processing].
Length = 299
Score = 30.6 bits (70), Expect = 0.55
Identities = 19/74 (25%), Positives = 26/74 (35%), Gaps = 29/74 (39%)
Query: 34 YILGTGS------------------RRLLLDTGEPDHMEYIENLKQVLNKESIS---LEH 72
LGTG L D GE Q+L + IS ++
Sbjct: 3 TFLGTGGGVPTKERNLPSIALKLNGELWLFDCGEGTQR-------QML-RSGISPMKIDR 54
Query: 73 IVLSHWHNDHVGGL 86
I ++H H DH+ GL
Sbjct: 55 IFITHLHGDHILGL 68
>gnl|CDD|235372 PRK05248, PRK05248, hypothetical protein; Provisional.
Length = 121
Score = 29.4 bits (67), Expect = 0.65
Identities = 14/64 (21%), Positives = 26/64 (40%), Gaps = 11/64 (17%)
Query: 53 MEY--IENLK-QVLNKESISLEHIVLSHWHNDHVGG----LKDIFEHINPDSATI--WKF 103
M+Y + +L +V + S+ H + W N+ VG L ++ + W+
Sbjct: 1 MDYEFLRDLTGEVKAR--FSMGHEAIGRWFNEEVGKNLAKLDEVLAAAAAVKGSEREWQL 58
Query: 104 KGTE 107
G E
Sbjct: 59 AGHE 62
>gnl|CDD|225654 COG3112, COG3112, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 121
Score = 27.5 bits (61), Expect = 2.8
Identities = 13/59 (22%), Positives = 26/59 (44%), Gaps = 6/59 (10%)
Query: 53 MEYIENLKQVLNKESI--SLEHIVLSHWHNDHVGGLKDIFEHINPDSATIWKFKGTEKD 109
M++ E L+ + + S+ H V+ HW N+ V + + KG+E++
Sbjct: 1 MDF-EFLRDLTGVVKVRCSMGHEVVGHWFNEEVKSNLAKLDEV---LQAADTLKGSERE 55
>gnl|CDD|99961 cd03785, GT1_MurG, MurG is an N-acetylglucosaminyltransferase, the
last enzyme involved in the intracellular phase of
peptidoglycan biosynthesis. It transfers
N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the
C4 hydroxyl of a lipid-linked N-acetylmuramoyl
pentapeptide (NAM). The resulting disaccharide is then
transported across the cell membrane, where it is
polymerized into NAG-NAM cell-wall repeat structure.
MurG belongs to the GT-B structural superfamily of
glycoslytransferases, which have characteristic N- and
C-terminal domains, each containing a typical Rossmann
fold. The two domains have high structural homology
despite minimal sequence homology. The large cleft that
separates the two domains includes the catalytic center
and permits a high degree of flexibility.
Length = 350
Score = 28.2 bits (64), Expect = 2.9
Identities = 9/38 (23%), Positives = 18/38 (47%), Gaps = 6/38 (15%)
Query: 173 TTVFSDLISYIESLRRIRSLKPDII-----YPAHGPVV 205
F L +++ + ++ KPD++ Y + GPV
Sbjct: 69 KAPFKLLKGVLQARKILKKFKPDVVVGFGGYVS-GPVG 105
>gnl|CDD|235824 PRK06545, PRK06545, prephenate dehydrogenase; Validated.
Length = 359
Score = 27.9 bits (63), Expect = 3.6
Identities = 12/42 (28%), Positives = 21/42 (50%)
Query: 50 PDHMEYIENLKQVLNKESISLEHIVLSHWHNDHVGGLKDIFE 91
PD I + +L +E IS+E++ + D G L+ F+
Sbjct: 298 PDEPGVIARVTAILGEEGISIENLRILEAREDIHGVLQISFK 339
>gnl|CDD|234433 TIGR03992, Arch_glmU, UDP-N-acetylglucosamine
diphosphorylase/glucosamine-1-phosphate
N-acetyltransferase. The MJ_1101 protein from
Methanococcus jannaschii has been characterized as the
GlmU enzyme catalyzing the final two steps of UDP-GlcNAc
biosynthesis. Many of the genes identified by this model
are in proximity to the GlmS and GlmM genes and are also
presumed to be GlmU. However, some archaeal genomes
contain multiple closely-related homologs from this
family and it is not clear what the substrate
specificity is for each of them.
Length = 393
Score = 27.6 bits (62), Expect = 5.0
Identities = 12/27 (44%), Positives = 16/27 (59%), Gaps = 2/27 (7%)
Query: 158 EENVVFSGDTILGEGTTVFSDLISYIE 184
EENV G ++GEG + S +YIE
Sbjct: 240 EENVTIKGPVVIGEGAVIRSG--TYIE 264
>gnl|CDD|107326 cd06331, PBP1_AmiC_like, Type I periplasmic components of
amide-binding protein (AmiC) and the active transport
system for short-chain and urea (FmdDEF). This group
includes the type I periplasmic components of
amide-binding protein (AmiC) and the active transport
system for short-chain and urea (FmdDEF), found in
bacteria and Archaea. AmiC controls expression of the
amidase operon by a ligand-triggered conformational
switch. In the absence of ligand or presence of
butyramide (repressor), AmiC (the ligand sensor and
negative regulator) adopts an open conformation and
inhibits the transcription antitermination function of
AmiR by direct protein-protein interaction. In the
presence of inducing ligands such as acetamide, AmiC
adopts a closed conformation which disrupts a silencing
AmiC-AmiR complex and the expression of amidase and
other genes of the operon is induced. FmdDEF is
predicted to be an ATP-dependent transporter and closely
resembles the periplasmic binding protein and the two
transmembrane proteins present in various hydrophobic
amino acid-binding transport systems.
Length = 333
Score = 27.5 bits (62), Expect = 5.5
Identities = 14/59 (23%), Positives = 25/59 (42%), Gaps = 15/59 (25%)
Query: 146 GHTTDHIVLKLEEENVVFSGDTILGE-----GTTVFSDLISYIESLRRIRSLKPDIIYP 199
++ I L EE G ++GE GT+ F +I +I++ PD++
Sbjct: 145 PRESNRIARALLEEL----GGEVVGEEYLPLGTSDFGSVI------EKIKAAGPDVVLS 193
>gnl|CDD|188239 TIGR02650, RNase_Z_T_toga, ribonuclease Z, Thermotoga type.
Members of this protein family are ribonuclease Z as
found in the genus Thermotoga, where the enzyme cleaves
after the CCA, in contrast to the activities
characterized for other enzymes also designated
ribonuclease Z. In other systems, cleavage occurs
5-prime to the location of the CCA sequence, and CCA is
added subsequently. A species may lack ribonuclease Z
if all tRNA genes encode the CCA sequence, or if the
CCA is exposed by exonuclease activity rather than
endonuclease activity. Note that members of this
sequence family differ considerably from the majority
of RNase Z sequences [Transcription, RNA processing].
Length = 277
Score = 27.3 bits (60), Expect = 6.4
Identities = 13/45 (28%), Positives = 22/45 (48%), Gaps = 8/45 (17%)
Query: 42 RLLLDTGEPDHMEYIENLKQVLNKESISLEHIVLSHWHNDHVGGL 86
R+L D GE + L + + +++ L+H H DH+ GL
Sbjct: 20 RILFDAGE--------GVSTTLGSKVYAFKYVFLTHGHVDHIAGL 56
>gnl|CDD|225802 COG3263, COG3263, NhaP-type Na+/H+ and K+/H+ antiporters with a
unique C-terminal domain [Inorganic ion transport and
metabolism].
Length = 574
Score = 27.4 bits (61), Expect = 7.7
Identities = 12/44 (27%), Positives = 18/44 (40%), Gaps = 1/44 (2%)
Query: 133 KVEGATLRVIHTPGHTTDHIVLKLEEENVVFSGDTILGEGTTVF 176
GA LR + P T V + + + + G T L EG +
Sbjct: 424 WCVGAALRNLRMPKWTRIAAVFR-DGQLIHPQGSTRLREGDVLC 466
>gnl|CDD|218013 pfam04298, Zn_peptidase_2, Putative neutral zinc metallopeptidase.
Zinc metallopeptidase zinc binding regions have been
predicted in some family members by a pattern match
(Prosite:PS00142).
Length = 222
Score = 26.7 bits (60), Expect = 9.0
Identities = 12/34 (35%), Positives = 19/34 (55%), Gaps = 7/34 (20%)
Query: 140 RVIHTPGHTTDHI-----VLKLEEENVVFSGDTI 168
RV PG TDH V++L E+ V++G ++
Sbjct: 56 RVESVPGQLTDHYDPRNKVVRLSED--VYNGRSV 87
>gnl|CDD|171505 PRK12446, PRK12446, undecaprenyldiphospho-muramoylpentapeptide
beta-N-acetylglucosaminyltransferase; Reviewed.
Length = 352
Score = 26.7 bits (59), Expect = 9.1
Identities = 12/27 (44%), Positives = 17/27 (62%), Gaps = 4/27 (14%)
Query: 183 IESLRRIRSLKPDIIYPAHG----PVV 205
+++ RIR LKPD+I+ G PVV
Sbjct: 81 MDAYVRIRKLKPDVIFSKGGFVSVPVV 107
>gnl|CDD|237869 PRK14962, PRK14962, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 472
Score = 27.0 bits (60), Expect = 9.2
Identities = 19/86 (22%), Positives = 35/86 (40%), Gaps = 10/86 (11%)
Query: 56 IENLKQVLNKESISLEHIVLSHWHNDHVGGLKDIFEHINPDSATIWKFKG---TEKDEAQ 112
I+ L++V E I ++ LS GGL+D + +WKF T + +
Sbjct: 182 IKRLQEVAEAEGIEIDREALSFIAKRASGGLRDALTMLE----QVWKFSEGKITLETVHE 237
Query: 113 ATDFVPE---NKTVQTLTDGQLLKVE 135
A +P + + +G + +V
Sbjct: 238 ALGLIPIEVVRDYINAIFNGDVKRVF 263
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
0.316 0.135 0.391
Gapped
Lambda K H
0.267 0.0616 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,110,711
Number of extensions: 1056019
Number of successful extensions: 1168
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1142
Number of HSP's successfully gapped: 62
Length of query: 216
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 123
Effective length of database: 6,812,680
Effective search space: 837959640
Effective search space used: 837959640
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 (21.6 bits)
S2: 57 (26.0 bits)