RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5665
(344 letters)
>gnl|CDD|178547 PLN02962, PLN02962, hydroxyacylglutathione hydrolase.
Length = 251
Score = 309 bits (794), Expect = e-105
Identities = 150/302 (49%), Positives = 178/302 (58%), Gaps = 65/302 (21%)
Query: 42 LFRQLFDSISYTHTYILAD--KLSKECVIIDPVLEQADRDVTLINQLGLTLKYVINTHVH 99
LFRQLF+ S T+TY+LAD K ++IDPV + DRD++L+ +LGL
Sbjct: 12 LFRQLFEKESSTYTYLLADVSHPDKPALLIDPVDKTVDRDLSLVKELGL----------- 60
Query: 100 ADHITGTGKIKTMYVINTHVHADHITGTGKIKTMVNNVQSIISKESGAQADIHVTHGDTI 159
K +Y +NTHVHADH+TGTG +KT + V+SIISK SG++AD+ V GD I
Sbjct: 61 ----------KLIYAMNTHVHADHVTGTGLLKTKLPGVKSIISKASGSKADLFVEPGDKI 110
Query: 160 DFGDQQLEVRATPGHTDGCVTYVNQGEGMAFTGDTLLIRGCGRTDFQQGGSGVPVRATPG 219
FGD LEVRATPGHT GCVTYV TG+ G P P
Sbjct: 111 YFGDLYLEVRATPGHTAGCVTYV--------TGE---------------GPDQP---QP- 143
Query: 220 HTDGCVTYVNQGEGMAFTGDTLLIRGCGRTDFQQGDSHKLFQSVRKEIFSLPDHFRVYPA 279
MAFTGD LLIRGCGRTDFQ G S +L++SV +IF+LP +YPA
Sbjct: 144 -------------RMAFTGDALLIRGCGRTDFQGGSSDQLYKSVHSQIFTLPKDTLIYPA 190
Query: 280 HDYHGFSHSTVGEEKLYNPRLGEQISEEKFVEIMNNLKLSLPKKIDVAVPANMKCGLQDG 339
HDY GF+ STVGEE LYNPRL + EE F IM NL L PK IDVAVPANM CGLQD
Sbjct: 191 HDYKGFTVSTVGEEMLYNPRLTK--DEETFKTIMENLNLPYPKMIDVAVPANMVCGLQDP 248
Query: 340 VP 341
Sbjct: 249 PA 250
>gnl|CDD|223565 COG0491, GloB, Zn-dependent hydrolases, including glyoxylases
[General function prediction only].
Length = 252
Score = 104 bits (259), Expect = 5e-26
Identities = 59/269 (21%), Positives = 92/269 (34%), Gaps = 66/269 (24%)
Query: 53 THTYILADKLSKECVIIDPVL--EQADRDVTLINQLGLTLKYVINTHVHADHITGTGKIK 110
++ L V+ID L A+ + + LGL + ++ TH H DHI G +K
Sbjct: 24 GNSVYLLVDGEGGAVLIDTGLGDADAEALLEALAALGLDVDAILLTHGHFDHIGGAAVLK 83
Query: 111 TMYVINTHVH--ADHITGTGKIKTMVNNVQSIISKESGAQADIHVTHGDTIDFGDQQLEV 168
+ + + +I + GA + GD +D G +LEV
Sbjct: 84 EAFGAAPVIAPAEVPLLLREEILRKAGVTAEAYAA-PGASPLRALEDGDELDLGGLELEV 142
Query: 169 RATPGHTDGCVTYVNQGEGMAFTGDTLLIRGCGRTDFQQGGSGVPVRATPGHTDGCVTYV 228
TPGHT G + ++ + G+ FTGDTL
Sbjct: 143 LHTPGHTPGHIVFLLEDGGVLFTGDTLFAGD----------------------------- 173
Query: 229 NQGEGMAFTGDTLLIRGCGRTDFQQGDSHKLFQSVRKEIFSLPDHFRVYPAHDYHGFS-- 286
G GR D GD+ +L S+R+ + L V P H +
Sbjct: 174 ---------------TGVGRLDLPGGDAAQLLASLRRLLLLLLPDTLVLPGHGPDEYDPA 218
Query: 287 ---------------HSTVGEEKLYNPRL 300
+T+G+E+ NP L
Sbjct: 219 ARALALTAPRLLEVAETTLGDERRLNPFL 247
>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 = 98.4 bits (245), Expect = 1e-24
Identities = 40/153 (26%), Positives = 68/153 (44%), Gaps = 6/153 (3%)
Query: 54 HTYILADKLSKECVIIDPVLEQADRDVTLINQLGL-TLKYVINTHVHADHITGTGKIKTM 112
++Y++ D ++ID +A+ + + +LG + +I TH H DHI G ++
Sbjct: 1 NSYLVRDD--GGAILIDTGPGEAEDLLAELKKLGPKKIDAIILTHGHPDHIGGLPELLEA 58
Query: 113 YVINTHVHADHITGTGKIKTMVNNVQSIISKESGAQADIHVTHGDTIDFGDQQLEVRATP 172
+ +K ++ + + ++ A D + GD +D G +LEV TP
Sbjct: 59 PGAPVYAPEGTA---ELLKDLLALLGELGAEAEPAPPDRTLKDGDELDLGGGELEVIHTP 115
Query: 173 GHTDGCVTYVNQGEGMAFTGDTLLIRGCGRTDF 205
GHT G + + FTGD L G GRT
Sbjct: 116 GHTPGSIVLYLPEGKILFTGDLLFAGGDGRTLV 148
>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 = 96.8 bits (242), Expect = 2e-23
Identities = 53/232 (22%), Positives = 82/232 (35%), Gaps = 83/232 (35%)
Query: 56 YILADKLSKECVIID-----PVLEQADRDVTLINQLGLTLKYVINTHVHADHITGTGKIK 110
++L D + ++D PVL+ + GLTL ++ TH H DH+ G ++
Sbjct: 13 WLLHDP-DGQAAVVDPGEAEPVLDALE-------ARGLTLTAILLTHHHHDHVGGVAELL 64
Query: 111 TMYVINTHVHADHITGTGKIKTMVNNVQSIISKESGAQADIHVTHGDTIDFGDQQLEVRA 170
+ + A+ +I + V GDT+ G + EV A
Sbjct: 65 EAFPAPVYGPAEE-----RIPGI----------------THPVKDGDTVTLGGLEFEVLA 103
Query: 171 TPGHTDGCVTYVNQGEGMAFTGDTLLIRGCGRTDFQQGGSGVPVRATPGHTDGCVTYVNQ 230
PGHT G + Y F GDTL GCGR
Sbjct: 104 VPGHTLGHIAYYLPDSPALFCGDTLFSAGCGRL--------------------------- 136
Query: 231 GEGMAFTGDTLLIRGCGRTDFQQGDSHKLFQSVRKEIFSLPDHFRVYPAHDY 282
F G +Q ++ S+++ + +LPD VY AH+Y
Sbjct: 137 -----FEG-----------TPEQ-----MYDSLQR-LAALPDDTLVYCAHEY 166
>gnl|CDD|216099 pfam00753, Lactamase_B, Metallo-beta-lactamase superfamily.
Length = 148
Score = 68.9 bits (168), Expect = 3e-14
Identities = 35/146 (23%), Positives = 57/146 (39%), Gaps = 7/146 (4%)
Query: 53 THTYILADKLSKECVIIDPVLEQADRD--VTLINQLGLTLKYVINTHVHADHITGTGKIK 110
+++Y++ V+ID L D + L+ + +I TH HADHI G ++K
Sbjct: 6 SNSYLVEGD--GGAVLIDTGLGADDALLLLALLGLDPKDIDAIILTHAHADHIGGLPELK 63
Query: 111 TMYVINTHVHADHITGTGKIKTMVNNVQSIISKESGAQADIHVTHGDTIDFGDQQLEVRA 170
+ ++ ++ ++ D+ + GD I G L V
Sbjct: 64 EATGAPVVAAPEDAAALLRLGLDDAELRKLVDVLPV---DVDLEGGDGILGGGLLLFVTP 120
Query: 171 TPGHTDGCVTYVNQGEGMAFTGDTLL 196
PGH G V G + FTGD L
Sbjct: 121 HPGHGPGHVVVYLPGGKVLFTGDLLF 146
>gnl|CDD|215223 PLN02398, PLN02398, hydroxyacylglutathione hydrolase.
Length = 329
Score = 69.5 bits (170), Expect = 2e-13
Identities = 45/152 (29%), Positives = 68/152 (44%), Gaps = 27/152 (17%)
Query: 54 HTYILADKLSKECVIIDPVLEQADRDVTLINQLGLTLKYVINTHVHADHITGTGKIKTMY 113
+ Y+L D+ + ++DP +A + +++ L Y++NTH H DH G ++K Y
Sbjct: 88 YAYLLHDEDTGTVGVVDP--SEAVPVIDALSRKNRNLTYILNTHHHYDHTGGNLELKARY 145
Query: 114 ---VINTHVHADHITGTGKIKTMVNNVQSIISKESGAQADIHVTHGDTIDFGDQQLEVRA 170
VI + V D I G DI + GD F ++ V
Sbjct: 146 GAKVIGSAVDKDRIPGI----------------------DIVLKDGDKWMFAGHEVLVME 183
Query: 171 TPGHTDGCVTYVNQGEGMAFTGDTLLIRGCGR 202
TPGHT G +++ G G FTGDTL CG+
Sbjct: 184 TPGHTRGHISFYFPGSGAIFTGDTLFSLSCGK 215
Score = 59.5 bits (144), Expect = 6e-10
Identities = 47/172 (27%), Positives = 66/172 (38%), Gaps = 51/172 (29%)
Query: 113 YVINTHVHADHITGTGKIKTMVNN--VQSIISKESGAQADIHVTHGDTIDFGDQQLEVRA 170
Y++NTH H DH G ++K + S + K+ DI + GD F
Sbjct: 124 YILNTHHHYDHTGGNLELKARYGAKVIGSAVDKDRIPGIDIVLKDGDKWMFA-------- 175
Query: 171 TPGHTDGCVTYVNQGEGMAFTGDTLLIRGCGRTDFQQGGSGVPVRATPGHTDGCVTYVNQ 230
GH V V TPGHT G +++
Sbjct: 176 --GHE------------------------------------VLVMETPGHTRGHISFYFP 197
Query: 231 GEGMAFTGDTLLIRGCGRTDFQQGDSHKLFQSVRKEIFSLPDHFRVYPAHDY 282
G G FTGDTL CG+ +G ++ S++K I SLPD +Y H+Y
Sbjct: 198 GSGAIFTGDTLFSLSCGK--LFEGTPEQMLSSLQK-IISLPDDTNIYCGHEY 246
>gnl|CDD|178088 PLN02469, PLN02469, hydroxyacylglutathione hydrolase.
Length = 258
Score = 66.3 bits (162), Expect = 2e-12
Identities = 62/235 (26%), Positives = 94/235 (40%), Gaps = 77/235 (32%)
Query: 54 HTYILADKLSKECVIIDPVLEQADRDVTLINQLGLTLKYVINTHVHADHITGTGKIKTMY 113
+ Y++ D+ +K+ ++DPV + K + H H I
Sbjct: 13 YAYLIIDESTKDAAVVDPVDPE---------------KVLQAAHEHGAKIK--------L 49
Query: 114 VINTHVHADHITGTGKIKTMVNNVQSIISKESGAQADIHVTHGDTIDFGDQQLEVRATPG 173
V+ TH H DH G KIK +V ++ +G ++D
Sbjct: 50 VLTTHHHWDHAGGNEKIKKLVPGIK---------------VYGGSLD------------- 81
Query: 174 HTDGCVTYVNQGEGMAFTGDTLLIRGCGRTDFQQGGSGVPVRA--TPGHTDGCVTY-VNQ 230
+ GC V G D L + G V + A TP HT G ++Y V
Sbjct: 82 NVKGCTHPVENG-------DKLSL-----------GKDVNILALHTPCHTKGHISYYVTG 123
Query: 231 GEGM---AFTGDTLLIRGCGRTDFQQGDSHKLFQSVRKEIFSLPDHFRVYPAHDY 282
EG FTGDTL I GCG+ F +G + +++QS+ + SLP +VY H+Y
Sbjct: 124 KEGEDPAVFTGDTLFIAGCGK--FFEGTAEQMYQSLCVTLGSLPKPTQVYCGHEY 176
>gnl|CDD|182327 PRK10241, PRK10241, hydroxyacylglutathione hydrolase; Provisional.
Length = 251
Score = 52.9 bits (127), Expect = 5e-08
Identities = 32/91 (35%), Positives = 48/91 (52%), Gaps = 15/91 (16%)
Query: 192 GDTLLIRGCGRTDFQQGGSGVPVRATPGHTDGCVTYVNQGEGMAFTGDTLLIRGCGRTDF 251
G+T + G + F ATPGHT G + Y + + F GDTL GCGR
Sbjct: 92 GETAFVLGHEFSVF----------ATPGHTLGHICYFS--KPYLFCGDTLFSGGCGR--L 137
Query: 252 QQGDSHKLFQSVRKEIFSLPDHFRVYPAHDY 282
+G + +++QS++K I +LPD + AH+Y
Sbjct: 138 FEGTASQMYQSLKK-INALPDDTLICCAHEY 167
Score = 46.4 bits (110), Expect = 7e-06
Identities = 38/147 (25%), Positives = 60/147 (40%), Gaps = 25/147 (17%)
Query: 56 YILADKLSKECVIIDPVLEQADRDVTLINQLGLTLKYVINTHVHADHITGTGKIKTMYVI 115
++L D+ + C+I+DP +A+ + I + + + TH H DH+ G ++
Sbjct: 15 WVLNDEAGR-CLIVDP--GEAEPVLNAIAENNWQPEAIFLTHHHHDHVGGVKELVE---- 67
Query: 116 NTHVHADHITGTGKIKTMVNNVQSIISKESGAQADIHVTHGDTIDFGDQQLEVRATPGHT 175
I G +T + V G+T + V ATPGHT
Sbjct: 68 ----KFPQIVVYGPQETQDKGTTQV------------VKDGETAFVLGHEFSVFATPGHT 111
Query: 176 DGCVTYVNQGEGMAFTGDTLLIRGCGR 202
G + Y + + F GDTL GCGR
Sbjct: 112 LGHICYFS--KPYLFCGDTLFSGGCGR 136
>gnl|CDD|224156 COG1235, PhnP, Metal-dependent hydrolases of the beta-lactamase
superfamily I [General function prediction only].
Length = 269
Score = 35.5 bits (82), Expect = 0.026
Identities = 24/146 (16%), Positives = 51/146 (34%), Gaps = 13/146 (8%)
Query: 62 LSKECVIIDPVLEQADRDVTLINQLGLTLKYVINTHVHADHITGTGKIKTMYVINTHVHA 121
+ + ++ID + D+ + L ++ TH H+DHI G ++ Y + +V+
Sbjct: 38 VGVKTLLIDAGPDLRDQG---LRLGVSDLDAILLTHEHSDHIQGLDDLRRAYTLPIYVNP 94
Query: 122 --DHITGTGKIKTMVNNVQSIISKESGAQA--DIHVTH----GDTIDFGDQQLEVRATPG 173
+ + ++ + A + VT D I+ +
Sbjct: 95 GTLRASTSDRLLGGFPYLFRHPFPPFSLPAIGGLEVTPFPVPHDAIEPVGFVIIRTGRKL 154
Query: 174 HTDGCVTYV--NQGEGMAFTGDTLLI 197
H + Y + +A+ DT L
Sbjct: 155 HGGTDIGYGLEWRIGDVAYLTDTELF 180
>gnl|CDD|225130 COG2220, COG2220, Predicted Zn-dependent hydrolases of the
beta-lactamase fold [General function prediction only].
Length = 258
Score = 34.4 bits (79), Expect = 0.052
Identities = 37/164 (22%), Positives = 56/164 (34%), Gaps = 38/164 (23%)
Query: 67 VIIDPVLEQADRDVTLINQLGLTLK----YVINTHVHADHITGTGKIKTMYVINTHVHAD 122
++IDPVL A L L Y++ TH H DH ++
Sbjct: 26 ILIDPVLSGAPSPSNFPGGLFEDLLPPIDYILITHDHYDH------------LDDETLIA 73
Query: 123 HITGTGKIKTMVNNVQSIISKESGAQAD-IHVTH-GDTIDFGDQQL--------EVRATP 172
T + +V + G +A+ +H GD I+ GD ++ R P
Sbjct: 74 LRTNKAPVV-VVPLGAGDLLIRDGVEAERVHELGWGDVIELGDLEITAVPAYHVSARHLP 132
Query: 173 GH----TDGCVTYVNQGEG--MAFTGDT-----LLIRGCGRTDF 205
G T V YV + G + GDT ++ G D
Sbjct: 133 GRGIRPTGLWVGYVIETPGGRVYHAGDTGYLFLIIEELDGPVDV 176
>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 = 32.9 bits (75), Expect = 0.16
Identities = 27/140 (19%), Positives = 52/140 (37%), Gaps = 17/140 (12%)
Query: 67 VIIDPVLEQADRDVTLINQLGLT--LKYVINTHVHADHITGTGKIKTMYVINTHVHAD-H 123
++IDP D + L + V+ +H HADHI G + T+ + +
Sbjct: 3 ILIDPGPGTRDLRQQPLAAPALLPRIDAVLLSHAHADHILG---LLTLRELIKRLPKRLP 59
Query: 124 ITGTGKIKTMVN-NVQSIISKESGAQADIHVT-HGDTIDFGDQQLEVRATPG-HTDGCVT 180
+ G + + + ++ +I G+ ++ G L + A P H G
Sbjct: 60 VYGPPGVAEDLRAPIFGVLPLFPVFDIEIFEIDIGEDVEVGG--LTITAFPVQHGSGRYL 117
Query: 181 YVN------QGEGMAFTGDT 194
G+ + ++GDT
Sbjct: 118 LREGFRIETPGKKIYYSGDT 137
>gnl|CDD|225212 COG2333, ComEC, Predicted hydrolase (metallo-beta-lactamase
superfamily) [General function prediction only].
Length = 293
Score = 32.7 bits (75), Expect = 0.25
Identities = 29/129 (22%), Positives = 44/129 (34%), Gaps = 33/129 (25%)
Query: 80 VTLINQLGLT-LKYVINTHVHADHITG------TGKIKTMYVINTHVHADHITGTGKIKT 132
+ + LG+ L +I TH ADHI G T K+ +++
Sbjct: 80 IPYLKSLGVRKLDQLILTHPDADHIGGLDEVLKTIKVPELWIYA---------------- 123
Query: 133 MVNNVQSIISKESGAQADIHVTHGDTIDFGDQQLEVRATPGHT------DGCVTYVNQGE 186
++ S GD+ +G +V + G D CV V G
Sbjct: 124 -GSDSTSTFVLRDAGIPVRSCKAGDSWQWGGVVFQVLSPVGGVSDDLNNDSCVLRVTFG- 181
Query: 187 GMAF--TGD 193
G +F TGD
Sbjct: 182 GNSFLLTGD 190
>gnl|CDD|223503 COG0426, FpaA, Uncharacterized flavoproteins [Energy production and
conversion].
Length = 388
Score = 32.3 bits (74), Expect = 0.34
Identities = 25/104 (24%), Positives = 38/104 (36%), Gaps = 12/104 (11%)
Query: 113 YVINTHVHADHITGTGKIKTMVNNVQSIISK-------ESGAQADIH--VTHGDTIDFGD 163
Y+I H DH ++ + N + I SK + V GDT+D G
Sbjct: 75 YIIVNHTEPDHSGSLPELLELAPNAKIICSKLAARFLKGFYHDPEWFKIVKTGDTLDLGG 134
Query: 164 QQLE-VRATPGH-TDGCVTYVNQGEGMAFTGDTLLIRGCGRTDF 205
L+ + A H D TY + + + F+ D C F
Sbjct: 135 HTLKFIPAPFLHWPDTMFTYDPE-DKILFSCDAFGAHVCDDYRF 177
>gnl|CDD|99916 cd05533, POLBc_delta, DNA polymerase type-B delta subfamily
catalytic domain. Three DNA-dependent DNA polymerases
type B (alpha, delta, and epsilon) have been identified
as essential for nuclear DNA replication in eukaryotes.
Presently, no direct data is available regarding the
strand specificity of DNA polymerase during DNA
replication in vivo. However, mutation analysis supports
the hypothesis that DNA polymerase delta is the enzyme
responsible for both elongation and maturation of
Okazaki fragments on the lagging strand.
Length = 393
Score = 31.5 bits (72), Expect = 0.57
Identities = 14/50 (28%), Positives = 23/50 (46%), Gaps = 6/50 (12%)
Query: 124 ITGTGK--IKTMVNNVQSIISKESGAQADIHVTHGDT----IDFGDQQLE 167
+T G+ I+ V+ +K +G D V +GDT + FG +E
Sbjct: 140 VTSFGRQMIEKTKKLVEEKYTKANGYSHDAKVIYGDTDSVMVKFGVSDVE 189
>gnl|CDD|235972 PRK07225, PRK07225, DNA-directed RNA polymerase subunit B';
Validated.
Length = 605
Score = 31.1 bits (71), Expect = 1.1
Identities = 14/36 (38%), Positives = 21/36 (58%), Gaps = 2/36 (5%)
Query: 283 HGFSHSTVGEEKLYNPRLGEQISEEKFVEIMNNLKL 318
GF H+ G+E +Y+ GE+I E FV ++ KL
Sbjct: 446 LGFEHT--GKEVMYDGITGEKIEAEIFVGVIYYQKL 479
>gnl|CDD|224157 COG1236, YSH1, Predicted exonuclease of the beta-lactamase fold
involved in RNA processing [Translation, ribosomal
structure and biogenesis].
Length = 427
Score = 30.5 bits (69), Expect = 1.2
Identities = 26/146 (17%), Positives = 48/146 (32%), Gaps = 17/146 (11%)
Query: 62 LSKECVIIDPVLEQADR-DVTLINQLGLTLKYVINTHVHADHITG-----TGKIKTMYVI 115
+++D L D + + V+ TH H DHI + V
Sbjct: 21 TGGTRILLDCGLFPGDPSPERPLLPPFPKVDAVLLTHAHLDHIGALPYLVRNGFEG-PVY 79
Query: 116 NTHVHAD--HITGTGKIKTMVNNVQSIISKESGAQADIH---VTHGDTIDFGDQQLEVRA 170
T A + +K + S+E + + +G+ ++ G ++V
Sbjct: 80 ATPPTAALLKVLLGDSLKLAEGPDKPPYSEEDVERVPDLIRPLPYGEPVEVGG--VKVTF 137
Query: 171 TP-GHTDGCVTYV--NQGEGMAFTGD 193
GH G + G + +TGD
Sbjct: 138 YNAGHILGSAAILLEVDGGRILYTGD 163
>gnl|CDD|227615 COG5296, COG5296, Transcription factor involved in TATA site
selection and in elongation by RNA polymerase II
[Transcription].
Length = 521
Score = 30.8 bits (69), Expect = 1.3
Identities = 15/67 (22%), Positives = 21/67 (31%), Gaps = 8/67 (11%)
Query: 249 TDFQQGDSHKLFQ----SVRKEIFSLPDHFRVYPAHDYHGFSHSTVGEEKLYNPRLG--- 301
T + KL + R+E H + DY S G ++ Y P
Sbjct: 138 TSAAEEKKKKLLELKKTREREERLYSERHIELQRFKDYKELEESEQGLQEEYTPSYAEEA 197
Query: 302 -EQISEE 307
E IS
Sbjct: 198 VEDISRT 204
>gnl|CDD|223163 COG0085, RpoB, DNA-directed RNA polymerase, beta subunit/140 kD
subunit [Transcription].
Length = 1060
Score = 30.6 bits (70), Expect = 1.6
Identities = 15/36 (41%), Positives = 19/36 (52%), Gaps = 2/36 (5%)
Query: 283 HGFSHSTVGEEKLYNPRLGEQISEEKFVEIMNNLKL 318
GF +S G+E LY+ R GE FV +M KL
Sbjct: 917 AGFPYS--GKEVLYDGRTGEPFDAPIFVGVMYYQKL 950
>gnl|CDD|132709 TIGR03670, rpoB_arch, DNA-directed RNA polymerase subunit B. This
model represents the archaeal version of DNA-directed
RNA polymerase subunit B (rpoB) and is observed in all
archaeal genomes.
Length = 599
Score = 29.6 bits (67), Expect = 2.6
Identities = 11/36 (30%), Positives = 19/36 (52%), Gaps = 2/36 (5%)
Query: 283 HGFSHSTVGEEKLYNPRLGEQISEEKFVEIMNNLKL 318
GF G+E +Y+ GE++ E F+ ++ KL
Sbjct: 440 LGFKPD--GKEVMYDGITGEKLEAEIFIGVIYYQKL 473
>gnl|CDD|182813 PRK10888, PRK10888, octaprenyl diphosphate synthase; Provisional.
Length = 323
Score = 29.4 bits (66), Expect = 2.7
Identities = 19/45 (42%), Positives = 24/45 (53%), Gaps = 13/45 (28%)
Query: 72 VLEQADRDVTLINQLGLTLKYVINTHVHADHITGTGK-IKTMYVI 115
+LEQ + DV LINQLG Y I I+G GK I+ M +
Sbjct: 21 ILEQLNSDVQLINQLG----YYI--------ISGGGKRIRPMIAV 53
>gnl|CDD|224155 COG1234, ElaC, Metal-dependent hydrolases of the beta-lactamase
superfamily III [General function prediction only].
Length = 292
Score = 28.9 bits (65), Expect = 3.9
Identities = 18/94 (19%), Positives = 30/94 (31%), Gaps = 8/94 (8%)
Query: 90 LKYVINTHVHADHITG-TGKIKTMYVINTHVHADHITGTGKIKTMVNNVQSIISKESGAQ 148
+ + TH+H DHI G G + + I G IK V + + +
Sbjct: 54 IDAIFITHLHGDHIAGLPGLLVSRSFRGRR-EPLKIYGPPGIKEFVETSLRLSYSKLTYE 112
Query: 149 ADIHVTHGDTIDFGDQQLEVRATPGHTDGCVTYV 182
H D + +L+ H + Y
Sbjct: 113 IIGHEIEEDAFEVEALELD------HGVPALGYR 140
>gnl|CDD|237025 PRK11929, PRK11929, putative bifunctional
UDP-N-acetylmuramoylalanyl-D-glutamate--2,
6-diaminopimelate
ligase/UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-
alanine ligase; Provisional.
Length = 958
Score = 28.9 bits (65), Expect = 4.8
Identities = 13/34 (38%), Positives = 17/34 (50%)
Query: 234 MAFTGDTLLIRGCGRTDFQQGDSHKLFQSVRKEI 267
MA GD +LI G G +Q+ KLF R+
Sbjct: 460 MAAPGDVILIAGKGHETYQEIGGRKLFFDDREWA 493
>gnl|CDD|237940 PRK15313, PRK15313, autotransport protein MisL; Provisional.
Length = 955
Score = 28.6 bits (63), Expect = 5.3
Identities = 11/38 (28%), Positives = 23/38 (60%)
Query: 99 HADHITGTGKIKTMYVINTHVHADHITGTGKIKTMVNN 136
+ D +TG K+ ++++ N H G+G++KT +N+
Sbjct: 666 YTDMLTGEKKVTSLWMRNVGAHTRFNDGSGQLKTRINS 703
>gnl|CDD|235013 PRK02220, PRK02220, 4-oxalocrotonate tautomerase; Provisional.
Length = 61
Score = 26.3 bits (58), Expect = 5.4
Identities = 15/38 (39%), Positives = 23/38 (60%), Gaps = 3/38 (7%)
Query: 119 VHADHITGTG--KIKTMVNNVQSIISKESGAQAD-IHV 153
VH I G ++K +V +V + +SK +GA A+ IHV
Sbjct: 4 VHIKLIEGRTEEQLKALVKDVTAAVSKNTGAPAEHIHV 41
>gnl|CDD|177972 PLN02338, PLN02338, 3-phosphoshikimate 1-carboxyvinyltransferase.
Length = 443
Score = 28.6 bits (64), Expect = 5.8
Identities = 12/23 (52%), Positives = 14/23 (60%), Gaps = 1/23 (4%)
Query: 233 GMAFTGDTLLIRGCGRTDFQQGD 255
G A TG T+ + GCG T QGD
Sbjct: 261 GAAITGGTVTVEGCG-TTSLQGD 282
>gnl|CDD|115172 pfam06500, DUF1100, Alpha/beta hydrolase of unknown function
(DUF1100). This family consists of several hypothetical
bacterial proteins of unknown function. Members of this
family have an alpha/beta hydrolase fold.
Length = 411
Score = 28.3 bits (63), Expect = 6.0
Identities = 10/24 (41%), Positives = 13/24 (54%), Gaps = 2/24 (8%)
Query: 255 DSHKLFQSVRKEIFSLP--DHFRV 276
DS L Q+V + +P DH RV
Sbjct: 240 DSSCLHQAVLNALADVPWVDHHRV 263
>gnl|CDD|236082 PRK07737, fliD, flagellar capping protein; Validated.
Length = 501
Score = 28.2 bits (63), Expect = 7.1
Identities = 13/28 (46%), Positives = 15/28 (53%)
Query: 139 SIISKESGAQADIHVTHGDTIDFGDQQL 166
+I SK +GA A I G T F QQL
Sbjct: 182 AITSKATGAGASIQAADGATASFFSQQL 209
>gnl|CDD|215994 pfam00562, RNA_pol_Rpb2_6, RNA polymerase Rpb2, domain 6. RNA
polymerases catalyze the DNA dependent polymerisation of
RNA. Prokaryotes contain a single RNA polymerase
compared to three in eukaryotes (not including
mitochondrial. and chloroplast polymerases). This domain
represents the hybrid binding domain and the wall
domain. The hybrid binding domain binds the nascent RNA
strand / template DNA strand in the Pol II transcription
elongation complex. This domain contains the important
structural motifs, switch 3 and the flap loop and binds
an active site metal ion. This domain is also involved
in binding to Rpb1 and Rpb3. Many of the bacterial
members contain large insertions within this domain, as
region known as dispensable region 2 (DRII).
Length = 373
Score = 28.3 bits (64), Expect = 7.2
Identities = 12/36 (33%), Positives = 17/36 (47%), Gaps = 2/36 (5%)
Query: 283 HGFSHSTVGEEKLYNPRLGEQISEEKFVEIMNNLKL 318
G++ G+E LY+ R GE FV + KL
Sbjct: 311 AGYNAY--GKEVLYDGRTGEPFKAPIFVGPIYYQKL 344
>gnl|CDD|234602 PRK00055, PRK00055, ribonuclease Z; Reviewed.
Length = 270
Score = 27.8 bits (63), Expect = 7.3
Identities = 9/23 (39%), Positives = 13/23 (56%), Gaps = 2/23 (8%)
Query: 104 TGTGKIKTMYVINTHVHADHITG 126
KI +++ TH+H DHI G
Sbjct: 49 IKPRKIDKIFI--THLHGDHIFG 69
>gnl|CDD|132757 cd07072, NR_LBD_DHR38_like, Ligand binding domain of DHR38_like
proteins, members of the nuclear receptor superfamily.
The ligand binding domain of nuclear receptor DHR38_like
proteins: DHR38 is a member of the steroid receptor
superfamily in Drosophila. DHR38 interacts with the USP
component of the ecdysone receptor complex, suggesting
that DHR38 might modulate ecdysone-triggered signals in
the fly, in addition to the ECR/USP pathway. At least
four differentially expressed mRNA isoforms have been
detected during development. Like other members of the
nuclear receptor (NR) superfamily of ligand-activated
transcription factors, DHR38 has a central well
conserved DNA binding domain (DBD), a variable
N-terminal domain, a flexible hinge and a C-terminal
ligand binding domain (LBD).
Length = 239
Score = 27.9 bits (62), Expect = 8.2
Identities = 14/44 (31%), Positives = 18/44 (40%)
Query: 247 GRTDFQQGDSHKLFQSVRKEIFSLPDHFRVYPAHDYHGFSHSTV 290
G D + D LFQS E+F L +R P F + V
Sbjct: 67 GFPDLCKEDQELLFQSASLELFVLRLAYRTAPEDTKLTFCNGVV 110
>gnl|CDD|223049 PHA03334, PHA03334, putative DNA polymerase catalytic subunit;
Provisional.
Length = 1545
Score = 27.9 bits (62), Expect = 9.1
Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 2/42 (4%)
Query: 110 KTMYVINTHVHADHITGTGKIKTMVNNVQSIISKESGAQADI 151
K MY+ H + G KIK + +Q+ S +GA I
Sbjct: 945 KKMYIYTNHELNNGPLGNTKIK--MRGMQANKSSAAGATRRI 984
>gnl|CDD|184920 PRK14956, PRK14956, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 484
Score = 28.0 bits (62), Expect = 9.4
Identities = 14/48 (29%), Positives = 26/48 (54%), Gaps = 1/48 (2%)
Query: 12 TITFALAHCVSSARNYSSVHILENAFSNGF-LFRQLFDSISYTHTYIL 58
+T + + + S+ ILE+ + G +++ L+DSI +THT L
Sbjct: 250 FLTSFIKSLIDPDNHSKSLEILESLYQEGQDIYKFLWDSIEFTHTLNL 297
>gnl|CDD|218592 pfam05444, DUF753, Protein of unknown function (DUF753). This
family contains sequences with are repeated in several
uncharacterized proteins from Drosophila melanogaster.
Length = 148
Score = 27.2 bits (60), Expect = 9.6
Identities = 9/39 (23%), Positives = 12/39 (30%), Gaps = 8/39 (20%)
Query: 162 GDQQLEVRATPGHTDGCVTYVNQGEGMAFTGDTLLIRGC 200
L G D C T ++ D + RGC
Sbjct: 15 SVATLATEQCSGGNDTCYTRLD--------DDGVTERGC 45
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
0.320 0.137 0.411
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: 17,472,865
Number of extensions: 1671648
Number of successful extensions: 1466
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1434
Number of HSP's successfully gapped: 50
Length of query: 344
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 246
Effective length of database: 6,590,910
Effective search space: 1621363860
Effective search space used: 1621363860
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: 59 (26.7 bits)