RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15771
(265 letters)
>gnl|CDD|235691 PRK06074, PRK06074, NADH dehydrogenase subunit C; Provisional.
Length = 189
Score = 228 bits (584), Expect = 5e-76
Identities = 91/183 (49%), Positives = 120/183 (65%), Gaps = 11/183 (6%)
Query: 55 LVDFGKYCAEILPKYIEKVQITSGDELELLIIPEGVVPVLQFLKDHHTAQFVNLVDIAGM 114
L + E LP I KV + G EL L + E ++ VL FL+D +F L+D+ G+
Sbjct: 4 LEELVAKLLEKLPDAIGKVTVAFG-ELTLKVPAEKILEVLTFLRDDPELRFEQLIDLTGV 62
Query: 115 DVPSRPNRFEIIYNLLSLRYNSRIRVKTYTDELTPLDSANEVFKAANWYEREIWDMFGVY 174
D P R RFE++Y+LLS ++N R+RVK E + S +++ +ANWYERE +D++G+
Sbjct: 63 DYPERGKRFEVVYHLLSYKHNVRLRVKVRAPEDPVVPSVVDIWPSANWYEREAYDLYGIV 122
Query: 175 FSNHPDLRRILTDYGFEGHPFRKDFPLSGYVEVRYDDEKKRVVVEPLELAQEFRKFQLET 234
F HPDLRRILTDYGFEGHP RKDFPL+GYVEVRYDDE+KRVV EP+ L +
Sbjct: 123 FEGHPDLRRILTDYGFEGHPLRKDFPLTGYVEVRYDDEQKRVVYEPVTL----------S 172
Query: 235 PWE 237
PWE
Sbjct: 173 PWE 175
>gnl|CDD|223921 COG0852, NuoC, NADH:ubiquinone oxidoreductase 27 kD subunit [Energy
production and conversion].
Length = 176
Score = 188 bits (479), Expect = 2e-60
Identities = 83/164 (50%), Positives = 109/164 (66%), Gaps = 5/164 (3%)
Query: 66 LPKYIEKVQITSGDELELLIIPEGVVPVLQFLKDHHTAQFVNLVDIAGMDVPSRPNRFEI 125
L IE V + + EL L + P+ ++ VL+ LKD F +L+D+ G+D P RFE+
Sbjct: 17 LSTVIETV-VVAEGELTLKVPPDELIDVLKALKDE---GFDHLLDLTGVDYPQETERFEV 72
Query: 126 IYNLLSLRYNSRIRVKTYTDELTP-LDSANEVFKAANWYEREIWDMFGVYFSNHPDLRRI 184
+Y+LLS + N R+RVK E P + S +++ AANWYERE +DMFG+ F HPDLRRI
Sbjct: 73 VYHLLSYKDNRRVRVKVRLSEDDPHVPSVTDIWPAANWYEREAYDMFGIVFEGHPDLRRI 132
Query: 185 LTDYGFEGHPFRKDFPLSGYVEVRYDDEKKRVVVEPLELAQEFR 228
L +EGHP RKDFPL GYVEVRYD+E K+VV EP+EL E R
Sbjct: 133 LMPDDWEGHPLRKDFPLRGYVEVRYDEEDKKVVYEPVELIFERR 176
>gnl|CDD|233657 TIGR01961, NuoC_fam, NADH (or F420H2) dehydrogenase, subunit C.
This model describes the C subunit of the NADH
dehydrogenase complex I in bacteria, as well as many
instances of the corresponding mitochondrial subunit
(NADH dehydrogenase subunit 9) and of the F420H2
dehydrogenase in Methanosarcina. Complex I contains
subunits designated A-N. This C subunit often occurs as
a fusion protein with the D subunit. This model excludes
the NAD(P)H and plastoquinone-dependent form of
chloroplasts and [Energy metabolism, Electron
transport].
Length = 121
Score = 163 bits (415), Expect = 2e-51
Identities = 61/119 (51%), Positives = 78/119 (65%), Gaps = 2/119 (1%)
Query: 85 IIPEGVVPVLQFLKDHHTAQFVNLVDIAGMDVPSRPNRFEIIYNLLSLRYNSRIRVKTYT 144
I E ++ VL FLKD F L D++G+D P RFE++Y+LLS++ N RIR+K
Sbjct: 5 IKKEQLLEVLTFLKDPA-LGFELLTDVSGVDYPKE-KRFEVVYHLLSIKKNRRIRLKVRL 62
Query: 145 DELTPLDSANEVFKAANWYEREIWDMFGVYFSNHPDLRRILTDYGFEGHPFRKDFPLSG 203
E P+ S VF ANWYERE +DM+G+ F HPDLRRIL FEGHP RKD+PL+G
Sbjct: 63 SEDDPVPSLTSVFPTANWYERETYDMYGIVFDGHPDLRRILMPDDFEGHPLRKDYPLTG 121
>gnl|CDD|201159 pfam00329, Complex1_30kDa, Respiratory-chain NADH dehydrogenase, 30
Kd subunit.
Length = 103
Score = 126 bits (318), Expect = 5e-37
Identities = 47/107 (43%), Positives = 64/107 (59%), Gaps = 5/107 (4%)
Query: 92 PVLQFLKDHHTAQFVNLVDIAGMDVPSRPNRFEIIYNLLSLRYNSRIRVKTYTDELTP-L 150
V +FLK+ F L D+ G+D P RFE++Y+L SL R+R+K P +
Sbjct: 1 EVARFLKED---GFDRLSDLTGVDYPDE-GRFEVVYHLASLGDGERVRLKVKLPRDDPEI 56
Query: 151 DSANEVFKAANWYEREIWDMFGVYFSNHPDLRRILTDYGFEGHPFRK 197
S ++F ANWYERE++DMFG+ F HPDLRR+L + GHP RK
Sbjct: 57 PSITDIFPGANWYEREVYDMFGIVFEGHPDLRRLLLPEDWPGHPLRK 103
>gnl|CDD|236965 PRK11742, PRK11742, bifunctional NADH:ubiquinone oxidoreductase
subunit C/D; Provisional.
Length = 575
Score = 121 bits (307), Expect = 1e-31
Identities = 52/136 (38%), Positives = 74/136 (54%), Gaps = 9/136 (6%)
Query: 73 VQITSGDELELLIIPEGVVPVLQFLKDHHTAQFVNLVDIAGMDVPSRPNR-------FEI 125
VQ T + + E ++ VL+FL+ +V L D+ G+D R +R F +
Sbjct: 16 VQATRTGIPVVWVKREQLLEVLRFLR-KLPKPYVMLFDLHGIDERLRTHREGLPAADFTV 74
Query: 126 IYNLLSLRYNSRIRVKTYTDELTP-LDSANEVFKAANWYEREIWDMFGVYFSNHPDLRRI 184
Y+L+S+ N I +K E + + ++F ANWYERE WDMFG+ F HP LRRI
Sbjct: 75 FYHLISIERNRDIMLKVALSENDLHVPTITKIFPNANWYERETWDMFGITFDGHPHLRRI 134
Query: 185 LTDYGFEGHPFRKDFP 200
L +EGHP RKD+P
Sbjct: 135 LMPPTWEGHPLRKDYP 150
>gnl|CDD|181449 PRK08491, PRK08491, NADH dehydrogenase subunit C; Provisional.
Length = 263
Score = 112 bits (281), Expect = 1e-29
Identities = 57/166 (34%), Positives = 87/166 (52%), Gaps = 9/166 (5%)
Query: 38 EARPTIRKPIDEVARSHLVDFGKYCAEILPKYIEKVQITSGDELELLIIPEGVVPVLQFL 97
A PT + ++ ++ Y EIL YIE D+ + I + VL+ L
Sbjct: 22 VAPPTPKSYVEGSVFEKDLNHLSYKVEILESYIEL------DQAVIWIKKDDNFKVLKIL 75
Query: 98 KDHHTAQFVNLVDIAGMDVPSRPNRFEIIYNLLSLRYNSRIRVKTYTDELTPLDSANEVF 157
K + L +++ +D ++ FE+ Y LLS+ R+RVK + E L S + +F
Sbjct: 76 K---HLGYECLSEMSAIDFLAKKGGFEVFYQLLSMSKRKRVRVKCFLKEKEALQSVSFLF 132
Query: 158 KAANWYEREIWDMFGVYFSNHPDLRRILTDYGFEGHPFRKDFPLSG 203
K+ANW ERE++DMFG+ +NHP L+RIL + GHP K +PL G
Sbjct: 133 KSANWSEREMYDMFGIVINNHPYLKRILMPDDWVGHPLLKSYPLKG 178
>gnl|CDD|183955 PRK13292, PRK13292, trifunctional NADH dehydrogenase I subunit
B/C/D; Provisional.
Length = 788
Score = 114 bits (287), Expect = 9e-29
Identities = 58/135 (42%), Positives = 77/135 (57%), Gaps = 6/135 (4%)
Query: 72 KVQITSGDELELLIIPEGVVPVLQFLKDHHTAQFVNLVDIAGMDVPSRPNR-----FEII 126
++ + D L PE V VL+ LK ++ F L D+A +D R +R F +
Sbjct: 237 RLDEGATDMLTYRCPPELVPEVLRHLKKRASSPFRRLEDLAAVDESCRRDREKFPDFTVN 296
Query: 127 YNLLSLRYNSRIRVKTYTDELTP-LDSANEVFKAANWYEREIWDMFGVYFSNHPDLRRIL 185
Y+LLS +R+KT TP L SA VF AANWYERE +DMFG+ F+ HP+LRRIL
Sbjct: 297 YHLLSFDTPGHVRIKTELRGRTPELPSATGVFPAANWYEREAFDMFGIRFAGHPNLRRIL 356
Query: 186 TDYGFEGHPFRKDFP 200
+EGHP RK+ P
Sbjct: 357 MPPDWEGHPLRKEHP 371
>gnl|CDD|181115 PRK07785, PRK07785, NADH dehydrogenase subunit C; Provisional.
Length = 235
Score = 103 bits (258), Expect = 1e-26
Identities = 53/152 (34%), Positives = 81/152 (53%), Gaps = 7/152 (4%)
Query: 63 AEILPKY---IEKVQITSGDELELLIIPEGVVPVLQFLKDHHTAQFVNLVDIAGMDVP-S 118
E LP++ IE+V + G EL L + E +V V Q L+D +F + ++G+ P
Sbjct: 71 EEALPEFADAIERVVVDRG-ELTLHVRREHLVEVAQTLRDDPALRFELCLGVSGVHYPHD 129
Query: 119 RPNRFEIIYNLLSLRYNSRIRVKTYTDELTP-LDSANEVFKAANWYEREIWDMFGVYFSN 177
+Y+L S+ +N RIR++ + P + S V+ +W+ERE +D FG+ F
Sbjct: 130 TGRELHAVYHLTSITHNRRIRLEVAVPDADPHIPSLVSVYPTNDWHERETYDFFGIVFDG 189
Query: 178 HPDLRRILTDYGFEGHPFRKDFPLSGYVEVRY 209
HP L RI + GHP RKD+PL G + V Y
Sbjct: 190 HPALTRIEMPDDWVGHPQRKDYPLGG-IPVEY 220
>gnl|CDD|236081 PRK07735, PRK07735, NADH dehydrogenase subunit C; Validated.
Length = 430
Score = 74.2 bits (182), Expect = 3e-15
Identities = 45/132 (34%), Positives = 66/132 (50%), Gaps = 7/132 (5%)
Query: 69 YIEKVQITSGDELELLIIPEGVVPVLQFLKDHHTAQFVNLVDIAGMDVPSRPNRFEIIYN 128
YI K+ S D L++ PE V + L+ H F L ++ G D + E+ +
Sbjct: 298 YINKL---SKDVPTLVVEPEKYYEVAELLRFHEQLAFDYLSELHGTDFVTH---MEVYVH 351
Query: 129 LLSLRYNSRIRVKTYTDELTP-LDSANEVFKAANWYEREIWDMFGVYFSNHPDLRRILTD 187
L S + VK D P ++S ++K ANW ERE +D+ G+ F HP+L RIL
Sbjct: 352 LYSYGKRQSVAVKVKLDREAPQVESVTPLWKGANWPEREAYDLLGIVFKGHPNLSRILLP 411
Query: 188 YGFEGHPFRKDF 199
+ GHP RKD+
Sbjct: 412 DDWVGHPLRKDY 423
>gnl|CDD|183557 PRK12494, PRK12494, NADH dehydrogenase subunit J; Provisional.
Length = 172
Score = 61.5 bits (150), Expect = 9e-12
Identities = 25/63 (39%), Positives = 39/63 (61%), Gaps = 1/63 (1%)
Query: 138 IRVKTYTDELTP-LDSANEVFKAANWYEREIWDMFGVYFSNHPDLRRILTDYGFEGHPFR 196
+R+K + P + S ++K A+W ERE +DM+G+ F HP+L+RIL + G P R
Sbjct: 98 VRLKVFLPRDDPRVPSVYWIWKGADWQERETYDMYGINFEGHPNLKRILMPEDWVGWPLR 157
Query: 197 KDF 199
KD+
Sbjct: 158 KDY 160
>gnl|CDD|176955 CHL00012, ndhJ, NADH dehydrogenase subunit J.
Length = 158
Score = 54.3 bits (131), Expect = 3e-09
Identities = 21/44 (47%), Positives = 31/44 (70%)
Query: 156 VFKAANWYEREIWDMFGVYFSNHPDLRRILTDYGFEGHPFRKDF 199
V+K+A++ ERE +DM G+ + NHP L+RIL + G P RKD+
Sbjct: 103 VWKSADFQERESYDMLGISYDNHPRLKRILMPESWIGWPLRKDY 146
>gnl|CDD|225801 COG3262, HycE, Ni,Fe-hydrogenase III component G [Energy production
and conversion].
Length = 165
Score = 52.1 bits (125), Expect = 2e-08
Identities = 24/68 (35%), Positives = 33/68 (48%), Gaps = 3/68 (4%)
Query: 135 NSRIRVKTYTDELTP-LDSANEVFKAANWYEREIWDMFGVYFSNHPDLRRIL--TDYGFE 191
+ VK P S +F AA W+EREI DM+G+ PD RR++ D+
Sbjct: 84 KCWVIVKVSVPADNPEFPSVAPIFPAALWFEREIRDMYGLDPVGAPDPRRLVLPDDWPEG 143
Query: 192 GHPFRKDF 199
+P RKD
Sbjct: 144 IYPLRKDA 151
>gnl|CDD|227188 COG4851, CamS, Protein involved in sex pheromone biosynthesis
[General function prediction only].
Length = 382
Score = 29.0 bits (65), Expect = 2.4
Identities = 16/53 (30%), Positives = 25/53 (47%), Gaps = 5/53 (9%)
Query: 39 ARPTIRKPIDEVARSHLVDFGKYCAEILPKYIEK-----VQITSGDELELLII 86
TI PI ++ +V F ++ + + +Y K V I SGD E LI+
Sbjct: 316 QELTIDIPIQYYGKAEIVAFTQFVTDRVEQYFPKNIDVQVNINSGDGQEALIV 368
>gnl|CDD|198034 smart00966, SpoVT_AbrB, SpoVT / AbrB like domain. This domain is
found in AbrB from Bacillus subtilis. The product of
the abrB gene is an ambiactive repressor and activator
of the transcription of genes expressed during the
transition state between vegetative growth and the
onset of stationary phase and sporulation. AbrB is
thought to interact directly with the transcription
initiation regions of genes under its control. AbrB
contains a helix-turn-helix structure, but this domain
ends before the helix-turn-helix begins. The product of
the B. subtilis gene spoVT is another member of this
family and is also a transcriptional regulator.
DNA-binding activity in this AbrB homologue requires
hexamerisation. Another family member has been isolated
from the Sulfolobus solfataricus and has been
identified as a homologue of bacterial repressor-like
proteins. The Escherichia coli family member SohA or
Prl1F appears to be bifunctional and is able to
regulate its own expression as well as relieve the
export block imposed by high-level synthesis of
beta-galactosidase hybrid proteins.
Length = 45
Score = 25.9 bits (58), Expect = 3.2
Identities = 11/28 (39%), Positives = 19/28 (67%), Gaps = 1/28 (3%)
Query: 65 ILPKYI-EKVQITSGDELELLIIPEGVV 91
+PK + EK+ I GDE+EL + +G++
Sbjct: 10 TIPKEVREKLGIKEGDEVELEVDGDGII 37
>gnl|CDD|216981 pfam02338, OTU, OTU-like cysteine protease. This family is
comprised of a group of predicted cysteine proteases,
homologous to the Ovarian Tumour (OTU) gene in
Drosophila. Members include proteins from eukaryotes,
viruses and pathogenic bacterium. The conserved
cysteine and histidine, and possibly the aspartate,
represent the catalytic residues in this putative group
of proteases.
Length = 123
Score = 27.5 bits (61), Expect = 3.7
Identities = 10/48 (20%), Positives = 21/48 (43%), Gaps = 2/48 (4%)
Query: 43 IRKPIDEVARSHLVDFGKYCAEILPKYIEKVQITS--GDELELLIIPE 88
+R+ + E R + DF K+ E +Y + + G +E+ +
Sbjct: 27 LREAVVEYLRENREDFEKFLEEDENEYYKWISKDGAWGGNIEIFALAH 74
>gnl|CDD|225479 COG2927, HolC, DNA polymerase III, chi subunit [DNA replication,
recombination, and repair].
Length = 144
Score = 27.3 bits (61), Expect = 5.8
Identities = 10/42 (23%), Positives = 16/42 (38%), Gaps = 1/42 (2%)
Query: 106 VNLVDIAGMDVPSRPNR-FEIIYNLLSLRYNSRIRVKTYTDE 146
+NL D R F+ + + +L +R R K Y
Sbjct: 91 INLADEFPDFAYEFVTRVFDFVPDEEALLQLARERWKAYRGA 132
>gnl|CDD|184861 PRK14859, tatA, twin arginine translocase protein A; Provisional.
Length = 63
Score = 25.8 bits (57), Expect = 6.5
Identities = 10/25 (40%), Positives = 15/25 (60%), Gaps = 2/25 (8%)
Query: 241 NFRNTPGSSGSEEIPLDEKKEEEKK 265
NF+ +S EEI + K+E+KK
Sbjct: 38 NFKK--ATSEKEEIEIKPTKKEDKK 60
>gnl|CDD|237768 PRK14615, PRK14615, 4-diphosphocytidyl-2-C-methyl-D-erythritol
kinase; Provisional.
Length = 296
Score = 27.8 bits (62), Expect = 6.5
Identities = 15/57 (26%), Positives = 23/57 (40%), Gaps = 13/57 (22%)
Query: 131 SLRYNSRIRVKTYTDELTPLDSANEVFKAANWYEREIW---DMFGVYFSNHPDLRRI 184
S R +R+R T+ + N R +W V F+ HP+LRR+
Sbjct: 200 SSRKQNRLRGCLTTEGVAD----------RNPLSRGLWLHNSFEPVVFAAHPELRRL 246
>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional.
Length = 434
Score = 27.6 bits (62), Expect = 6.7
Identities = 22/76 (28%), Positives = 31/76 (40%), Gaps = 18/76 (23%)
Query: 191 EGHPFRKDFPLSGYVEVRYDDEK-KRVVVEPLELAQEFRKFQLETPWEQFPNFRNTPGSS 249
E H D L G +E RY +E K V++ L P + P+ + T S
Sbjct: 350 EAH----DHLLLGKIE-RYIEEPLKARVIDELR------------PKTKAPSEKKTGKPS 392
Query: 250 GSEEIPLDEKKEEEKK 265
EKKE+EK+
Sbjct: 393 KKVLAKRAEKKEKEKE 408
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 0.137 0.405
Gapped
Lambda K H
0.267 0.0831 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,132,971
Number of extensions: 1395694
Number of successful extensions: 1317
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1304
Number of HSP's successfully gapped: 33
Length of query: 265
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 170
Effective length of database: 6,723,972
Effective search space: 1143075240
Effective search space used: 1143075240
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: 58 (25.9 bits)