RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780368|ref|YP_003064781.1| electron transfer flavoprotein
beta subunit [Candidatus Liberibacter asiaticus str. psy62]
(249 letters)
>gnl|CDD|38390 KOG3180, KOG3180, KOG3180, Electron transfer flavoprotein, beta
subunit [Energy production and conversion].
Length = 254
Score = 254 bits (649), Expect = 2e-68
Identities = 118/248 (47%), Positives = 172/248 (69%), Gaps = 3/248 (1%)
Query: 1 MKILVPIKGVINYNTKVRIKNDYSGIETENTKISMNPFDEIALEESLQLREKGIATEVIV 60
++ILV +K V++Y K+R+K D +G+ T K SMNPF EIA+EE+++L+EK +A EVI
Sbjct: 4 LRILVGVKRVVDYAVKIRVKPDKTGVVTSGVKHSMNPFCEIAVEEAVRLKEKKLAEEVIA 63
Query: 61 VSIGSCKVEEVLKNSLAMGADRGILIESN--ETLEPLSIAKILREIVKKENPIIVIAGKQ 118
VSIG + +E+L+ +LA GADRG+ +E E LEPL +AKIL+++V+KE +V+ GKQ
Sbjct: 64 VSIGPAQSQEILRTALAKGADRGVHVEVVGAEELEPLHVAKILKKLVEKEKSDLVLLGKQ 123
Query: 119 TTDNESNQTGQMLAALMRWPQATFVSNIKIIDN-HAIVTREVGHGTMTMETPLPAVITVD 177
D++ NQTGQMLAAL+ WPQATF S +++ + VTRE+ G T++ LPAVIT D
Sbjct: 124 AIDDDCNQTGQMLAALLGWPQATFASKVELEGDKRVKVTREIDGGLETLKVKLPAVITTD 183
Query: 178 LNLNEPRYISLPNIIKARKKRIEKKKATDFAIDLTPRLKVLRFEENRAERKGLRLYSTTK 237
L LN PRY +LPNI+KA+KK ++K D +D+TP+L+ + EE + G+ + S +
Sbjct: 184 LRLNTPRYATLPNIMKAKKKPLKKMTIKDLGVDITPQLETVSVEEPPQRQAGVMVKSVDE 243
Query: 238 LIEILKSK 245
L+ LK
Sbjct: 244 LVAKLKEL 251
>gnl|CDD|32269 COG2086, FixA, Electron transfer flavoprotein, beta subunit [Energy
production and conversion].
Length = 260
Score = 224 bits (573), Expect = 2e-59
Identities = 106/256 (41%), Positives = 157/256 (61%), Gaps = 11/256 (4%)
Query: 1 MKILVPIKGVINYNTKVRIKNDYSGIETENTKISMNPFDEIALEESLQLREKGIATEVIV 60
MKILV IK V++ +K+R+ D ++ +S+NPFD A+EE+L+L+EKG EV V
Sbjct: 1 MKILVLIKKVVDDESKIRVDPDTGTLDRSGVPLSINPFDLNAVEEALRLKEKGYGGEVTV 60
Query: 61 VSIGSCKVEEVLKNSLAMGADRGILIE--SNETLEPLSIAKILREIVKKENPIIVIAGKQ 118
+++G + EE L+ +LAMGADR ILI + +PL+ AK L VKK P +V+ GKQ
Sbjct: 61 LTMGPPQAEEALREALAMGADRAILITDRAFAGADPLATAKALAAAVKKIGPDLVLTGKQ 120
Query: 119 TTDNESNQTGQMLAALMRWPQATFVSNIKIIDN-HAIVTREVGHGTMTMETPLPAVITVD 177
D ++ Q G +LA L+ WPQ T+VS I+I+D V RE+ G T+E PLPAV+TVD
Sbjct: 121 AIDGDTGQVGPLLAELLGWPQVTYVSKIEIVDGGKVTVERELEGGLETVEAPLPAVVTVD 180
Query: 178 LNLNEPRYISLPNIIKARKKRIEKKKATDFAIDL---TPRLKVLRFEENRAERKGLRLYS 234
L +NEPRY SLP I+ A+KK ++K D +++ LKV++ + G+++
Sbjct: 181 LRINEPRYPSLPGIMAAKKKPVKKWSLADLGLNVGLAGSPLKVVKVTPPPERKAGVKVKD 240
Query: 235 T-----TKLIEILKSK 245
+L+E LK +
Sbjct: 241 GPEEIAAELVEKLKEE 256
>gnl|CDD|30169 cd01714, ETF_beta, The electron transfer flavoprotein (ETF) serves
as a specific electron acceptor for various
mitochondrial dehydrogenases. ETF transfers electrons to
the main respiratory chain via ETF-ubiquinone
oxidoreductase. ETF is an heterodimer that consists of
an alpha and a beta subunit which binds one molecule of
FAD per dimer . A similar system also exists in some
bacteria. The homologous pair of proteins (FixA/FixB)
are essential for nitrogen fixation. The beta subunit
protein is distantly related to and forms a heterodimer
with the alpha subunit..
Length = 202
Score = 215 bits (550), Expect = 8e-57
Identities = 90/204 (44%), Positives = 124/204 (60%), Gaps = 4/204 (1%)
Query: 2 KILVPIKGVINYNTKVRIKNDYSGIETENTKISMNPFDEIALEESLQLREKGIATEVIVV 61
ILV +K V + K + I+ E + +NP+DE A+EE+L+L+EK EV VV
Sbjct: 1 NILVCVKQVPDTEEKRVDPDT-GTIDREGVPLIINPYDEYAVEEALRLKEK-YGGEVTVV 58
Query: 62 SIGSCKVEEVLKNSLAMGADRGILIESNET--LEPLSIAKILREIVKKENPIIVIAGKQT 119
S+G + EE L+ +LAMGADR IL+ + L+ AK L +KK +++ GKQ+
Sbjct: 59 SMGPPQAEEALREALAMGADRAILVSDRAFAGADTLATAKALAAAIKKIGVDLILTGKQS 118
Query: 120 TDNESNQTGQMLAALMRWPQATFVSNIKIIDNHAIVTREVGHGTMTMETPLPAVITVDLN 179
D ++ Q G +LA L+ WPQ T+VS I+I V RE+ G T+E LPAVITVDL
Sbjct: 119 IDGDTGQVGPLLAELLGWPQITYVSKIEIEGGKVTVERELEGGVETVEVKLPAVITVDLG 178
Query: 180 LNEPRYISLPNIIKARKKRIEKKK 203
+NEPRY SLP I+KA+KK IE
Sbjct: 179 INEPRYPSLPGIMKAKKKPIEVVS 202
>gnl|CDD|30172 cd01985, ETF, The electron transfer flavoprotein (ETF) serves as a
specific electron acceptor for various mitochondrial
dehydrogenases. ETF transfers electrons to the main
respiratory chain via ETF-ubiquinone oxidoreductase. ETF
is an heterodimer that consists of an alpha and a beta
subunit which binds one molecule of FAD per dimer . A
similar system also exists in some bacteria. The
homologous pair of proteins (FixA/FixB) are essential
for nitrogen fixation. The alpha subunit of ETF is
structurally related to the bacterial nitrogen fixation
protein fixB which could play a role in a redox process
and feed electrons to ferredoxin. The beta subunit
protein is distantly related to and forms a heterodimer
with the alpha subunit..
Length = 181
Score = 131 bits (330), Expect = 2e-31
Identities = 72/206 (34%), Positives = 106/206 (51%), Gaps = 31/206 (15%)
Query: 2 KILVPIKGVINYNTKVRIKNDYSGIETENTKISMNPFDEIALEESLQLREKGIATEVIVV 61
KILV ++ V + V +NP D A+E +L+L+E G EV +
Sbjct: 1 KILVLVEHVPDTAELV-----------------LNPLDLEAVEAALRLKEYG--GEVTAL 41
Query: 62 SIGSCKVEEVLKNSLAMGADRGILIESN--ETLEPLSIAKILREIVKKENPIIVIAGKQT 119
IG E L+ +LAMGAD+ +L+E +P + AK L ++KKE P +++AG +
Sbjct: 42 VIGPPAAEVALREALAMGADKVLLVEDPALAGYDPEATAKALAALIKKEKPDLILAGATS 101
Query: 120 TDNESNQTGQMLAALMRWPQATFVSNIKIIDNHAIVTREV--GHGTMTMETP-LPAVITV 176
Q +AAL+ PQ + V+ ++I VTR + G+G T+E+P LPAVITV
Sbjct: 102 I---GKQLAPRVAALLGVPQISDVTKLEIDGGDLTVTRPIYAGNGLETVESPDLPAVITV 158
Query: 177 DLNLNEPRYISLPNIIKARKKRIEKK 202
EPRY S P +KK +EK
Sbjct: 159 RPGAFEPRYPSGPG----KKKPVEKV 180
>gnl|CDD|144557 pfam01012, ETF, Electron transfer flavoprotein domain. This family
includes the homologous domain shared between the alpha
and beta subunits of the electron transfer flavoprotein.
Length = 161
Score = 116 bits (292), Expect = 8e-27
Identities = 52/164 (31%), Positives = 74/164 (45%), Gaps = 14/164 (8%)
Query: 26 IETENTKISMNPFDEIALEESLQLREKGIATEVIVVSIGSCK-VEEVLKNSLAMGADRGI 84
E N K+ NP D ALE + QL E EV V +G E L AMGAD+ +
Sbjct: 6 AEHGNGKL--NPVDLEALEAARQLAEAL-GGEVTAVVVGPVPAAAEALL--AAMGADKVL 60
Query: 85 LIES--NETLEPLSIAKILREIVKKENPIIVIAGKQTTDNESNQTGQMLAALMRWPQATF 142
++E + + A L ++KKE P +V+AG + + LAAL+ P T
Sbjct: 61 VVEDPALAGYDAEAYAAALAALIKKEGPDLVLAGATSIGKD---LAPRLAALLGAPLITD 117
Query: 143 VSNIKIIDNHAIVTREVGHGTMTMETPLP---AVITVDLNLNEP 183
V+ +++ VTR + G LP AV+TV EP
Sbjct: 118 VTALEVEGGKLTVTRPIYGGNAIATVKLPDPPAVLTVRPGAFEP 161
>gnl|CDD|143484 cd06808, PLPDE_III, Type III Pyridoxal 5-phosphate (PLP)-Dependent
Enzymes. The fold type III PLP-dependent enzyme family
is predominantly composed of two-domain proteins with
similarity to bacterial alanine racemases (AR) including
eukaryotic ornithine decarboxylases (ODC), prokaryotic
diaminopimelate decarboxylases (DapDC), biosynthetic
arginine decarboxylases (ADC), carboxynorspermidine
decarboxylases (CANSDC), and similar proteins. AR-like
proteins contain an N-terminal PLP-binding TIM-barrel
domain and a C-terminal beta-sandwich domain. They exist
as homodimers with active sites that lie at the
interface between the TIM barrel domain of one subunit
and the beta-sandwich domain of the other subunit. These
proteins play important roles in the biosynthesis of
amino acids and polyamine. The family also includes the
single-domain YBL036c-like proteins, which contain a
single PLP-binding TIM-barrel domain without any N- or
C-terminal extensions. Due to the lack of a second
domain, these proteins may possess only limited D- to
L-alanine racemase activity or non-specific racemase
activity.
Length = 211
Score = 35.4 bits (82), Expect = 0.015
Identities = 29/126 (23%), Positives = 55/126 (43%), Gaps = 13/126 (10%)
Query: 38 FDEIALEESLQLREKGIATEVIVVSIGSCKVEEVLKNSLAMGADRGILIESNETLEPLSI 97
FD +L E+L LR GI E I+ +V E L A++G+++ + ++LE
Sbjct: 41 FDVASLGEALLLRAAGIPPEPILFLGPCKQVSE-----LEDAAEQGVIVVTVDSLE---E 92
Query: 98 AKILREIVKKENPIIVIAGKQTTDNESNQTG---QMLAALMRWPQATFVSNIKIIDNHAI 154
+ L E K P + + T +E+ + G + L AL+ + +++++ H
Sbjct: 93 LEKLEEAALKAGPPARVLLRIDTGDENGKFGVRPEELKALLERAKEL--PHLRLVGLHTH 150
Query: 155 VTREVG 160
Sbjct: 151 FGSADE 156
>gnl|CDD|111722 pfam02866, Ldh_1_C, lactate/malate dehydrogenase, alpha/beta
C-terminal domain. L-lactate dehydrogenases are
metabolic enzymes which catalyse the conversion of
L-lactate to pyruvate, the last step in anaerobic
glycolysis. L-2-hydroxyisocaproate dehydrogenases are
also members of the family. Malate dehydrogenases
catalyse the interconversion of malate to oxaloacetate.
The enzyme participates in the citric acid cycle.
L-lactate dehydrogenase is also found as a lens
crystallin in bird and crocodile eyes.
Length = 173
Score = 28.1 bits (63), Expect = 2.4
Identities = 14/57 (24%), Positives = 23/57 (40%), Gaps = 6/57 (10%)
Query: 5 VPIKGVINYNTKVRIKNDYSGIETENTKISMNPFDEIALEES----LQLREKGIATE 57
I ++ V + D G+E + +N F+ LE+S + EKG A
Sbjct: 119 YGSPDDIYFSVPVVLGKD--GVEKVVEILPLNDFEREKLEKSAAELKKEIEKGFAFV 173
>gnl|CDD|144533 pfam00975, Thioesterase, Thioesterase domain. Peptide synthetases
are involved in the non-ribosomal synthesis of peptide
antibiotics. Next to the operons encoding these enzymes,
in almost all cases, are genes that encode proteins that
have similarity to the type II fatty acid thioesterases
of vertebrates. There are also modules within the
peptide synthetases that also share this similarity.
With respect to antibiotic production, thioesterases are
required for the addition of the last amino acid to the
peptide antibiotic, thereby forming a cyclic antibiotic.
Thioesterases (non-integrated) have molecular masses of
25-29 kDa.
Length = 224
Score = 28.1 bits (63), Expect = 2.6
Identities = 11/57 (19%), Positives = 19/57 (33%), Gaps = 2/57 (3%)
Query: 41 IALEESLQLREKGIATEVIVVSIGSCKVEEVLKNS--LAMGADRGILIESNETLEPL 95
+A E + +L +G +++S + S L L T E L
Sbjct: 78 LAFEVARRLERRGEEPAGLILSDAYAPHFGRREASHLLGDDELLAELRRIGGTPEAL 134
>gnl|CDD|35424 KOG0203, KOG0203, KOG0203, Na+/K+ ATPase, alpha subunit [Inorganic
ion transport and metabolism].
Length = 1019
Score = 26.7 bits (59), Expect = 6.4
Identities = 20/59 (33%), Positives = 29/59 (49%), Gaps = 6/59 (10%)
Query: 77 AMGADRGILIESNETLEPLSIAKILREIVKKENP----IIVIAGKQTTDNESNQTGQML 131
A+ GI+ E +ET+E IAK L V++ N VI G + D S Q ++L
Sbjct: 622 AIAKSVGIISEGSETVE--DIAKRLNIPVEQVNSRDAKAAVIHGSELPDMSSEQLDELL 678
>gnl|CDD|73307 cd02149, NfsB_like_nitroreductase, NAD(P)H:FMN oxidoreductase
family. This domain catalyzes the reduction of flavin,
nitrocompound, quinones and azo compounds using NADH or
NADPH as an electron donor. The enzyme is a homodimer,
and each monomer binds a FMN as co-factor. This family
includes FRase I in Vibrio fischeri, wihich reduces FMN
into FMNH2 as part of the bioluminescent reaction. The
family also includes oxygen-insensitive nitroreductases
that use NADH or NADPH as an electron donor in the ping
pong bi bi mechanism. This type of nitroreductase can be
used in cancer chemotherapy to activate a range of
prodrugs..
Length = 157
Score = 26.7 bits (59), Expect = 7.0
Identities = 14/41 (34%), Positives = 21/41 (51%), Gaps = 1/41 (2%)
Query: 35 MNPFDEIALEESLQLREKGIATEVIVVSIGSCKVEEVLKNS 75
+ FD L+E L L EKG + ++V++G E L S
Sbjct: 111 IEGFDPAKLDEILGLDEKGYGS-SVMVALGYRSEEAKLPKS 150
>gnl|CDD|80351 cd02129, PA_hSPPL_like, PA_hSPPL_like: Protease-associated domain
containing human signal peptide peptidase-like
(hSPPL)-like. This group contains various PA
domain-containing proteins similar to hSPPL2a and 2b.
These SPPLs are GxGD aspartic proteases. SPPL2a is
sorted to the late endosomes, SPPL2b to the plasma
membrane. In activated dendritic cells, hSPPL2a and 2b
catalyze the intramembrane proteolysis of tumor
necrosis factor alpha triggering IL-12 production.
hSPPL2a and 2b may have a broad substrate spectrum. The
significance of the PA domain to these SPPLs has not
been ascertained. It may be a protein-protein
interaction domain. At peptidase active sites, the PA
domain may participate in substrate binding and/or
promoting conformational changes, which influence the
stability and accessibility of the site to substrate..
Length = 120
Score = 26.4 bits (58), Expect = 7.4
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 48 QLREKGIATEVIVVSIGSCKVEEVLKNSLAMGADRGILIESNETLEPLS 96
+ G+ + +VV G+C E + + ++GA G+LI S E L P S
Sbjct: 37 DVPPGGLKGKAVVVMRGNCTFYEKARLAQSLGA-EGLLIVSRERLVPPS 84
>gnl|CDD|143606 cd07582, nitrilase_4, Uncharacterized subgroup of the nitrilase
superfamily (putative class 13 nitrilases). The
nitrilase superfamily is comprised of nitrile- or
amide-hydrolyzing enzymes and amide-condensing enzymes,
which depend on a Glu-Lys-Cys catalytic triad. This
superfamily has been classified in the literature based
on global and structure based sequence analysis into
thirteen different enzyme classes (referred to as 1-13).
Class 13 represents proteins that at the time were
difficult to place in a distinct similarity group; this
subgroup represents either a new class or one that was
included previously in class 13. Members of this
superfamily generally form homomeric complexes, the
basic building block of which is a homodimer.
Length = 294
Score = 26.2 bits (58), Expect = 9.8
Identities = 27/107 (25%), Positives = 41/107 (38%), Gaps = 22/107 (20%)
Query: 76 LAM-GAD---RGILIESNETLEPLSIAKILREIVKKENPIIVIAGKQTTDNESNQTGQML 131
LAM GA+ R + L+P IA R + EN V++ +N G
Sbjct: 185 LAMNGAEVLLRSSSEVPSVELDPWEIANRARAL---ENLAYVVS--------ANSGGIYG 233
Query: 132 AALMRWPQATFVSNIKIIDNHAIVTREVGHGTMTMETPLPAVITVDL 178
+ P +F I+D V E G+G +M A +D+
Sbjct: 234 SPY---PADSFGGGSMIVDYKGRVLAEAGYGPGSMV----AGAEIDI 273
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.316 0.133 0.359
Gapped
Lambda K H
0.267 0.0706 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 2,754,527
Number of extensions: 139946
Number of successful extensions: 429
Number of sequences better than 10.0: 1
Number of HSP's gapped: 414
Number of HSP's successfully gapped: 24
Length of query: 249
Length of database: 6,263,737
Length adjustment: 91
Effective length of query: 158
Effective length of database: 4,297,318
Effective search space: 678976244
Effective search space used: 678976244
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: 56 (25.4 bits)