RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15579
(368 letters)
>gnl|CDD|215032 PLN00022, PLN00022, electron transfer flavoprotein subunit alpha;
Provisional.
Length = 356
Score = 138 bits (350), Expect = 7e-38
Identities = 69/155 (44%), Positives = 93/155 (60%), Gaps = 32/155 (20%)
Query: 51 NAILTLKSKD-PVKVVTVRGTSFP-----PAAKGGSASVEA--LANASVEANKLSEWVGQ 102
NA+ T++ K ++++R TSFP ++ A + L+ ++ S WVG
Sbjct: 165 NALATVRYKGSGPCMLSIRPTSFPVTPALANSESNEAPISQVDLSLLDEDSVGKSRWVGL 224
Query: 103 ELSKSDRPDLGSAKIVVSGGRGLKSADNFKLLYTLADKLGAAVGRGLKSADNFKLLYTLA 162
+ ++RPDLGSAK+VV+GGRGLKSA+NFK+L LADKLG AVG
Sbjct: 225 SVQDTERPDLGSAKVVVTGGRGLKSAENFKMLEKLADKLGGAVG---------------- 268
Query: 163 DKLGAAVGASRAAVDAGFVPNDMQIGQTGKIIAPQ 197
ASRAAVDAGFVPND+Q+GQTGKI+AP+
Sbjct: 269 --------ASRAAVDAGFVPNDLQVGQTGKIVAPE 295
Score = 87.9 bits (218), Expect = 2e-19
Identities = 49/110 (44%), Positives = 67/110 (60%), Gaps = 5/110 (4%)
Query: 255 AALLDVSPISDIIDIKSPDTFQV-----SKISGVTKVLTVENDALKGLLPENLAPLIVSA 309
+ L + SPIS ++ P Q S V++VL ++D L L E A L+V A
Sbjct: 53 SLLGESSPISLLLAGSGPSLQQAASHAASSHPSVSEVLVADSDKLTHPLAEPWAKLVVLA 112
Query: 310 QNAGKYTHILAGASSMGKSLLPRVAALLDVSPISDIIDIKSPDTFVRTIY 359
Q G Y+HILA ++S GK++LPR AALLDVSPI+D++ I +TFVR IY
Sbjct: 113 QQKGGYSHILAASTSFGKNVLPRAAALLDVSPITDVVRILDSNTFVRPIY 162
Score = 79.1 bits (195), Expect = 2e-16
Identities = 38/77 (49%), Positives = 52/77 (67%)
Query: 199 SKISGVTKVLTVENDALKGLLPENLAPLIVSAQNAGKYTHILAGASSMGKSLLPRVAALL 258
S V++VL ++D L L E A L+V AQ G Y+HILA ++S GK++LPR AALL
Sbjct: 81 SSHPSVSEVLVADSDKLTHPLAEPWAKLVVLAQQKGGYSHILAASTSFGKNVLPRAAALL 140
Query: 259 DVSPISDIIDIKSPDTF 275
DVSPI+D++ I +TF
Sbjct: 141 DVSPITDVVRILDSNTF 157
Score = 44.0 bits (104), Expect = 7e-05
Identities = 18/45 (40%), Positives = 30/45 (66%), Gaps = 3/45 (6%)
Query: 3 ARFESTIIIGEHADGKLSASTLSAITAAQKIGGD---ISVLVAGS 44
+R ST+++ EH G + +LSA+ AA+ + G+ IS+L+AGS
Sbjct: 24 SRQISTLVVAEHEGGSVKPQSLSAVAAAKSLLGESSPISLLLAGS 68
>gnl|CDD|224936 COG2025, FixB, Electron transfer flavoprotein, alpha subunit
[Energy production and conversion].
Length = 313
Score = 125 bits (315), Expect = 5e-33
Identities = 74/198 (37%), Positives = 94/198 (47%), Gaps = 31/198 (15%)
Query: 7 STIIIGEHADGKLSASTLSAITAAQKIGGDISVLVAGSKVADV-----SNAILTLKSKDP 61
+++ +GK A ++A + D++ L G + NAI T+ S
Sbjct: 82 DVVLLPATTNGKELAPRVAARLDVG-LIADVTSLDVGDGLTFTRPIYGGNAIATVISPSG 140
Query: 62 -VKVVTVRGTSFPPAAKGGSASVEALANASVEANKLSEWVGQELSKSDRPDLGSAKIVVS 120
V+TVR F AA SVE + G L KS R DL AKIVVS
Sbjct: 141 RPAVITVRPGVFAAAAAALGGSVETEKVVAPANAIAVVSTGFSLKKSGRVDLAEAKIVVS 200
Query: 121 GGRGLKSADNFKLLYTLADKLGAAVGRGLKSADNFKLLYTLADKLGAAVGASRAAVDAGF 180
GGRGL S +NFKLL LAD LGAAVG ASR AVDAG+
Sbjct: 201 GGRGLGSKENFKLLEELADVLGAAVG------------------------ASRPAVDAGW 236
Query: 181 VPNDMQIGQTGKIIAPQV 198
+PND Q+GQTGK +AP++
Sbjct: 237 MPNDRQVGQTGKTVAPKL 254
Score = 76.1 bits (188), Expect = 2e-15
Identities = 34/83 (40%), Positives = 41/83 (49%), Gaps = 2/83 (2%)
Query: 279 KISGVTKVLTVENDALKGLLPENLAPLIVSAQNAGKYTHILAGASSMGKSLLPRVAALLD 338
K G KVL E L LPE A +V K +L A++ GK L PRVAA LD
Sbjct: 45 KAYGADKVLVAEGPELANYLPEPYADALVDLAKKYKPDVVLLPATTNGKELAPRVAARLD 104
Query: 339 VSPISDIIDIKSPD--TFVRTIY 359
V I+D+ + D TF R IY
Sbjct: 105 VGLIADVTSLDVGDGLTFTRPIY 127
Score = 72.6 bits (179), Expect = 2e-14
Identities = 29/74 (39%), Positives = 36/74 (48%)
Query: 200 KISGVTKVLTVENDALKGLLPENLAPLIVSAQNAGKYTHILAGASSMGKSLLPRVAALLD 259
K G KVL E L LPE A +V K +L A++ GK L PRVAA LD
Sbjct: 45 KAYGADKVLVAEGPELANYLPEPYADALVDLAKKYKPDVVLLPATTNGKELAPRVAARLD 104
Query: 260 VSPISDIIDIKSPD 273
V I+D+ + D
Sbjct: 105 VGLIADVTSLDVGD 118
Score = 36.4 bits (85), Expect = 0.017
Identities = 15/42 (35%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 7 STIIIGEHADGKLSASTLSAITAAQKIGGDISVLVAGSKVAD 48
+++ EH G+LS +L +TAA+K+ GD++ +V G A
Sbjct: 2 KVLVVAEHDGGRLSPVSLELLTAARKL-GDVAAVVIGEGAAA 42
>gnl|CDD|238848 cd01715, ETF_alpha, 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.
Length = 168
Score = 107 bits (269), Expect = 5e-28
Identities = 40/84 (47%), Positives = 48/84 (57%)
Query: 276 QVSKISGVTKVLTVENDALKGLLPENLAPLIVSAQNAGKYTHILAGASSMGKSLLPRVAA 335
K G KVL E+ AL L E AP +V+ K +HILAGA+S GK L PRVAA
Sbjct: 45 AALKAYGADKVLVAEDPALAHYLAEPYAPALVALAKKEKPSHILAGATSFGKDLAPRVAA 104
Query: 336 LLDVSPISDIIDIKSPDTFVRTIY 359
LDV ISD+ ++ TF R IY
Sbjct: 105 KLDVGLISDVTALEDDLTFTRPIY 128
Score = 101 bits (255), Expect = 5e-26
Identities = 48/116 (41%), Positives = 58/116 (50%), Gaps = 14/116 (12%)
Query: 160 TLADKLGAAVGASRAAVDAGFVPNDMQIGQTGKIIAPQVSKISGVTKVLTVENDALKGLL 219
T A KLG V A V IG + +A K G KVL E+ AL L
Sbjct: 22 TAARKLGGEVTA--------LV-----IGSGAEAVA-AALKAYGADKVLVAEDPALAHYL 67
Query: 220 PENLAPLIVSAQNAGKYTHILAGASSMGKSLLPRVAALLDVSPISDIIDIKSPDTF 275
E AP +V+ K +HILAGA+S GK L PRVAA LDV ISD+ ++ TF
Sbjct: 68 AEPYAPALVALAKKEKPSHILAGATSFGKDLAPRVAAKLDVGLISDVTALEDDLTF 123
Score = 53.3 bits (129), Expect = 1e-08
Identities = 20/46 (43%), Positives = 32/46 (69%)
Query: 7 STIIIGEHADGKLSASTLSAITAAQKIGGDISVLVAGSKVADVSNA 52
S +++ EH +G+L TL A+TAA+K+GG+++ LV GS V+ A
Sbjct: 1 SVLVLAEHRNGELRELTLEAVTAARKLGGEVTALVIGSGAEAVAAA 46
Score = 43.7 bits (104), Expect = 2e-05
Identities = 22/37 (59%), Positives = 26/37 (70%), Gaps = 1/37 (2%)
Query: 51 NAILTLKSKDPVKVVTVRGTSFPPAAKGG-SASVEAL 86
NA+ T+KS D KV TVR +FP AA GG SA VEA+
Sbjct: 131 NALATVKSPDRPKVATVRPGAFPAAAAGGGSAVVEAV 167
>gnl|CDD|189709 pfam00766, ETF_alpha, Electron transfer flavoprotein FAD-binding
domain. This domain found at the C-terminus of electron
transfer flavoprotein alpha chain and binds to FAD. The
fold consists of a five-stranded parallel beta sheet as
the core of the domain, flanked by alternating helices.
A small part of this domain is donated by the beta
chain.
Length = 86
Score = 96.1 bits (240), Expect = 8e-25
Identities = 43/90 (47%), Positives = 51/90 (56%), Gaps = 24/90 (26%)
Query: 109 RPDLGSAKIVVSGGRGLKSADNFKLLYTLADKLGAAVGRGLKSADNFKLLYTLADKLGAA 168
R DL AK+VVSGGRGL S +NFKLL LAD LGA VG
Sbjct: 1 RVDLSEAKVVVSGGRGLGSKENFKLLEELADVLGAEVG---------------------- 38
Query: 169 VGASRAAVDAGFVPNDMQIGQTGKIIAPQV 198
ASR AVDAG++ D Q+GQTGK + P++
Sbjct: 39 --ASRPAVDAGWIDADRQVGQTGKTVRPKL 66
>gnl|CDD|238943 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 = 87.6 bits (218), Expect = 2e-20
Identities = 37/90 (41%), Positives = 47/90 (52%), Gaps = 3/90 (3%)
Query: 273 DTFQVSKISGVTKVLTVENDALKGLLPENLAPLIVSAQNAGKYTHILAGASSMGKSLLPR 332
+ + G KVL VE+ AL G PE A + + K ILAGA+S+GK L PR
Sbjct: 50 VALREALAMGADKVLLVEDPALAGYDPEATAKALAALIKKEKPDLILAGATSIGKQLAPR 109
Query: 333 VAALLDVSPISDIIDIKS---PDTFVRTIY 359
VAALL V ISD+ ++ T R IY
Sbjct: 110 VAALLGVPQISDVTKLEIDGGDLTVTRPIY 139
Score = 85.0 bits (211), Expect = 1e-19
Identities = 36/88 (40%), Positives = 47/88 (53%)
Query: 187 IGQTGKIIAPQVSKISGVTKVLTVENDALKGLLPENLAPLIVSAQNAGKYTHILAGASSM 246
IG +A + + G KVL VE+ AL G PE A + + K ILAGA+S+
Sbjct: 43 IGPPAAEVALREALAMGADKVLLVEDPALAGYDPEATAKALAALIKKEKPDLILAGATSI 102
Query: 247 GKSLLPRVAALLDVSPISDIIDIKSPDT 274
GK L PRVAALL V ISD+ ++
Sbjct: 103 GKQLAPRVAALLGVPQISDVTKLEIDGG 130
Score = 36.8 bits (86), Expect = 0.006
Identities = 19/86 (22%), Positives = 33/86 (38%), Gaps = 22/86 (25%)
Query: 27 ITAAQKIGGDISVLVAG----SKVADVS------------------NAILTLKSKDPVKV 64
+ A IG ++ VA +++DV+ N + T++S D V
Sbjct: 96 LAGATSIGKQLAPRVAALLGVPQISDVTKLEIDGGDLTVTRPIYAGNGLETVESPDLPAV 155
Query: 65 VTVRGTSFPPAAKGGSASVEALANAS 90
+TVR +F P G + + S
Sbjct: 156 ITVRPGAFEPRYPSGPGKKKPVEKVS 181
Score = 34.9 bits (81), Expect = 0.036
Identities = 18/68 (26%), Positives = 32/68 (47%), Gaps = 9/68 (13%)
Query: 7 STIIIGEHADGK----LSASTLSAITAAQKI---GGDISVLVAGSKVADVSNAILTLKSK 59
+++ EH L+ L A+ AA ++ GG+++ LV G A+V A+ +
Sbjct: 1 KILVLVEHVPDTAELVLNPLDLEAVEAALRLKEYGGEVTALVIGPPAAEV--ALREALAM 58
Query: 60 DPVKVVTV 67
KV+ V
Sbjct: 59 GADKVLLV 66
>gnl|CDD|216243 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 = 160
Score = 77.2 bits (191), Expect = 5e-17
Identities = 31/81 (38%), Positives = 42/81 (51%), Gaps = 3/81 (3%)
Query: 282 GVTKVLTVENDALKGLLPENLAPLIVSAQNAGKYTHILAGASSMGKSLLPRVAALLDVSP 341
G KV VE+ AL G PE A + + +LAGA+S+GK L PR+AALL
Sbjct: 55 GADKVYLVEDPALAGYDPEAYAAALAALIKKEGPDLVLAGATSIGKDLAPRLAALLGAPL 114
Query: 342 ISDIIDIKSPD---TFVRTIY 359
I+D+ ++ T R IY
Sbjct: 115 ITDVTALEVEGGKLTVTRPIY 135
Score = 74.9 bits (185), Expect = 3e-16
Identities = 36/114 (31%), Positives = 50/114 (43%), Gaps = 10/114 (8%)
Query: 160 TLADKLGAAVGASRAAVDAGFVPNDMQIGQTGKIIAPQVSKISGVTKVLTVENDALKGLL 219
A +L A+G AV G V A + G KV VE+ AL G
Sbjct: 22 EAARRLAEALGGEVTAVVVGPVEA----------AAEALLAAMGADKVYLVEDPALAGYD 71
Query: 220 PENLAPLIVSAQNAGKYTHILAGASSMGKSLLPRVAALLDVSPISDIIDIKSPD 273
PE A + + +LAGA+S+GK L PR+AALL I+D+ ++
Sbjct: 72 PEAYAAALAALIKKEGPDLVLAGATSIGKDLAPRLAALLGAPLITDVTALEVEG 125
Score = 35.2 bits (82), Expect = 0.021
Identities = 19/66 (28%), Positives = 35/66 (53%), Gaps = 5/66 (7%)
Query: 7 STIIIGEHADGKLSASTLSAITAAQKI----GGDISVLVAGSKVADVSNAILTLKSKDPV 62
+++ EH +GKL+ L A+ AA+++ GG+++ +V G V + A+L D V
Sbjct: 1 GVLVVAEHGNGKLNPVDLEALEAARRLAEALGGEVTAVVVGP-VEAAAEALLAAMGADKV 59
Query: 63 KVVTVR 68
+V
Sbjct: 60 YLVEDP 65
>gnl|CDD|214890 smart00893, ETF, Electron transfer flavoprotein domain. Electron
transfer flavoproteins (ETFs) serve as specific electron
acceptors for primary dehydrogenases, transferring the
electrons to terminal respiratory systems. They can be
functionally classified into constitutive,
"housekeeping" ETFs, mainly involved in the oxidation of
fatty acids (Group I), and ETFs produced by some
prokaryotes under specific growth conditions, receiving
electrons only from the oxidation of specific substrates
(Group II). ETFs are heterodimeric proteins composed of
an alpha and beta subunit, and contain an FAD cofactor
and AMP. ETF consists of three domains: domains I and II
are formed by the N- and C-terminal portions of the
alpha subunit, respectively, while domain III is formed
by the beta subunit. Domains I and III share an almost
identical alpha-beta-alpha sandwich fold, while domain
II forms an alpha-beta-alpha sandwich similar to that of
bacterial flavodoxins. FAD is bound in a cleft between
domains II and III, while domain III binds the AMP
molecule. Interactions between domains I and III
stabilise the protein, forming a shallow bowl where
domain II resides. This entry represents the N-terminal
domain of both the alpha and beta subunits from Group I
and Group II ETFs.
Length = 185
Score = 72.7 bits (179), Expect = 3e-15
Identities = 35/84 (41%), Positives = 46/84 (54%), Gaps = 2/84 (2%)
Query: 279 KISGVTKVLTVENDALKGLLP-ENLAPLIVSAQNAGKYTHILAGASSMGKSLLPRVAALL 337
G KV V++DAL G LA + + K +LAGA+S GK L PR+AALL
Sbjct: 47 LAMGADKVYLVDDDALAGYDTLATLAEALAALIKEEKPDLVLAGATSDGKQLAPRLAALL 106
Query: 338 DVSPISDIIDIKSP-DTFVRTIYE 360
V I+D+ ++ DTFVR IY
Sbjct: 107 GVPQITDVTKLEVDGDTFVRRIYG 130
Score = 67.3 bits (165), Expect = 3e-13
Identities = 31/92 (33%), Positives = 45/92 (48%), Gaps = 1/92 (1%)
Query: 187 IGQTGKIIAPQVSKISGVTKVLTVENDALKGLLP-ENLAPLIVSAQNAGKYTHILAGASS 245
+G A + + G KV V++DAL G LA + + K +LAGA+S
Sbjct: 34 VGPPAAEEALREALAMGADKVYLVDDDALAGYDTLATLAEALAALIKEEKPDLVLAGATS 93
Query: 246 MGKSLLPRVAALLDVSPISDIIDIKSPDTFQV 277
GK L PR+AALL V I+D+ ++ V
Sbjct: 94 DGKQLAPRLAALLGVPQITDVTKLEVDGDTFV 125
Score = 31.9 bits (73), Expect = 0.37
Identities = 19/90 (21%), Positives = 33/90 (36%), Gaps = 21/90 (23%)
Query: 27 ITAAQKIGGDISVLVAG----SKVADVS----------------NAILTLKSK-DPVKVV 65
+ A G ++ +A ++ DV+ AI T + D V+
Sbjct: 88 LAGATSDGKQLAPRLAALLGVPQITDVTKLEVDGDTFVRRIYGGGAIATEVVEADLPAVI 147
Query: 66 TVRGTSFPPAAKGGSASVEALANASVEANK 95
TVR +F PA + G S+ + A +
Sbjct: 148 TVRPGAFEPAPRDGYPSLVEIMKAKKKPIL 177
>gnl|CDD|235120 PRK03363, fixB, putative electron transfer flavoprotein FixB;
Provisional.
Length = 313
Score = 35.3 bits (81), Expect = 0.035
Identities = 26/96 (27%), Positives = 40/96 (41%)
Query: 61 PVKVVTVRGTSFPPAAKGGSASVEALANASVEANKLSEWVGQELSKSDRPDLGSAKIVVS 120
P V+T+ +F A S + E + +S+ DL A++VVS
Sbjct: 141 PYAVLTISSGTFDAAQPDASRTGETHTVEWQAPAVAITRTATQARQSNSVDLDKARLVVS 200
Query: 121 GGRGLKSADNFKLLYTLADKLGAAVGRGLKSADNFK 156
GRG+ S +N L L +GA + A+N K
Sbjct: 201 VGRGIGSKENIALAEQLCKAIGAELACSRPVAENEK 236
>gnl|CDD|183380 PRK11916, PRK11916, electron transfer flavoprotein subunit YdiR;
Provisional.
Length = 312
Score = 34.9 bits (80), Expect = 0.047
Identities = 18/36 (50%), Positives = 23/36 (63%)
Query: 111 DLGSAKIVVSGGRGLKSADNFKLLYTLADKLGAAVG 146
DL AK VV GRGL + D+ K+++ LA L A VG
Sbjct: 190 DLSKAKRVVGVGRGLAAQDDLKMVHELAAVLNAEVG 225
Score = 33.0 bits (75), Expect = 0.20
Identities = 15/29 (51%), Positives = 20/29 (68%)
Query: 145 VGRGLKSADNFKLLYTLADKLGAAVGASR 173
VGRGL + D+ K+++ LA L A VG SR
Sbjct: 200 VGRGLAAQDDLKMVHELAAVLNAEVGCSR 228
Score = 30.3 bits (68), Expect = 1.7
Identities = 27/130 (20%), Positives = 54/130 (41%), Gaps = 16/130 (12%)
Query: 223 LAPLIVSAQNAGKYTHILAGASSMGKSLLPRVAALLDVSPISDIIDIKSPDTFQVSKISG 282
L + V + N +Y + GA G+ +V A++ + + + P V + +
Sbjct: 4 LNSVWVFSDNPERYAELFGGAQQWGQ----QVYAIVQNTDQAQAVMPYGPKCIYVLEQN- 58
Query: 283 VTKVLTVENDALKGLLPENLAPLIVSAQNAGKYTHILAGASSMGKSLLPRVAALLDVSPI 342
+ EN A E++A L+ A +L A+ GK+L R++ L+ + +
Sbjct: 59 -DALQRTENYA------ESIAALLKDKHPA----MLLLAATKRGKALAARLSVQLNAALV 107
Query: 343 SDIIDIKSPD 352
+D + D
Sbjct: 108 NDATAVDIVD 117
>gnl|CDD|222702 pfam14350, Beta_protein, Beta protein. This family includes the
beta protein from Bacteriophage T4. Beta protein
prevents the gop protein from killing the bacterial host
cell.
Length = 344
Score = 30.4 bits (69), Expect = 1.5
Identities = 29/129 (22%), Positives = 44/129 (34%), Gaps = 18/129 (13%)
Query: 35 GDISVLVAGSKVADVSNAILTLKSKDPVKVVTVRGTSFPPAAKGGSASVEALANASVEAN 94
GD+ +++A+ +L P + V V GTSFP S+ +
Sbjct: 165 GDVRDKDPSDLAELIASALNSLPELGPWRNVVVAGTSFPS-------SISGIPKDGNGEL 217
Query: 95 KLSEWVG-QELSKSDRP------DLGSA--KIVVSGGRGLKSADNFKLLYTLADKLGAAV 145
+EW + L S D GS + G + N K+ YT D
Sbjct: 218 PRTEWDLWKSLRSSLPGRRPIYGDYGSIHPEPSDPDPGGGRP--NPKIRYTTDDDWYIVR 275
Query: 146 GRGLKSADN 154
GR +K
Sbjct: 276 GRRVKGDGA 284
>gnl|CDD|236950 PRK11664, PRK11664, ATP-dependent RNA helicase HrpB; Provisional.
Length = 812
Score = 29.9 bits (68), Expect = 2.6
Identities = 12/22 (54%), Positives = 17/22 (77%), Gaps = 2/22 (9%)
Query: 209 TVENDALKGLLPENLAPLIVSA 230
T++ND L+ LLP+ AP+IVS
Sbjct: 158 TLDNDRLQQLLPD--APVIVSE 177
Score = 29.9 bits (68), Expect = 2.6
Identities = 12/22 (54%), Positives = 17/22 (77%), Gaps = 2/22 (9%)
Query: 288 TVENDALKGLLPENLAPLIVSA 309
T++ND L+ LLP+ AP+IVS
Sbjct: 158 TLDNDRLQQLLPD--APVIVSE 177
>gnl|CDD|163699 cd08068, MPN_BRCC36, Mov34/MPN/PAD-1 family: BRCC36, a subunit of
BRCA1-A complex. BRCC36 (BRCA1-A complex subunit
BRCC36; BRCA1/BRCA2-containing complex subunit 36;
BRCA1/BRCA2-containing complex subunit 3; BRCC3; BRISC
complex subunit BRCC36; BRCC36 isopeptidase complex;
Lys-63-specific deubiquitinase BRCC36) and BRCC36-like
domains are members of JAMM/MPN+ deubiquitinases (DUBs),
possibly with Zn2+-dependent ubiquitin isopeptidase
activity. BRCC36 is part of the
BRCA1/BRCA2/BARD1-containing nuclear complex that
displays an E3 ubiquitin ligase activity. It is targeted
to DNA damage foci after irradiation; RAP80 recruits the
Abraxas-BRCC36-BRCA1-BARD1 complex to DNA double strand
breaks (DSBs) for DNA repair through specific
recognition of Lys 63-linked polyubiquitinated proteins
by its tandem ubiquitin-interacting motifs. A new
protein, MERIT40 (mediator of RAP80 interactions and
targeting 40 kDa), also named NBA1 (new component of the
BRCA1 A complex), exists in the same BRCA1-containing
complex and is essential for the integrity of the
complex. There are studies suggesting that MERIT40/NBA1
ties BRCA1 complex integrity, DSB recognition, and
ubiquitin chain activities to the DNA damage response.
It has also been shown that BRCA1-containing complex
resembles the lid complex of the 26S proteasome.
Length = 244
Score = 28.5 bits (64), Expect = 5.8
Identities = 21/73 (28%), Positives = 32/73 (43%), Gaps = 22/73 (30%)
Query: 35 GDISVLVAGSKVADVSNAILTL-----KSKDPVKVVTVRGTSFPPAAKGGSASVEALANA 89
G+I V G +VA V + + + K KD V++ S E L+ A
Sbjct: 32 GEIEVSKKGEEVAIVHISAVIILRRSDKRKDRVEI-----------------SPEQLSAA 74
Query: 90 SVEANKLSEWVGQ 102
S EA +L+E G+
Sbjct: 75 STEAERLTEETGR 87
>gnl|CDD|182988 PRK11133, serB, phosphoserine phosphatase; Provisional.
Length = 322
Score = 28.0 bits (63), Expect = 7.2
Identities = 15/52 (28%), Positives = 24/52 (46%), Gaps = 10/52 (19%)
Query: 226 LIVSAQNAGKYTHILAGASSMGKSLLPRVAAL-----LDVSPISDIIDIKSP 272
+IV+A Y + + SL PR L LDV+P+ I +++P
Sbjct: 64 VIVAAWCVEDYQVVR-----LAGSLTPRATRLAHELGLDVAPLGKIPHLRTP 110
Score = 28.0 bits (63), Expect = 7.2
Identities = 15/52 (28%), Positives = 24/52 (46%), Gaps = 10/52 (19%)
Query: 305 LIVSAQNAGKYTHILAGASSMGKSLLPRVAAL-----LDVSPISDIIDIKSP 351
+IV+A Y + + SL PR L LDV+P+ I +++P
Sbjct: 64 VIVAAWCVEDYQVVR-----LAGSLTPRATRLAHELGLDVAPLGKIPHLRTP 110
>gnl|CDD|237306 PRK13208, valS, valyl-tRNA synthetase; Reviewed.
Length = 800
Score = 28.2 bits (64), Expect = 8.8
Identities = 11/55 (20%), Positives = 20/55 (36%), Gaps = 6/55 (10%)
Query: 42 AGSKVADVSNAILTLKS------KDPVKVVTVRGTSFPPAAKGGSASVEALANAS 90
G ++ +A+ KS P+K V V G + + ++A N
Sbjct: 729 LGELAKEILSAVRKYKSEAGLSLNAPLKKVEVYGPADLELLEAAEEDLKAAGNIE 783
>gnl|CDD|143396 cd07077, ALDH-like, NAD(P)+-dependent aldehyde dehydrogenase-like
(ALDH-like) family. The aldehyde dehydrogenase-like
(ALDH-like) group of the ALDH superfamily of
NAD(P)+-dependent enzymes which, in general, oxidize a
wide range of endogenous and exogenous aliphatic and
aromatic aldehydes to their corresponding carboxylic
acids and play an important role in detoxification.
This group includes families ALDH18, ALDH19, and ALDH20
and represents such proteins as gamma-glutamyl phosphate
reductase, LuxC-like acyl-CoA reductase, and coenzyme A
acylating aldehyde dehydrogenase. All of these proteins
have a conserved cysteine that aligns with the catalytic
cysteine of the ALDH group.
Length = 397
Score = 28.0 bits (62), Expect = 9.3
Identities = 25/103 (24%), Positives = 35/103 (33%), Gaps = 24/103 (23%)
Query: 24 LSAIT-AAQKIGGDISVLVAGSKVADVSNAILTLKSKDPVKVVTVRGTSFPPAAKGGSAS 82
LS IT A + I + A +N L L + AA G
Sbjct: 114 LSGITSALRGIATRNQCIFRPHPSAPFTNRALALLFQAAD------------AAHGPKIL 161
Query: 83 VEALANASVEANKLSEWVGQELSKSDRPDLGSAKIVVSGGRGL 125
V + + S E + +EL + DL IV +GGR
Sbjct: 162 VLYVPHPSDE-------LAEELLSHPKIDL----IVATGGRDA 193
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
0.313 0.131 0.351
Gapped
Lambda K H
0.267 0.0751 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 18,062,263
Number of extensions: 1764319
Number of successful extensions: 1414
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1402
Number of HSP's successfully gapped: 62
Length of query: 368
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 270
Effective length of database: 6,590,910
Effective search space: 1779545700
Effective search space used: 1779545700
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 60 (26.8 bits)