RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 030169
(182 letters)
>gnl|CDD|215066 PLN00125, PLN00125, Succinyl-CoA ligase [GDP-forming] subunit
alpha.
Length = 300
Score = 213 bits (544), Expect = 8e-70
Identities = 105/111 (94%), Positives = 108/111 (97%), Gaps = 1/111 (0%)
Query: 47 AASHPAVFVDKNTRVICQGITGKNGTFHTEQAIEYGTKMVVGGVTPKKGGTEHLGLPVFN 106
A+ PAVFVDKNTRVICQGITGKNGTFHTEQAIEYGTKMV GGVTPKKGGTEHLGLPVFN
Sbjct: 1 ASPPPAVFVDKNTRVICQGITGKNGTFHTEQAIEYGTKMV-GGVTPKKGGTEHLGLPVFN 59
Query: 107 SVAEAKAETKANASVIYVPPPFAAAAIMEAMEAELDLVVCITEGIPQHDMV 157
+VAEAKAETKANASVIYVPPPFAAAAI+EAMEAELDLVVCITEGIPQHDMV
Sbjct: 60 TVAEAKAETKANASVIYVPPPFAAAAILEAMEAELDLVVCITEGIPQHDMV 110
>gnl|CDD|180194 PRK05678, PRK05678, succinyl-CoA synthetase subunit alpha;
Validated.
Length = 291
Score = 207 bits (530), Expect = 1e-67
Identities = 73/106 (68%), Positives = 88/106 (83%), Gaps = 1/106 (0%)
Query: 52 AVFVDKNTRVICQGITGKNGTFHTEQAIEYGTKMVVGGVTPKKGGTEHLGLPVFNSVAEA 111
++ ++K+T+VI QGITGK GTFHTEQ + YGT +V GGVTP KGGT LGLPVFN+VAEA
Sbjct: 2 SILINKDTKVIVQGITGKQGTFHTEQMLAYGTNIV-GGVTPGKGGTTVLGLPVFNTVAEA 60
Query: 112 KAETKANASVIYVPPPFAAAAIMEAMEAELDLVVCITEGIPQHDMV 157
T ANASVIYVPPPFAA AI+EA++A +DL+VCITEGIP DM+
Sbjct: 61 VEATGANASVIYVPPPFAADAILEAIDAGIDLIVCITEGIPVLDML 106
>gnl|CDD|240307 PTZ00187, PTZ00187, succinyl-CoA synthetase alpha subunit;
Provisional.
Length = 317
Score = 207 bits (528), Expect = 4e-67
Identities = 88/128 (68%), Positives = 102/128 (79%), Gaps = 3/128 (2%)
Query: 32 SAAPAAHSRNYGSSAAASHPAVFVDKNTRVICQGITGKNGTFHTEQAIEYGTKMVVGGVT 91
AA ++ + ++ S P V+V+KNT+VICQGITGK GTFHTEQAIEYGTKMV GGV
Sbjct: 3 GAAFMILKVSFRARSSTSAPRVWVNKNTKVICQGITGKQGTFHTEQAIEYGTKMV-GGVN 61
Query: 92 PKKGGTEHL--GLPVFNSVAEAKAETKANASVIYVPPPFAAAAIMEAMEAELDLVVCITE 149
PKK GT HL GLPVF +V EAK T A+ASVIYVPPP AA+AI+EA+EAE+ LVVCITE
Sbjct: 62 PKKAGTTHLKHGLPVFATVKEAKKATGADASVIYVPPPHAASAIIEAIEAEIPLVVCITE 121
Query: 150 GIPQHDMV 157
GIPQHDMV
Sbjct: 122 GIPQHDMV 129
>gnl|CDD|223152 COG0074, SucD, Succinyl-CoA synthetase, alpha subunit [Energy
production and conversion].
Length = 293
Score = 187 bits (476), Expect = 1e-59
Identities = 71/106 (66%), Positives = 86/106 (81%), Gaps = 1/106 (0%)
Query: 52 AVFVDKNTRVICQGITGKNGTFHTEQAIEYGTKMVVGGVTPKKGGTEHLGLPVFNSVAEA 111
++ ++K+T+VI QGITGK GTFHTEQ + YGTK+V GGVTP KGG LGLPVFN+V EA
Sbjct: 2 SILLNKDTKVIVQGITGKQGTFHTEQMLAYGTKIV-GGVTPGKGGQTILGLPVFNTVEEA 60
Query: 112 KAETKANASVIYVPPPFAAAAIMEAMEAELDLVVCITEGIPQHDMV 157
ET ANASVI+VPPPFAA AI+EA++A + LVV ITEGIP DM+
Sbjct: 61 VKETGANASVIFVPPPFAADAILEAIDAGIKLVVIITEGIPVLDML 106
>gnl|CDD|130091 TIGR01019, sucCoAalpha, succinyl-CoA synthetase, alpha subunit.
This model describes succinyl-CoA synthetase alpha
subunits but does not discriminate between GTP-specific
and ATP-specific reactions. The model is designated as
subfamily rather than equivalog for that reason. ATP
citrate lyases appear to form an outgroup [Energy
metabolism, TCA cycle].
Length = 286
Score = 185 bits (471), Expect = 7e-59
Identities = 70/105 (66%), Positives = 85/105 (80%), Gaps = 1/105 (0%)
Query: 53 VFVDKNTRVICQGITGKNGTFHTEQAIEYGTKMVVGGVTPKKGGTEHLGLPVFNSVAEAK 112
+ +DK+T+VI QGITG G+FHTEQ + YGT +V GGVTP KGGT LGLPVF+SV EA
Sbjct: 1 ILLDKDTKVIVQGITGSQGSFHTEQMLAYGTNIV-GGVTPGKGGTTVLGLPVFDSVKEAV 59
Query: 113 AETKANASVIYVPPPFAAAAIMEAMEAELDLVVCITEGIPQHDMV 157
ET ANASVI+VP PFAA AI EA++A ++L+VCITEGIP HDM+
Sbjct: 60 EETGANASVIFVPAPFAADAIFEAIDAGIELIVCITEGIPVHDML 104
>gnl|CDD|202320 pfam02629, CoA_binding, CoA binding domain. This domain has a
Rossmann fold and is found in a number of proteins
including succinyl CoA synthetases, malate and
ATP-citrate ligases.
Length = 96
Score = 124 bits (313), Expect = 2e-37
Identities = 44/97 (45%), Positives = 59/97 (60%), Gaps = 3/97 (3%)
Query: 56 DKNTRVICQGITGKN--GTFHTEQAIEYGTKMVVGGVTPKKGGTEHLGLPVFNSVAEAKA 113
DK+T+V G G G +H Q + YG KMV GV P+KGGTE G+PV+ SV E +
Sbjct: 1 DKDTKVAVIGAGGLGIQGLYHFIQLLGYGIKMV-FGVNPRKGGTEVGGIPVYKSVDELEE 59
Query: 114 ETKANASVIYVPPPFAAAAIMEAMEAELDLVVCITEG 150
+T + +VI VP PFA AI E ++A + +V IT G
Sbjct: 60 DTGVDVAVITVPAPFAQEAIDELVDAGIKGIVNITPG 96
>gnl|CDD|214881 smart00881, CoA_binding, CoA binding domain. This domain has a
Rossmann fold and is found in a number of proteins
including succinyl CoA synthetases, malate and
ATP-citrate ligases.
Length = 100
Score = 115 bits (290), Expect = 7e-34
Identities = 46/101 (45%), Positives = 60/101 (59%), Gaps = 4/101 (3%)
Query: 54 FVDKNTRVICQGITGKNGTFHTEQAI---EYGTKMVVGGVTPKKGGTEHLGLPVFNSVAE 110
++ NT V G +G G+F EYGTK V GGV P K G + G+PV++SVAE
Sbjct: 1 LLNPNTSVAVVGASGNLGSFGLAVMRNLLEYGTKFV-GGVYPGKVGPKVDGVPVYDSVAE 59
Query: 111 AKAETKANASVIYVPPPFAAAAIMEAMEAELDLVVCITEGI 151
A ET + +VI+VP A AI EA+EA + +V ITEGI
Sbjct: 60 APEETGVDVAVIFVPAEAAPDAIDEAIEAGIKGIVVITEGI 100
>gnl|CDD|178137 PLN02522, PLN02522, ATP citrate (pro-S)-lyase.
Length = 608
Score = 37.5 bits (87), Expect = 0.002
Identities = 24/73 (32%), Positives = 39/73 (53%), Gaps = 4/73 (5%)
Query: 96 GTEHLGLPVFNSVAEA-KAETKANASVIYVPPPFAAAAIMEAMEAE-LDLVVCITEGIPQ 153
G E + +PV S+ A KA A+ + + AAA+ MEA++ + +V I EG+P+
Sbjct: 57 GQEEIAIPVHGSIEAACKAHPTADVFINFASFRSAAASSMEALKQPTIRVVAIIAEGVPE 116
Query: 154 HDM--VINFTRVN 164
D +I + R N
Sbjct: 117 SDTKQLIAYARAN 129
>gnl|CDD|131764 TIGR02717, AcCoA-syn-alpha, acetyl coenzyme A synthetase (ADP
forming), alpha domain. Although technically
reversible, it is believed that this group of
ADP-dependent acetyl-CoA synthetases (ACS) act in the
direction of acetate and ATP production in the organisms
in which it has been characterized. In most species this
protein exists as a fused alpha-beta domain polypeptide.
In Pyrococcus and related species, however the domains
exist as separate polypeptides. This model represents
the alpha (N-terminal) domain. In Pyrococcus and related
species there appears to have been the development of a
paralogous family such that four other proteins are
close relatives. In reference , one of these (along with
its beta-domain partner) was characterized as ACS-II
showing specificity for phenylacetyl-CoA. This model has
been constructed to exclude these non-ACS-I paralogs.
This may result in new, authentic ACS-I sequences
falling below the trusted cutoff.
Length = 447
Score = 32.3 bits (74), Expect = 0.12
Identities = 24/72 (33%), Positives = 32/72 (44%), Gaps = 4/72 (5%)
Query: 79 IEYGTKMVVGGVTPKKGGTEHLGLPVFNSVAEAKAETKANASVIYVPPPFAAAAIMEAME 138
IE G K + V PK G E LG+ + SV E + +VI VP + + E E
Sbjct: 31 IEGGYKGKIYPVNPKAG--EILGVKAYPSVLEIPDPV--DLAVIVVPAKYVPQVVEECGE 86
Query: 139 AELDLVVCITEG 150
+ V IT G
Sbjct: 87 KGVKGAVVITAG 98
>gnl|CDD|149039 pfam07755, DUF1611, Protein of unknown function (DUF1611). This
region is found in a number of hypothetical bacterial
and archaeal proteins. The region is approximately 350
residues long. A member of this family is thought to
associate with another subunit to form an
H+-transporting ATPase, but no evidence has been found
to support this.
Length = 302
Score = 30.2 bits (69), Expect = 0.45
Identities = 16/54 (29%), Positives = 26/54 (48%), Gaps = 11/54 (20%)
Query: 99 HLGLPVFNSVAEAKAETKANASVIYVP--------PPFAAAAIMEAMEAELDLV 144
G+P+ +S+ EA A A A + + P ++EA+EA LD+V
Sbjct: 17 GRGIPIVSSLEEALA---AGADTLIIGIAPSGGVLPEAWREVLLEALEAGLDVV 67
>gnl|CDD|223972 COG1042, COG1042, Acyl-CoA synthetase (NDP forming) [Energy
production and conversion].
Length = 598
Score = 30.4 bits (69), Expect = 0.59
Identities = 17/62 (27%), Positives = 26/62 (41%), Gaps = 4/62 (6%)
Query: 90 VTPKKGGTEHLGLPVFNSVAEAKAETKANASVIYVPPPFAAAAIMEAMEAELDLVVCITE 149
V PK E LG+ + SVA+ + +VI VP + E E + + I+
Sbjct: 44 VNPKYD--EVLGVKAYTSVADLPDA--PDLAVIVVPAKVVPEIVHELGEKGVKGAIVISA 99
Query: 150 GI 151
G
Sbjct: 100 GF 101
>gnl|CDD|201778 pfam01408, GFO_IDH_MocA, Oxidoreductase family, NAD-binding
Rossmann fold. This family of enzymes utilise NADP or
NAD. This family is called the GFO/IDH/MOCA family in
swiss-prot.
Length = 120
Score = 28.3 bits (64), Expect = 1.2
Identities = 11/48 (22%), Positives = 22/48 (45%)
Query: 98 EHLGLPVFNSVAEAKAETKANASVIYVPPPFAAAAIMEAMEAELDLVV 145
E G+P ++ + E A+ +A + PP + A+EA ++
Sbjct: 44 ESFGVPAYSDLEELLADPDIDAVSVATPPGLHFELALAALEAGKHVLC 91
>gnl|CDD|236451 PRK09284, PRK09284, thiamine biosynthesis protein ThiC;
Provisional.
Length = 607
Score = 29.1 bits (66), Expect = 1.3
Identities = 13/23 (56%), Positives = 15/23 (65%), Gaps = 5/23 (21%)
Query: 81 YGTKMVVGGVTPKKGGTEHLGLP 103
+GT M+ VTPK EHLGLP
Sbjct: 470 FGTAMLCY-VTPK----EHLGLP 487
>gnl|CDD|225902 COG3367, COG3367, Uncharacterized conserved protein [Function
unknown].
Length = 339
Score = 28.9 bits (65), Expect = 1.5
Identities = 21/86 (24%), Positives = 39/86 (45%), Gaps = 10/86 (11%)
Query: 65 GITGKNGTFHTEQAIEYGTKMVVGGVTPKKGGTEHLGLPVFNSVAEAKAETKANASVIYV 124
G+ + + ++ TP++ G + +P+ +SV EA E A A +I +
Sbjct: 20 GLLRYSEKYAIVAVVDRREAGDD---TPRELGGDKADVPIISSVEEAL-EGLAEALIIGI 75
Query: 125 PPPFAA------AAIMEAMEAELDLV 144
PP I+EA+EA +++V
Sbjct: 76 APPGGVLPESWREYIVEALEAGMNVV 101
>gnl|CDD|215072 PLN00141, PLN00141, Tic62-NAD(P)-related group II protein;
Provisional.
Length = 251
Score = 28.3 bits (63), Expect = 2.0
Identities = 32/130 (24%), Positives = 45/130 (34%), Gaps = 23/130 (17%)
Query: 44 SSAAASHPAVFVDKNTRVICQGITGKNGTFHTEQAIEYGTKMVVGGVTPKKGGTEHLGLP 103
A AS K V G TG+ G EQ + G V GV
Sbjct: 3 EGAEASEEDAENVKTKTVFVAGATGRTGKRIVEQLLAKGFA-VKAGVR------------ 49
Query: 104 VFNSVAEAKAETKANASVIYVPPPFAAAA--IMEAMEAELDLVVCITEGIPQHDM----- 156
V +AK + S+ V + ++EA+ + D V+C T D
Sbjct: 50 ---DVDKAKTSLPQDPSLQIVRADVTEGSDKLVEAIGDDSDAVICATGFRRSFDPFAPWK 106
Query: 157 VINFTRVNIL 166
V NF VN++
Sbjct: 107 VDNFGTVNLV 116
>gnl|CDD|218666 pfam05633, DUF793, Protein of unknown function (DUF793). This
family consists of several plant proteins of unknown
function.
Length = 389
Score = 28.3 bits (63), Expect = 2.4
Identities = 13/48 (27%), Positives = 21/48 (43%)
Query: 2 ARQALAKLIGSIGSRRPSTASSVSHYRLSSSAAPAAHSRNYGSSAAAS 49
A++AL L + + S S H S + + H R+ GSS +
Sbjct: 156 AKKALTDLAIGMLDEKDSGGSGGGHRNRSFGRSWSFHHRSIGSSGGGT 203
>gnl|CDD|226721 COG4271, COG4271, Predicted nucleotide-binding protein containing
TIR -like domain [Transcription].
Length = 233
Score = 27.6 bits (61), Expect = 3.5
Identities = 16/59 (27%), Positives = 26/59 (44%), Gaps = 4/59 (6%)
Query: 98 EHLGLPVFNSVAEA--KAETKANASVIYVPPPF--AAAAIMEAMEAELDLVVCITEGIP 152
+ LG+ N+ A A A T N ++V A A +EA+ + L I +G+
Sbjct: 59 KCLGVQPANAAAPAPQNAATMPNLKKVFVVSGHDAIARAELEALLRDWKLEPVILDGLF 117
>gnl|CDD|180717 PRK06833, PRK06833, L-fuculose phosphate aldolase; Provisional.
Length = 214
Score = 27.0 bits (60), Expect = 4.8
Identities = 10/31 (32%), Positives = 17/31 (54%), Gaps = 4/31 (12%)
Query: 76 EQAIEYGTKMVVGGVTPKKGGTEHLGLPVFN 106
E+ + YG K++ G+T GG + +FN
Sbjct: 8 EEIVAYGKKLISSGLTKGTGGN----ISIFN 34
>gnl|CDD|226208 COG3683, COG3683, ABC-type uncharacterized transport system,
periplasmic component [General function prediction
only].
Length = 213
Score = 26.6 bits (59), Expect = 7.0
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 43 GSSAAASHPAVFVDKNTRVICQ 64
S A +HP VF+D T V+ +
Sbjct: 17 ISILAYAHPHVFIDARTEVVIE 38
>gnl|CDD|233459 TIGR01541, tape_meas_lam_C, phage tail tape measure protein, lambda
family. This model represents a relatively
well-conserved region near the C-terminus of the tape
measure protein of a lambda and related phage. This
protein, which controls phage tail length, is typically
about 1000 residues in length. Both low-complexity
sequence and insertion/deletion events appear common in
this family. Mutational studies suggest a ruler or
template role in the determination of phage tail length.
Similar behavior is attributed to proteins from
distantly related or unrelated families in other phage
[Mobile and extrachromosomal element functions, Prophage
functions].
Length = 332
Score = 26.7 bits (59), Expect = 8.4
Identities = 20/66 (30%), Positives = 25/66 (37%), Gaps = 11/66 (16%)
Query: 1 MARQALAKLIGSIGSRRPSTAS---SVSHYRLSSSAAPAAHSRNYGSSAAAS-------- 49
+A+ A+A L SIGS S S S S AA + G +A
Sbjct: 212 IAKLAIAGLAQSIGSLFGGAVSGGASSSGAMASYGAAYVFNFAGGGYTAGGGKYEPSGVV 271
Query: 50 HPAVFV 55
HP FV
Sbjct: 272 HPGEFV 277
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
0.318 0.130 0.372
Gapped
Lambda K H
0.267 0.0829 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,062,182
Number of extensions: 817727
Number of successful extensions: 819
Number of sequences better than 10.0: 1
Number of HSP's gapped: 809
Number of HSP's successfully gapped: 37
Length of query: 182
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 91
Effective length of database: 6,901,388
Effective search space: 628026308
Effective search space used: 628026308
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 (21.8 bits)
S2: 56 (25.2 bits)