RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6089
(313 letters)
>gnl|CDD|216578 pfam01571, GCV_T, Aminomethyltransferase folate-binding domain.
This is a family of glycine cleavage T-proteins, part of
the glycine cleavage multienzyme complex (GCV) found in
bacteria and the mitochondria of eukaryotes. GCV
catalyzes the catabolism of glycine in eukaryotes. The
T-protein is an aminomethyl transferase.
Length = 212
Score = 176 bits (449), Expect = 1e-54
Identities = 63/212 (29%), Positives = 115/212 (54%), Gaps = 5/212 (2%)
Query: 95 IIDMSSFSKIKITCSDESLVDWLQQLCSNDVN-IPVGGISHTGMQNERGGYENDCILVRE 153
+ D+S KI+++ D +LQ+L +NDV+ + G ++T + NE+GG +D + R
Sbjct: 1 LFDVSHMGKIEVSGPD--AAAFLQRLLTNDVSKLKPGQATYTLLLNEKGGILDDLTVYRL 58
Query: 154 TETSYFMVSPTSQQTRVFEWMKNHLPTKHYITLSDVTSKYTVINVVGPKAKQLLSELCDE 213
E + +V + + W++ + +T++DVT + V+ + GPKA++LL EL D
Sbjct: 59 GEDEFLLVVNAANAEKDLAWLRKYAVFSK-VTVADVTDELAVLALQGPKARELLQELTDL 117
Query: 214 DINLHPFSYKRTDIGYASDVKLMGFTHTGEPGYCLYIPSEYALHVYQKIMTLGKDYNARD 273
+ PF I V++ +TGE GY +Y+P+E A+ +++ ++ GK+ +
Sbjct: 118 SLEALPFFSFAE-IEGGGPVRVSRTGYTGEDGYEIYVPAEDAVALWEALLEAGKEAGLKP 176
Query: 274 VGMFTQRYMRIEKFIPFWAEDLNSVTTPFESG 305
G+ + +RIE P + DL+ TTP E+G
Sbjct: 177 AGLGARDSLRIEAGYPLYGHDLDEETTPLEAG 208
>gnl|CDD|223481 COG0404, GcvT, Glycine cleavage system T protein
(aminomethyltransferase) [Amino acid transport and
metabolism].
Length = 379
Score = 175 bits (445), Expect = 4e-52
Identities = 72/236 (30%), Positives = 129/236 (54%), Gaps = 6/236 (2%)
Query: 82 MEEEYRACFEGVGIIDMSSFSKIKITCSDESLVDWLQQLCSNDV-NIPVGGISHTGMQNE 140
+ EE+ A E G+ D+S K++++ D +LQ+L +NDV + G +T M NE
Sbjct: 37 VMEEHLAVREAAGLFDVSHMGKVEVSGPD--AAAFLQRLLTNDVSKLKPGRARYTLMLNE 94
Query: 141 RGGYENDCILVRETETSYFMVSPTSQQTRVFEWMKNHLPTKHY-ITLSDVTSKYTVINVV 199
GG +D I+ R E +F+V+ + + W++ H +TL+ VT V+ +
Sbjct: 95 DGGIIDDLIVYRLGEDRFFLVTNAATAEKDLAWLERHQAGPDLDVTLTSVTEDLAVLALQ 154
Query: 200 GPKAKQLLSELCDEDIN--LHPFSYKRTDIGYASDVKLMGFTHTGEPGYCLYIPSEYALH 257
GPKA+++L++L D D+ L F++K IG V++ +TGE G+ +Y+P+E A
Sbjct: 155 GPKAREVLAKLVDGDLVEALPFFAFKEVTIGGGVPVRISRTGYTGELGFEIYVPAEDAAA 214
Query: 258 VYQKIMTLGKDYNARDVGMFTQRYMRIEKFIPFWAEDLNSVTTPFESGSAYRVKLD 313
V+ ++ G+ + + G+ + +R+E + + +DL+ TP E+G + VKLD
Sbjct: 215 VWDALLEAGEKFGVKPCGLGARDTLRLEAGLRLYGQDLDETITPLEAGLGWAVKLD 270
>gnl|CDD|234742 PRK00389, gcvT, glycine cleavage system aminomethyltransferase T;
Reviewed.
Length = 359
Score = 102 bits (256), Expect = 8e-25
Identities = 71/252 (28%), Positives = 121/252 (48%), Gaps = 49/252 (19%)
Query: 84 EEYRACFEGVGIIDMSSFSKIKITCSDESLVDWLQQLCSNDVN-IPVGGISHTGMQNERG 142
EE+ A G+ D+S ++ +T D + +LQ L +NDV+ + G +T M NE G
Sbjct: 35 EEHHAVRTDAGLFDVSHMGEVDVTGPD--ALAFLQYLLANDVSKLKPGKAQYTCMLNEDG 92
Query: 143 GYENDCILVRETETSYFMVSPTSQQTRVFEWMKNHLPTKHYITLSDVTSKYTVINVVGPK 202
G +D I+ + +E Y +V + + + W+K+H + ++D + +I V GPK
Sbjct: 93 GVIDDLIVYKLSEDEYLLVVNAANREKDLAWIKSHAAGFG-VEVTDRSDDLAMIAVQGPK 151
Query: 203 AKQLLSELCDEDIN-LHPFSYK-------------RTDIGYASDVKLMGFTHTGEPGYCL 248
A++ L +L D D++ L PF RT GY TGE G+ +
Sbjct: 152 AREKLQKLTDADLSELKPFFGAQGAEVGGGDVLVART--GY-----------TGEDGFEI 198
Query: 249 YIPSEYALHVYQKIMT-------LGKDYNARDVGMFTQRYMRIEKFIPFWAEDLNSVTTP 301
Y+P+E A ++ ++ LG ARD +R+E +P + +D++ TP
Sbjct: 199 YLPAEDAEALWDALLEAGVKPCGLG----ARDT-------LRLEAGMPLYGQDMDETITP 247
Query: 302 FESGSAYRVKLD 313
E+G + VKL+
Sbjct: 248 LEAGLGWTVKLE 259
>gnl|CDD|233010 TIGR00528, gcvT, glycine cleavage system T protein. The glycine
cleavage system T protein (GcvT) is also known as
aminomethyltransferase (EC 2.1.2.10). It works with the
H protein (GcvH), the P protein (GcvP), and lipoamide
dehydrogenase. The reported sequence of the member from
Aquifex aeolicus starts about 50 residues downstream of
the start of other members of the family (perhaps in
error); it scores below the trusted cutoff. Eukaryotic
forms are mitochondrial and have an N-terminal transit
peptide [Energy metabolism, Amino acids and amines].
Length = 362
Score = 99.1 bits (247), Expect = 1e-23
Identities = 58/242 (23%), Positives = 115/242 (47%), Gaps = 12/242 (4%)
Query: 76 PKFFDFMEEEYRACFEGVGIIDMSSFSKIKITCSDESLVDWLQQLCSNDVN-IPVGGISH 134
P + EE+ A G+ D+S ++K++ + +LQ+L NDVN + G +
Sbjct: 26 PVQYKGQIEEHNAVRTNAGLFDVSHMGQVKLSGPHS--LKFLQRLTPNDVNALTPGKAQY 83
Query: 135 TGMQNERGGYENDCILVRETETSYF-MVSPTSQQTRVFEWMKNHLPTKHYITLSDVTSKY 193
+ + N +GG +D I+ +E E + F +V + + EW HL + TL +
Sbjct: 84 SVLLNPQGGVVDDLIIYKEGEDNRFYLVVNAATAEKDLEWFHEHLQ--NGSTLDCQSDII 141
Query: 194 TVINVVGPKAKQLLSELCDEDIN-LHPFSY-KRTDIGYASDVKLMGFTHTGEPGYCLYIP 251
+++ + GPKAK +L L D+ + L PF + + + + +TGE G+ + I
Sbjct: 142 SLLALQGPKAKTILEPLLDQTVPGLKPFFFGQEAEFA-LKKAFIARTGYTGEDGFEISIA 200
Query: 252 SEYALHVYQKIMTLGKDYNARDVGMFTQRYMRIEKFIPFWAEDLNSVTTPFESGSAYRVK 311
+E A+ +++ L + G+ + +R+E + + ++L+ TP E+G + +
Sbjct: 201 NEKAVEFWEQ---LLAAPGVKPCGLGARDTLRLEAGMCLYGQELDESITPLEAGLGWVIS 257
Query: 312 LD 313
Sbjct: 258 KS 259
>gnl|CDD|233382 TIGR01372, soxA, sarcosine oxidase, alpha subunit family,
heterotetrameric form. This model describes the alpha
subunit of a family of known and putative
heterotetrameric sarcosine oxidases. Five operons of
such oxidases are found in Mesorhizobium loti and three
in Agrobacterium tumefaciens, a high enough copy number
to suggest that not all members are share the same
function. The model is designated as subfamily rather
than equivalog for this reason.Sarcosine oxidase
catalyzes the oxidative demethylation of sarcosine to
glycine. The reaction converts tetrahydrofolate to
5,10-methylene-tetrahydrofolate. The enzyme is known in
monomeric and heterotetrameric (alpha,beta,gamma,delta)
forms [Energy metabolism, Amino acids and amines].
Length = 985
Score = 89.0 bits (221), Expect = 1e-19
Identities = 60/233 (25%), Positives = 109/233 (46%), Gaps = 9/233 (3%)
Query: 85 EYRACFEGVGIIDMSSFSKIKITCSDESLVDWLQQLCSND-VNIPVGGISHTGMQNERGG 143
E +A E VG+ D S+ KI++ D ++L ++ +N + VG + M E G
Sbjct: 638 ECKAVRESVGLFDASTLGKIEVQGPDA--AEFLNRVYTNAFTKLKVGKARYGLMLREDGM 695
Query: 144 YENDCILVRETETSYFMVSPTSQQTRVFEWMKNHLPTKH---YITLSDVTSKYTVINVVG 200
+D + R E + M + T RV + ++ L T+ + L+ VT ++ + V G
Sbjct: 696 VFDDGVTSRLAEDRFLMTTTTGGAARVLQHLEEWLQTEWPELDVYLTSVTDQWATLAVSG 755
Query: 201 PKAKQLLSELCD-EDINLHPFSYKR-TDIGYASD-VKLMGFTHTGEPGYCLYIPSEYALH 257
PKA+ LL+EL D D++ F + + A +L + +GE + + +P++Y
Sbjct: 756 PKARDLLAELVDGLDLSNEAFPFMAIKEGTLAGVPARLFRISFSGELAFEVNVPADYGEA 815
Query: 258 VYQKIMTLGKDYNARDVGMFTQRYMRIEKFIPFWAEDLNSVTTPFESGSAYRV 310
V++ +M G+ + G T +R EK +D + TP + G + V
Sbjct: 816 VWEALMEAGQPFGITPYGTETMHVLRAEKGFIIVGQDTDGTVTPADLGMGWMV 868
>gnl|CDD|177953 PLN02319, PLN02319, aminomethyltransferase.
Length = 404
Score = 49.3 bits (118), Expect = 1e-06
Identities = 42/180 (23%), Positives = 87/180 (48%), Gaps = 10/180 (5%)
Query: 135 TGMQNERGGYENDCILVRETETSYFMVSPTSQQTRVFEWMKNHLPTKHYITLSDVTSKY- 193
+ NE+GG +D ++ + T+ ++V + + ++ H+ K + S +
Sbjct: 116 SVFTNEKGGIIDDTVITKVTDDHIYLVVNAGCRDKDLAHIEEHM--KAFKAKGGDVSWHV 173
Query: 194 ----TVINVVGPKAKQLLSELCDEDINLHPFS-YKRTDIGYASDVKLMGFTHTGEPGYCL 248
+++ + GP A +L L ED++ F ++ TDI +D L +TGE G+ +
Sbjct: 174 HDERSLLALQGPLAAPVLQHLTKEDLSKMYFGDFRITDIN-GADCFLTRTGYTGEDGFEI 232
Query: 249 YIPSEYALHVYQKIMTLGKDYNARDVGMFTQRYMRIEKFIPFWAEDLNSVTTPFESGSAY 308
+PSE+A+ + + ++ + R G+ + +R+E + + DL TP E+G A+
Sbjct: 233 SVPSEHAVDLAKALLE-KSEGKVRLTGLGARDSLRLEAGLCLYGNDLEEHITPVEAGLAW 291
>gnl|CDD|237113 PRK12486, dmdA, putative dimethyl sulfoniopropionate demethylase;
Reviewed.
Length = 368
Score = 42.0 bits (99), Expect = 2e-04
Identities = 55/234 (23%), Positives = 104/234 (44%), Gaps = 14/234 (5%)
Query: 76 PKFFDFMEEEYRACFEGVGIIDMSSFSKIKITCSDESLVDWLQQLCSNDVN-IPVGGISH 134
P F+ +E++Y E V + D++ +++I D + + +Q L D+ + G +
Sbjct: 37 PTVFESVEDDYAHLKEHVQVWDVAVERQVEIRGPDAARL--VQMLTPRDLRGMKPGQCYY 94
Query: 135 TGMQNERGGYENDCILVRETETSYFMVSPTSQQTRVFEWMKNHLPTKHYITLSDVTSKYT 194
+ +E GG ND + ++ E +++ S + W+K L + + V +
Sbjct: 95 VPIVDETGGMLNDPVALKLAEDRWWISIADSD---LLLWVKG-LANGRKLDVLVVEPDVS 150
Query: 195 VINVVGPKAKQLLSELCDEDI-NLHPFSYKRTDI-GYASDVKLMGFTHTGEPGYCLYIP- 251
+ V GPKA L++ + E I +L F + D G + G++ G G+ +Y+
Sbjct: 151 PLAVQGPKADALMARVFGEAIRDLRFFRFGYFDFEGTDLVIARSGYSKQG--GFEIYVEG 208
Query: 252 SEYALHVYQKIMTLGKDYNARDVGMFTQRYMRIEKFIPFWAEDLNSVTTPFESG 305
S+ + ++ + GKD N R G RIE + + D+ TP E G
Sbjct: 209 SDLGMPLWDALFEAGKDLNVR-AGC-PNLIERIEGGLLSYGNDMTRDNTPHECG 260
>gnl|CDD|226949 COG4583, COG4583, Sarcosine oxidase gamma subunit [Amino acid
transport and metabolism].
Length = 189
Score = 39.3 bits (92), Expect = 0.001
Identities = 20/92 (21%), Positives = 41/92 (44%), Gaps = 11/92 (11%)
Query: 185 TLSDVTSKYTVINVVGPKAKQLLSELCDEDINLHPFSYK-----RTDIGYASDVKLMGFT 239
+ DV+ T I + GPKA+ +L++ C ++L ++ RT G A+ V T
Sbjct: 104 SAVDVSHGRTAIRISGPKAEAVLAKGC--ALDLSLEAFPVGAAARTIFGKAAVV----LT 157
Query: 240 HTGEPGYCLYIPSEYALHVYQKIMTLGKDYNA 271
TG + + + +A ++ ++ +
Sbjct: 158 RTGADTFEIEVWRSFAESLWHLLLDASAEVGL 189
>gnl|CDD|113055 pfam04268, SoxG, Sarcosine oxidase, gamma subunit family.
Sarcosine oxidase is a hetero-tetrameric enzyme that
contains both covalently bound FMN and non-covalently
bound FAD and NAD(+). This enzyme catalyzes the
oxidative demethylation of sarcosine to yield glycine,
H2O2, and 5,10-CH2-tetrahydrofolate (H4folate) in a
reaction requiring H4folate and O2.
Length = 148
Score = 32.9 bits (75), Expect = 0.10
Identities = 17/80 (21%), Positives = 34/80 (42%), Gaps = 11/80 (13%)
Query: 185 TLSDVTSKYTVINVVGPKAKQLLSELCDEDINLHPFSYK-----RTDIGYASDVKLMGFT 239
T+ D + I + GP A+ +L++ D LH ++ T +G+ + V
Sbjct: 66 TVVDQSHGRVAIRISGPAAEAVLAKGTAID--LHADAFPVGAAATTILGHIAAV----IW 119
Query: 240 HTGEPGYCLYIPSEYALHVY 259
TG + L + +A ++
Sbjct: 120 RTGSDSFELLVFRSFAESLW 139
>gnl|CDD|214833 smart00822, PKS_KR, This enzymatic domain is part of bacterial
polyketide synthases. It catalyses the first step in
the reductive modification of the beta-carbonyl centres
in the growing polyketide chain. It uses NADPH to
reduce the keto group to a hydroxy group.
Length = 180
Score = 32.8 bits (76), Expect = 0.11
Identities = 9/17 (52%), Positives = 12/17 (70%), Gaps = 1/17 (5%)
Query: 8 GAGGIGRAVAEWM-THG 23
G GG+GRA+A W+ G
Sbjct: 8 GLGGLGRALARWLAERG 24
>gnl|CDD|223737 COG0665, DadA, Glycine/D-amino acid oxidases (deaminating) [Amino
acid transport and metabolism].
Length = 387
Score = 32.9 bits (75), Expect = 0.17
Identities = 10/36 (27%), Positives = 17/36 (47%)
Query: 2 NGNSLQGAGGIGRAVAEWMTHGEATQELLSFDVQRF 37
G+ A +GR +A+ + GE +L + RF
Sbjct: 346 GGHGFTLAPALGRLLADLILGGEPELDLRPLLLDRF 381
>gnl|CDD|236751 PRK10755, PRK10755, sensor protein BasS/PmrB; Provisional.
Length = 356
Score = 32.2 bits (74), Expect = 0.33
Identities = 13/39 (33%), Positives = 19/39 (48%), Gaps = 2/39 (5%)
Query: 19 WMTHGEATQELLSFDVQRFLDLHNNRQYLQQRIREVVGS 57
W+ H E + VQ L NN +++ + IRE V S
Sbjct: 26 WLWHES--TEQIQLLVQATLSARNNDEHVMKEIREAVAS 62
>gnl|CDD|239781 cd04248, AAK_AK-Ectoine, AAK_AK-Ectoine: Amino Acid Kinase
Superfamily (AAK), AK-Ectoine; this CD includes the
N-terminal catalytic domain of the aspartokinase of the
ectoine (1,4,5,6-tetrahydro-2-methyl
pyrimidine-4-carboxylate) biosynthetic pathway found in
Methylomicrobium alcaliphilum, Vibrio cholerae, and
other various halotolerant or halophilic bacteria.
Bacteria exposed to hyperosmotic stress accumulate
organic solutes called 'compatible solutes' of which
ectoine, a heterocyclic amino acid, is one. Apart from
its osmotic function, ectoine also exhibits a protective
effect on proteins, nucleic acids and membranes against
a variety of stress factors. de novo synthesis of
ectoine starts with the phosphorylation of L-aspartate
and shares its first two enzymatic steps with the
biosynthesis of amino acids of the aspartate family:
aspartokinase and L-aspartate-semialdehyde
dehydrogenase. The M. alcaliphilum and the V. cholerae
aspartokinases are encoded on the ectABCask operon.
Length = 304
Score = 31.7 bits (72), Expect = 0.41
Identities = 27/96 (28%), Positives = 41/96 (42%), Gaps = 20/96 (20%)
Query: 36 RFLDLHNNRQYLQQRIREVVGSTYRVGDPRPEMPPGTFFKPKFFDFMEEEYRACFEGV-- 93
RF+DL R + E + +R DPR E+P T Y C EG+
Sbjct: 160 RFVDLSGWRDSGDMTLDERISEAFRDIDPRDELPIVT------------GYAKCAEGLMR 207
Query: 94 ----GIIDMSSFSKIKI-TCSDESLVDWLQQLCSND 124
G +M +FS+I + T + E+++ L S D
Sbjct: 208 EFDRGYSEM-TFSRIAVLTGASEAIIHKEFHLSSAD 242
>gnl|CDD|220401 pfam09786, CytochromB561_N, Cytochrome B561, N terminal. Members
of this family are found in the N terminal region of
cytochrome B561, as well as in various other putative
uncharacterized proteins.
Length = 559
Score = 31.7 bits (72), Expect = 0.53
Identities = 11/20 (55%), Positives = 15/20 (75%)
Query: 34 VQRFLDLHNNRQYLQQRIRE 53
+Q FLD N++YL QRI+E
Sbjct: 395 LQPFLDAITNQEYLVQRIKE 414
>gnl|CDD|219957 pfam08659, KR, KR domain. This enzymatic domain is part of
bacterial polyketide synthases and catalyzes the first
step in the reductive modification of the beta-carbonyl
centres in the growing polyketide chain. It uses NADPH
to reduce the keto group to a hydroxy group.
Length = 181
Score = 30.6 bits (70), Expect = 0.59
Identities = 6/13 (46%), Positives = 9/13 (69%)
Query: 8 GAGGIGRAVAEWM 20
G GG+G +A W+
Sbjct: 8 GLGGLGLELARWL 20
>gnl|CDD|215720 pfam00106, adh_short, short chain dehydrogenase. This family
contains a wide variety of dehydrogenases.
Length = 167
Score = 30.6 bits (70), Expect = 0.59
Identities = 7/13 (53%), Positives = 10/13 (76%)
Query: 8 GAGGIGRAVAEWM 20
G GG+G A+A W+
Sbjct: 8 GTGGLGLALARWL 20
>gnl|CDD|227895 COG5608, COG5608, LEA14-like dessication related protein [Defense
mechanisms].
Length = 161
Score = 29.3 bits (66), Expect = 1.6
Identities = 20/84 (23%), Positives = 32/84 (38%), Gaps = 17/84 (20%)
Query: 105 KITCSDESLVDWLQQLCSNDVNIPVGGISHTGMQNERGGYENDCILVRETETSYFMVSPT 164
K+T S+ +V L+ N IPV G+ + Y ND + V P
Sbjct: 44 KVTNSETEIVGTLKIYNPNPFPIPVTGLQYA-------VYMNDIKIGEGEILKGTTVPPN 96
Query: 165 SQQT----------RVFEWMKNHL 178
S++T ++ EW H+
Sbjct: 97 SRETVDVPLRLDNSKIKEWWVTHI 120
>gnl|CDD|234184 TIGR03362, VI_chp_7, type VI secretion-associated protein, VC_A0119
family. This protein family is one of two related
families in type VI secretion systems that contain an
ImpA-related N-terminal domain (pfam06812) [Protein
fate, Protein and peptide secretion and trafficking,
Cellular processes, Pathogenesis].
Length = 301
Score = 30.0 bits (68), Expect = 1.6
Identities = 9/44 (20%), Positives = 18/44 (40%), Gaps = 7/44 (15%)
Query: 97 DMSSFSKIKITCSDESLVDWLQQLCSNDVNIPVGGISHTGMQNE 140
D + F+ DE+ WL Q + V ++ G +++
Sbjct: 176 DGTPFA------DDETR-AWLAQHATRSNAASVAPVAEVGEESD 212
>gnl|CDD|222134 pfam13444, Acetyltransf_5, Acetyltransferase (GNAT) domain. This
family contains proteins with N-acetyltransferase
functions.
Length = 101
Score = 28.4 bits (64), Expect = 1.8
Identities = 17/59 (28%), Positives = 26/59 (44%), Gaps = 2/59 (3%)
Query: 23 GEATQELLSFDVQRFLDLHNNRQYLQQRIREVVGSTYRVGDPRPEMPPGTFFKPKFFDF 81
G D+ RF D + + + + E+VG TYR+ P P + G F+ FD
Sbjct: 12 GTGPDANPGLDIDRF-DDYCDHLIVWDKDTELVG-TYRLLPPDPALGAGGFYSESEFDL 68
>gnl|CDD|233384 TIGR01375, soxG, sarcosine oxidase, gamma subunit family,
heterotetrameric form. This model describes the gamma
subunit of a family of known and putative
heterotetrameric sarcosine oxidases. Five operons of
such oxidases are found in Mesorhizobium loti and three
in Agrobacterium tumefaciens, a high enough copy number
to suggest that not all members are share the same
function. The model is designated as subfamily rather
than equivalog for this reason. The gamma subunit is the
most divergent between operons of the four subunits.
Sarcosine oxidase catalyzes the oxidative demethylation
of sarcosine to glycine. The reaction converts
tetrahydrofolate to 5,10-methylene-tetrahydrofolate. The
enzyme is known in monomeric and heterotetrameric
(alpha,beta,gamma,delta) forms [Energy metabolism, Amino
acids and amines].
Length = 152
Score = 29.0 bits (65), Expect = 2.2
Identities = 18/78 (23%), Positives = 38/78 (48%), Gaps = 7/78 (8%)
Query: 185 TLSDVTSKYTVINVVGPKAKQLLSELCDEDINLHPFSY---KRTDIGYASDVKLMGFTHT 241
+ D++ T + + GP A+++L++ C D++L F +RT G + V T
Sbjct: 70 AVVDLSGGRTALRISGPMAEEVLAKGCAVDLSLSAFPVGAGRRTIFGKIAAV----IWRT 125
Query: 242 GEPGYCLYIPSEYALHVY 259
GE + + + +A ++
Sbjct: 126 GEDTFEIIVRRSFAESLW 143
>gnl|CDD|200535 cd11274, Sema_plexin_A4, The Sema domain, a protein interacting
module, of Plexin A4. Plexin A4 forms a receptor
complex with neuropilins (NRPs) and transduces signals
for class 3 semaphorins in the nervous system. It
regulates facial nerve development by functioning as a
receptor for Sema3A/NRP1. Both plexins A3 and A4 are
essential for normal sympathetic development. They
function both cooperatively, to regulate the migration
of sympathetic neurons, and differentially, to guide
sympathetic axons. Plexin A4 is also expressed in
lymphoid tissues and functions in the immune system. It
negatively regulates T lymphocyte responses. The Sema
domain is located at the N-terminus and contains four
disulfide bonds formed by eight conserved cysteine
residues. It serves as a ligand-recognition and -binding
module.
Length = 473
Score = 29.1 bits (65), Expect = 3.0
Identities = 14/51 (27%), Positives = 27/51 (52%), Gaps = 1/51 (1%)
Query: 80 DFMEEEYRACFEGVGIIDMSSFSKIKITCSDESLVDWLQQLCSNDVNIPVG 130
D +++ ++C+ G G +D++ I CS +L+ C D+N P+G
Sbjct: 327 DRIKDRLQSCYRGEGTLDLAWLKVKDIPCSS-ALLTIDDNFCGLDMNAPLG 376
>gnl|CDD|179589 PRK03525, PRK03525, crotonobetainyl-CoA:carnitine CoA-transferase;
Provisional.
Length = 405
Score = 29.0 bits (65), Expect = 3.7
Identities = 10/34 (29%), Positives = 19/34 (55%)
Query: 176 NHLPTKHYITLSDVTSKYTVINVVGPKAKQLLSE 209
+HLP + L+ + ++ I + GP A Q+ +E
Sbjct: 2 DHLPMPKFGPLAGLRVVFSGIEIAGPFAGQMFAE 35
>gnl|CDD|236887 PRK11259, solA, N-methyltryptophan oxidase; Provisional.
Length = 376
Score = 28.6 bits (65), Expect = 4.3
Identities = 8/29 (27%), Positives = 14/29 (48%)
Query: 9 AGGIGRAVAEWMTHGEATQELLSFDVQRF 37
A +G +A+ G + +L F + RF
Sbjct: 346 ASVLGEILADLAQDGTSDFDLSPFSLSRF 374
>gnl|CDD|238760 cd01483, E1_enzyme_family, Superfamily of activating enzymes (E1)
of the ubiquitin-like proteins. This family includes
classical ubiquitin-activating enzymes E1,
ubiquitin-like (ubl) activating enzymes and other
mechanistic homologes, like MoeB, Thif1 and others. The
common reaction mechanism catalyzed by MoeB, ThiF and
the E1 enzymes begins with a nucleophilic attack of the
C-terminal carboxylate of MoaD, ThiS and ubiquitin,
respectively, on the alpha-phosphate of an ATP molecule
bound at the active site of the activating enzymes,
leading to the formation of a high-energy acyladenylate
intermediate and subsequently to the formation of a
thiocarboxylate at the C termini of MoaD and ThiS.
Length = 143
Score = 27.6 bits (62), Expect = 4.9
Identities = 31/135 (22%), Positives = 46/135 (34%), Gaps = 28/135 (20%)
Query: 8 GAGGIGRAVAE-WMTHGEATQELLSFDVQRFLDLHN-NRQYLQQRIR------EVVGSTY 59
G GG+G +A G L+ FD ++L N NRQ+L ++ EV
Sbjct: 6 GLGGLGSEIALNLARSGVGKITLIDFDT---VELSNLNRQFLARQADIGKPKAEVAARRL 62
Query: 60 RVGDPRPEMPPGTFFKPKFFDFMEEEYRACFEGVGIIDMSSFSKIKITCSDESLVD-WLQ 118
E+ PG E+ +GV ++ I D V L
Sbjct: 63 N------ELNPGVNVTAVPEGISEDNLDDFLDGVDLV---------IDAIDNIAVRRALN 107
Query: 119 QLCSNDVNIPVGGIS 133
+ C + IPV
Sbjct: 108 RACKE-LGIPVIDAG 121
>gnl|CDD|219675 pfam07972, Flavodoxin_NdrI, NrdI Flavodoxin like.
Length = 120
Score = 27.1 bits (61), Expect = 5.3
Identities = 10/24 (41%), Positives = 14/24 (58%), Gaps = 4/24 (16%)
Query: 34 VQRFLDLHNNRQYLQQRIREVVGS 57
V RFL+ NR+ +R V+GS
Sbjct: 59 VIRFLNYEKNRKL----LRGVIGS 78
>gnl|CDD|237868 PRK14960, PRK14960, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 702
Score = 28.5 bits (63), Expect = 5.6
Identities = 28/107 (26%), Positives = 49/107 (45%), Gaps = 12/107 (11%)
Query: 176 NHLPTKHYITLSDVTSKYTVINVVGPKAKQLLSELCDEDINLHPFSYKRTDIGYASDVKL 235
+H K + L D T Y +I V ++ +S+L L F Y+ D+ D +L
Sbjct: 232 HHQDVKEMLGLIDRTIIYDLILAVHQNQREKVSQL------LLQFRYQALDVSLVLD-QL 284
Query: 236 MGFTHTGEPGYCLYIPS---EYALHVYQKIMTLGKDYNARDVGMFTQ 279
+ H E Y+P +Y+ + KI+ L K +A+D+ ++ Q
Sbjct: 285 ISTLH--ELALLQYLPELGLKYSEEINAKILQLSKLISAQDLQLYYQ 329
>gnl|CDD|235412 PRK05329, PRK05329, anaerobic glycerol-3-phosphate dehydrogenase
subunit B; Validated.
Length = 422
Score = 27.9 bits (63), Expect = 7.6
Identities = 10/43 (23%), Positives = 18/43 (41%), Gaps = 5/43 (11%)
Query: 28 ELLSFDVQRFLDLHNNRQYLQQRIREVVGSTYRVGDPRPEMPP 70
E + ++ R LD NR+ L ++ + G V +P
Sbjct: 187 EFRAVNIARLLDDPENREALADALKPLAGDAEAVL-----LPA 224
>gnl|CDD|180204 PRK05690, PRK05690, molybdopterin biosynthesis protein MoeB;
Provisional.
Length = 245
Score = 27.5 bits (62), Expect = 8.9
Identities = 19/61 (31%), Positives = 30/61 (49%), Gaps = 11/61 (18%)
Query: 8 GAGGIGRAVAEWMT-HGEATQELLSFDVQRFLDLHNNRQYLQQRIREVVGSTYRVGDPRP 66
G GG+G A ++++ G T L+ FD + L N LQ R+V+ +G P+
Sbjct: 39 GLGGLGCAASQYLAAAGVGTLTLVDFDT---VSLSN----LQ---RQVLHDDATIGQPKV 88
Query: 67 E 67
E
Sbjct: 89 E 89
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 0.418
Gapped
Lambda K H
0.267 0.0845 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 16,208,862
Number of extensions: 1531445
Number of successful extensions: 1529
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1507
Number of HSP's successfully gapped: 31
Length of query: 313
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 216
Effective length of database: 6,635,264
Effective search space: 1433217024
Effective search space used: 1433217024
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 (26.3 bits)