RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16748
(291 letters)
>gnl|CDD|234779 PRK00485, fumC, fumarate hydratase; Reviewed.
Length = 464
Score = 220 bits (564), Expect = 5e-69
Identities = 77/124 (62%), Positives = 91/124 (73%), Gaps = 4/124 (3%)
Query: 67 SSGYRIEADTFGELQVPNDKYYGAQTVRSTINFPIGGETERMPLPVITAMGTLKKAAAQV 126
RIE D+ GE++VP D +GAQT RS NFPIGGE RMP +I A+ LKKAAA+V
Sbjct: 1 MMETRIEKDSMGEVEVPADALWGAQTQRSLENFPIGGE--RMPRELIRALALLKKAAARV 58
Query: 127 NKEFG-LDAKVADAISKAADEVISGKLYAEHFPLVIWQTGSGTQTNMNTNEVISNRAIEI 185
N E G LDA+ ADAI AADEVI+GK +HFPL +WQTGSGTQ+NMN NEVI+NRA E+
Sbjct: 59 NAELGLLDAEKADAIVAAADEVIAGKH-DDHFPLDVWQTGSGTQSNMNVNEVIANRASEL 117
Query: 186 LGKN 189
LG
Sbjct: 118 LGGE 121
>gnl|CDD|176465 cd01362, Fumarase_classII, Class II fumarases. This subgroup
contains Escherichia coli fumarase C, human
mitochondrial fumarase, and related proteins. It is a
member of the Lyase class I family. Members of this
family for the most part catalyze similar
beta-elimination reactions in which a C-N or C-O bond is
cleaved with the release of fumarate as one of the
products. These proteins are active as tetramers. The
four active sites of the homotetrameric enzyme are each
formed by residues from three different subunits.
Fumarase catalyzes the reversible hydration/dehydration
of fumarate to L-malate during the Krebs cycle.
Length = 455
Score = 219 bits (560), Expect = 2e-68
Identities = 81/118 (68%), Positives = 94/118 (79%), Gaps = 4/118 (3%)
Query: 71 RIEADTFGELQVPNDKYYGAQTVRSTINFPIGGETERMPLPVITAMGTLKKAAAQVNKEF 130
RIE D+ GE++VP D +GAQT RS NFPIGGE RMP +I A+G LKKAAAQ N E
Sbjct: 1 RIEKDSMGEVEVPADALWGAQTQRSLENFPIGGE--RMPRELIRALGLLKKAAAQANAEL 58
Query: 131 G-LDAKVADAISKAADEVISGKLYAEHFPLVIWQTGSGTQTNMNTNEVISNRAIEILG 187
G LD + ADAI +AADEVI+GKL +HFPLV+WQTGSGTQTNMN NEVI+NRAIE+LG
Sbjct: 59 GLLDEEKADAIVQAADEVIAGKL-DDHFPLVVWQTGSGTQTNMNVNEVIANRAIELLG 115
>gnl|CDD|176468 cd01596, Aspartase_like, aspartase (L-aspartate ammonia-lyase) and
fumarase class II enzymes. This group contains
aspartase (L-aspartate ammonia-lyase), fumarase class II
enzymes, and related proteins. It is a member of the
Lyase class I family. Members of this family for the
most part catalyze similar beta-elimination reactions in
which a C-N or C-O bond is cleaved with the release of
fumarate as one of the products. These proteins are
active as tetramers. The four active sites of the
homotetrameric enzyme are each formed by residues from
three different subunits. Aspartase catalyzes the
reversible deamination of aspartic acid. Fumarase
catalyzes the reversible hydration/dehydration of
fumarate to L-malate during the Krebs cycle.
Length = 450
Score = 214 bits (548), Expect = 8e-67
Identities = 73/120 (60%), Positives = 88/120 (73%), Gaps = 4/120 (3%)
Query: 71 RIEADTFGELQVPNDKYYGAQTVRSTINFPIGGETERMPLPVITAMGTLKKAAAQVNKEF 130
RIE D+ GE++VP D YYGAQT R+ NFPI GE RMP +I A+ +KKAAA N E
Sbjct: 1 RIEKDSLGEVEVPADAYYGAQTQRALENFPISGE--RMPPELIRALALVKKAAALANAEL 58
Query: 131 G-LDAKVADAISKAADEVISGKLYAEHFPLVIWQTGSGTQTNMNTNEVISNRAIEILGKN 189
G LD + ADAI +A DEVI+GKL + FPL +WQTGSGT TNMN NEVI+NRA+E+LG
Sbjct: 59 GLLDEEKADAIVQACDEVIAGKL-DDQFPLDVWQTGSGTSTNMNVNEVIANRALELLGGK 117
>gnl|CDD|223192 COG0114, FumC, Fumarase [Energy production and conversion].
Length = 462
Score = 205 bits (524), Expect = 4e-63
Identities = 77/119 (64%), Positives = 92/119 (77%), Gaps = 4/119 (3%)
Query: 70 YRIEADTFGELQVPNDKYYGAQTVRSTINFPIGGETERMPLPVITAMGTLKKAAAQVNKE 129
YRIE DT GE++VP D +GAQT RS NFPIGGE +MP +I A+G LKKAAAQVN +
Sbjct: 3 YRIEHDTMGEVEVPADALWGAQTQRSLENFPIGGE--KMPREIIRALGLLKKAAAQVNAD 60
Query: 130 FG-LDAKVADAISKAADEVISGKLYAEHFPLVIWQTGSGTQTNMNTNEVISNRAIEILG 187
G LD + ADAI AADEV++GK +HFPL +WQTGSGTQ+NMN NEVI+NRA E+LG
Sbjct: 61 LGLLDPEKADAIIAAADEVLAGKH-DDHFPLDVWQTGSGTQSNMNVNEVIANRASELLG 118
>gnl|CDD|215069 PLN00134, PLN00134, fumarate hydratase; Provisional.
Length = 458
Score = 186 bits (474), Expect = 6e-56
Identities = 74/112 (66%), Positives = 86/112 (76%), Gaps = 2/112 (1%)
Query: 77 FGELQVPNDKYYGAQTVRSTINFPIGGETERMPLPVITAMGTLKKAAAQVNKEFG-LDAK 135
G +QVP DK +GAQT RS NF IGGE ERMP P++ A G +KKAAA+VN E+G LD
Sbjct: 1 MGPIQVPADKLWGAQTQRSLQNFEIGGERERMPEPIVRAFGIVKKAAAKVNMEYGLLDPD 60
Query: 136 VADAISKAADEVISGKLYAEHFPLVIWQTGSGTQTNMNTNEVISNRAIEILG 187
+ AI +AADEV GKL +HFPLV+WQTGSGTQTNMN NEVI+NRA EILG
Sbjct: 61 IGKAIMQAADEVAEGKLD-DHFPLVVWQTGSGTQTNMNANEVIANRAAEILG 111
>gnl|CDD|130052 TIGR00979, fumC_II, fumarate hydratase, class II. Putative
fumarases from several species (Mycobacterium
tuberculosis, Streptomyces coelicolor, Pseudomonas
aeruginosa) branch deeply, although within the same
branch of a phylogenetic tree rooted by aspartate
ammonia-lyase sequences, and score between the trusted
and noise cutoffs [Energy metabolism, TCA cycle].
Length = 458
Score = 184 bits (469), Expect = 3e-55
Identities = 79/119 (66%), Positives = 96/119 (80%), Gaps = 4/119 (3%)
Query: 70 YRIEADTFGELQVPNDKYYGAQTVRSTINFPIGGETERMPLPVITAMGTLKKAAAQVNKE 129
+RIE D+ GE+QVP DKY+GAQT RS NF IG TE+MPL +I A LKKAAA VN++
Sbjct: 1 FRIEKDSMGEIQVPADKYWGAQTQRSLENFKIG--TEKMPLELIHAFAILKKAAAIVNED 58
Query: 130 FG-LDAKVADAISKAADEVISGKLYAEHFPLVIWQTGSGTQTNMNTNEVISNRAIEILG 187
G LDAK ADAI +AADE+++GK +HFPLV+WQTGSGTQ+NMN NEVI+NRAIE+LG
Sbjct: 59 LGKLDAKKADAIVQAADEILAGK-LDDHFPLVVWQTGSGTQSNMNVNEVIANRAIELLG 116
>gnl|CDD|237031 PRK12273, aspA, aspartate ammonia-lyase; Provisional.
Length = 472
Score = 165 bits (420), Expect = 1e-47
Identities = 60/124 (48%), Positives = 77/124 (62%), Gaps = 2/124 (1%)
Query: 66 ASSGYRIEADTFGELQVPNDKYYGAQTVRSTINFPIGGETERMPLPVITAMGTLKKAAAQ 125
RIE D GE +VP D YYG T+R+ NFPI G +I A+ +KKAAA
Sbjct: 1 MMMNTRIEKDLLGEREVPADAYYGIHTLRAVENFPISGVKISDYPELIRALAMVKKAAAL 60
Query: 126 VNKEFG-LDAKVADAISKAADEVISGKLYAEHFPLVIWQTGSGTQTNMNTNEVISNRAIE 184
NKE G LD + ADAI A DE+++GK + F + + Q G+GT TNMN NEVI+NRA+E
Sbjct: 61 ANKELGLLDEEKADAIVAACDEILAGK-LHDQFVVDVIQGGAGTSTNMNANEVIANRALE 119
Query: 185 ILGK 188
+LG
Sbjct: 120 LLGH 123
>gnl|CDD|176462 cd01357, Aspartase, Aspartase. This subgroup contains Escherichia
coli aspartase (L-aspartate ammonia-lyase), Bacillus
aspartase and related proteins. It is a member of the
Lyase class I family, which includes both aspartase
(L-aspartate ammonia-lyase) and fumarase class II
enzymes. Members of this family for the most part
catalyze similar beta-elimination reactions in which a
C-N or C-O bond is cleaved with the release of fumarate
as one of the products. These proteins are active as
tetramers. The four active sites of the homotetrameric
enzyme are each formed by residues from three different
subunits. Aspartase catalyzes the reversible deamination
of aspartic acid.
Length = 450
Score = 156 bits (398), Expect = 1e-44
Identities = 61/119 (51%), Positives = 80/119 (67%), Gaps = 4/119 (3%)
Query: 71 RIEADTFGELQVPNDKYYGAQTVRSTINFPIGGETERMPLPVITAMGTLKKAAAQVNKEF 130
RIE D GE +VP D YYG QT+R+ NFPI G ++ +I A+ +KKAAA N E
Sbjct: 1 RIEHDLLGEREVPADAYYGIQTLRALENFPISGL--KIHPELIRALAMVKKAAALANAEL 58
Query: 131 G-LDAKVADAISKAADEVISGKLYAEHFPLVIWQTGSGTQTNMNTNEVISNRAIEILGK 188
G LD + A+AI KA DE+I+GK + F + + Q G+GT TNMN NEVI+NRA+E+LG
Sbjct: 59 GLLDEEKAEAIVKACDEIIAGK-LHDQFVVDVIQGGAGTSTNMNANEVIANRALELLGH 116
>gnl|CDD|223958 COG1027, AspA, Aspartate ammonia-lyase [Amino acid transport and
metabolism].
Length = 471
Score = 148 bits (376), Expect = 2e-41
Identities = 60/124 (48%), Positives = 80/124 (64%), Gaps = 2/124 (1%)
Query: 67 SSGYRIEADTFGELQVPNDKYYGAQTVRSTINFPIGGETERMPLPVITAMGTLKKAAAQV 126
S+ RIE D GE ++P + YYG T+R+ NFPI G I AM +KKAAA
Sbjct: 1 STDMRIERDLLGEREIPAEVYYGIHTLRAVENFPISGLKISDVPEFIRAMAMVKKAAALA 60
Query: 127 NKEFG-LDAKVADAISKAADEVISGKLYAEHFPLVIWQTGSGTQTNMNTNEVISNRAIEI 185
NKE G L ++ADAI KA DE++ GK + + F + ++Q G+GT TNMN NEVI+NRA+E+
Sbjct: 61 NKELGALPKEIADAIVKACDEILDGKCH-DQFVVDVYQGGAGTSTNMNANEVIANRALEL 119
Query: 186 LGKN 189
LG
Sbjct: 120 LGHE 123
>gnl|CDD|171490 PRK12425, PRK12425, fumarate hydratase; Provisional.
Length = 464
Score = 146 bits (370), Expect = 8e-41
Identities = 67/119 (56%), Positives = 85/119 (71%), Gaps = 4/119 (3%)
Query: 71 RIEADTFGELQVPNDKYYGAQTVRSTINFPIGGETERMPLPVITAMGTLKKAAAQVNKEF 130
R E D+ G ++VP D Y+GAQT RS INF IG E RMPL V+ A+ +KKAAA+VN
Sbjct: 3 RTETDSLGPIEVPEDAYWGAQTQRSLINFAIGKE--RMPLAVLHALALIKKAAARVNDRN 60
Query: 131 G-LDAKVADAISKAADEVISGKLYAEHFPLVIWQTGSGTQTNMNTNEVISNRAIEILGK 188
G L A +A I +AADEV+ G+ + + FPLV+WQTGSGTQ+NMN NEVI+ RA E+ G
Sbjct: 61 GDLPADIARLIEQAADEVLDGQ-HDDQFPLVVWQTGSGTQSNMNVNEVIAGRANELAGN 118
>gnl|CDD|183992 PRK13353, PRK13353, aspartate ammonia-lyase; Provisional.
Length = 473
Score = 145 bits (368), Expect = 2e-40
Identities = 57/119 (47%), Positives = 80/119 (67%), Gaps = 4/119 (3%)
Query: 70 YRIEADTFGELQVPNDKYYGAQTVRSTINFPIGGETERMPLPVITAMGTLKKAAAQVNKE 129
RIE D GE +VP + YYG QT+R+ NFPI G ++ +I A +KKAAA N +
Sbjct: 5 MRIEHDLLGEKEVPAEAYYGIQTLRAVENFPITGY--KIHPELIRAFAQVKKAAALANAD 62
Query: 130 FG-LDAKVADAISKAADEVISGKLYAEHFPLVIWQTGSGTQTNMNTNEVISNRAIEILG 187
G L ++A+AI +A DE+++GKL+ + F + Q G+GT TNMN NEVI+NRA+E+LG
Sbjct: 63 LGLLPRRIAEAIVQACDEILAGKLH-DQFIVDPIQGGAGTSTNMNANEVIANRALELLG 120
>gnl|CDD|213564 TIGR00839, aspA, aspartate ammonia-lyase. This enzyme, aspartate
ammonia-lyase, shows local homology to a number of other
lyases, as modeled by Pfam model pfam00206. Fumarate
hydratase scores as high as 570 bits against this model
[Energy metabolism, Amino acids and amines].
Length = 468
Score = 116 bits (292), Expect = 1e-29
Identities = 51/118 (43%), Positives = 72/118 (61%), Gaps = 1/118 (0%)
Query: 71 RIEADTFGELQVPNDKYYGAQTVRSTINFPIGGETERMPLPVITAMGTLKKAAAQVNKEF 130
RIE D GE +VP D YYG T+R++ NF I + M +KKAAA NKE
Sbjct: 1 RIEEDLLGEREVPADAYYGIHTLRASENFYISNNKISDIPEFVRGMVMVKKAAALANKEL 60
Query: 131 G-LDAKVADAISKAADEVISGKLYAEHFPLVIWQTGSGTQTNMNTNEVISNRAIEILG 187
G + +A+AI A DE+++ + FP+ ++Q G+GT NMNTNEVI+N A+E++G
Sbjct: 61 GTIPESIANAIVAACDEILNNGKCHDQFPVDVYQGGAGTSVNMNTNEVIANLALELMG 118
>gnl|CDD|237743 PRK14515, PRK14515, aspartate ammonia-lyase; Provisional.
Length = 479
Score = 112 bits (282), Expect = 3e-28
Identities = 57/127 (44%), Positives = 79/127 (62%), Gaps = 4/127 (3%)
Query: 63 VRMASSGYRIEADTFGELQVPNDKYYGAQTVRSTINFPIGGETERMPLPVITAMGTLKKA 122
+ +G RIE D GE +VPN YYG QT+R+ NFPI G ++ +I A +KKA
Sbjct: 4 LTEVKNGVRIEKDFLGEKEVPNYAYYGVQTMRAVENFPITG--YKIHEGLIKAFAIVKKA 61
Query: 123 AAQVNKEFG-LDAKVADAISKAADEVISGKLYAEHFPLVIWQTGSGTQTNMNTNEVISNR 181
AA N + G L+ AI++AA E++ GK + +HF + Q G+GT NMN NEVI+NR
Sbjct: 62 AALANTDVGRLELNKGGAIAEAAQEILDGK-WHDHFIVDPIQGGAGTSMNMNANEVIANR 120
Query: 182 AIEILGK 188
A+E+LG
Sbjct: 121 ALELLGM 127
>gnl|CDD|215787 pfam00206, Lyase_1, Lyase.
Length = 312
Score = 97.8 bits (244), Expect = 9e-24
Identities = 41/102 (40%), Positives = 48/102 (47%), Gaps = 10/102 (9%)
Query: 78 GELQVPNDKYYGAQTVRSTINFPIGGETERMPLPVITAMGTLKKAAAQVNKEFGLDAKVA 137
G VP D G T RS NF + E + + LKKAAA+ N + A
Sbjct: 1 GRFTVPADALMGIFTDRSRFNFRLSEEDIK-------GLAALKKAAAKANVLL---KEEA 50
Query: 138 DAISKAADEVISGKLYAEHFPLVIWQTGSGTQTNMNTNEVIS 179
AI KA DEV + FPL + Q GSGT NMN NEVI
Sbjct: 51 AAIIKALDEVAEEGKADDAFPLKVIQEGSGTAVNMNLNEVIG 92
>gnl|CDD|176461 cd01334, Lyase_I, Lyase class I family; a group of proteins which
catalyze similar beta-elimination reactions. The Lyase
class I family contains class II fumarase, aspartase,
adenylosuccinate lyase (ASL), argininosuccinate lyase
(ASAL), prokaryotic-type 3-carboxy-cis,cis-muconate
cycloisomerase (pCMLE), and related proteins. It belongs
to the Lyase_I superfamily. Proteins of this family for
the most part catalyze similar beta-elimination
reactions in which a C-N or C-O bond is cleaved with the
release of fumarate as one of the products. These
proteins are active as tetramers. The four active sites
of the homotetrameric enzyme are each formed by residues
from three different subunits.
Length = 325
Score = 74.8 bits (185), Expect = 2e-15
Identities = 28/77 (36%), Positives = 39/77 (50%), Gaps = 6/77 (7%)
Query: 113 ITAMGTLKKAAAQVNKEFG-LDAKVADAISKAADEVISGKLYAEHFPLVIWQTGSGTQTN 171
I A ++KA A+ E G L + A+AI A DE++ G A+ Q GSGT
Sbjct: 1 IRADLQVEKAHAKALAELGLLPKEAAEAILAALDEILEGIA-ADQV----EQEGSGTHDV 55
Query: 172 MNTNEVISNRAIEILGK 188
M EV++ RA E+ G
Sbjct: 56 MAVEEVLAERAGELNGG 72
>gnl|CDD|226035 COG3504, VirB9, Type IV secretory pathway, VirB9 components
[Intracellular trafficking and secretion].
Length = 265
Score = 33.9 bits (78), Expect = 0.073
Identities = 16/65 (24%), Positives = 25/65 (38%), Gaps = 3/65 (4%)
Query: 32 HHFPHAQRQERPRMAYLSPVHKHTLKTLKILVRMASSGYRIEADTFGELQVPNDKYYGAQ 91
FP+ Q P + + P K +L + RM S+G + F ++ N Y
Sbjct: 188 FEFPNKIDQ--PAIYVVFPDGKESLDGQLVNYRMVSNGLILR-RGFDVAELRNGAYDKQG 244
Query: 92 TVRST 96
V T
Sbjct: 245 VVTIT 249
>gnl|CDD|184316 PRK13771, PRK13771, putative alcohol dehydrogenase; Provisional.
Length = 334
Score = 32.3 bits (74), Expect = 0.24
Identities = 17/42 (40%), Positives = 20/42 (47%), Gaps = 11/42 (26%)
Query: 123 AAQVNKEFGLDAKV---------ADAISKAADEVISGKLYAE 155
A QV K G AKV A +SK AD VI G ++E
Sbjct: 179 AIQVAKALG--AKVIAVTSSESKAKIVSKYADYVIVGSKFSE 218
>gnl|CDD|221734 pfam12722, Hid1, High-temperature-induced dauer-formation protein.
Hid1 (high-temperature-induced dauer-formation protein
1) represents proteins of approximately 800 residues
long and is conserved from fungi to humans. It contains
up to seven potential transmembrane domains separated by
regions of low complexity. Functionally it might be
involved in vesicle secretion or be an inter-cellular
signalling protein or be a novel insulin receptor.
Length = 813
Score = 31.2 bits (71), Expect = 0.78
Identities = 13/27 (48%), Positives = 19/27 (70%), Gaps = 2/27 (7%)
Query: 161 IWQTGSGTQTNMNTNEVI-SNRAIEIL 186
IW++G GT T+ +N + SNR +EIL
Sbjct: 189 IWESGVGTNTSPYSNPELDSNR-LEIL 214
>gnl|CDD|224089 COG1167, ARO8, Transcriptional regulators containing a DNA-binding
HTH domain and an aminotransferase domain (MocR family)
and their eukaryotic orthologs [Transcription / Amino
acid transport and metabolism].
Length = 459
Score = 29.2 bits (66), Expect = 2.6
Identities = 15/56 (26%), Positives = 27/56 (48%), Gaps = 8/56 (14%)
Query: 34 FPHAQRQERPRMAYLSPVHKH------TLKTLKILVRMASS--GYRIEADTFGELQ 81
A Q +P+ Y++P ++ +L+ K L+ +A IE D +GEL+
Sbjct: 218 LEEALAQWKPKAVYVTPTFQNPTGVTMSLERRKALLALAEKYDVLIIEDDYYGELR 273
>gnl|CDD|233397 TIGR01405, polC_Gram_pos, DNA polymerase III, alpha chain,
Gram-positive type. This model describes a polypeptide
chain of DNA polymerase III. Full-length homologs of this
protein are restricted to the Gram-positive lineages,
including the Mycoplasmas. This protein is designated
alpha chain and given the gene symbol polC, but is not a
full-length homolog of other polC genes. The N-terminal
region of about 200 amino acids is rich in low-complexity
sequence, poorly alignable, and not included n this model
[DNA metabolism, DNA replication, recombination, and
repair].
Length = 1213
Score = 28.9 bits (65), Expect = 3.8
Identities = 20/79 (25%), Positives = 30/79 (37%), Gaps = 14/79 (17%)
Query: 40 QERPRMAYLSPVHKHTLKTLKILVRMASSGYRIEADTFGELQVPNDKYYGAQTVRSTINF 99
R ++ SP K L L+I++ M + G++ + P D Y T F
Sbjct: 1096 NTRRKINKASPKEKDLLTVLEIVLEMMARGFKFQ---------PIDLYKSQAT-----EF 1141
Query: 100 PIGGETERMPLPVITAMGT 118
I G T P I +G
Sbjct: 1142 LIEGNTLIPPFNAIPGLGE 1160
>gnl|CDD|226406 COG3889, COG3889, Predicted solute binding protein [General
function prediction only].
Length = 872
Score = 28.7 bits (64), Expect = 4.6
Identities = 13/98 (13%), Positives = 24/98 (24%), Gaps = 1/98 (1%)
Query: 177 VISNRAIEILGKNTVLGWFSQNGERLL-FLPIADFWQLLNPYLDRRNKKNVDENVLNLSS 235
+ + Q E + F P D + Y + V + + S
Sbjct: 344 TYNPENYVLNYNKFDKWVKLQFIEDMYGFGPYFDVFSAYGIYNENTIILGVVKIGYDYSW 403
Query: 236 AGSSDSEEGEEGGGWDFVQGGQDARTLATHTSHTVTVS 273
S GG+ V R + + +
Sbjct: 404 YLFSSKWNPVNIGGFTDVYSKDILRAVGDPAMYFNPFT 441
>gnl|CDD|237761 PRK14597, PRK14597, peptide deformylase; Provisional.
Length = 166
Score = 27.4 bits (61), Expect = 5.6
Identities = 12/36 (33%), Positives = 16/36 (44%), Gaps = 2/36 (5%)
Query: 12 IEISNFPPTLHAHEGCLKLPHHFPHAQRQERPRMAY 47
IE S A EGCL P F +R + ++ Y
Sbjct: 73 IEKS--EEKEIAEEGCLSFPEIFEDVERSKWVKVRY 106
>gnl|CDD|222488 pfam13988, DUF4225, Protein of unknown function (DUF4225). This
family of proteins is functionally uncharacterized. This
family of proteins is found in bacteria and eukaryotes.
Proteins in this family are typically between 182 and
282 amino acids in length.
Length = 167
Score = 27.3 bits (61), Expect = 6.3
Identities = 7/34 (20%), Positives = 12/34 (35%)
Query: 117 GTLKKAAAQVNKEFGLDAKVADAISKAADEVISG 150
G ++ + K G + D A D +S
Sbjct: 99 GPVRDGYRETAKFLGFSERTGDLAYGAVDLALSV 132
>gnl|CDD|219240 pfam06957, COPI_C, Coatomer (COPI) alpha subunit C-terminus. This
family represents the C-terminus (approximately 500
residues) of the eukaryotic coatomer alpha subunit.
Coatomer (COPI) is a large cytosolic protein complex
which forms a coat around vesicles budding from the
Golgi apparatus. Such coatomer-coated vesicles have been
proposed to play a role in many distinct steps of
intracellular transport. Note that many family members
also contain the pfam04053 domain.
Length = 421
Score = 27.9 bits (62), Expect = 7.2
Identities = 12/31 (38%), Positives = 14/31 (45%), Gaps = 4/31 (12%)
Query: 225 NVDENVLNLSSAGSSDSEEGE----EGGGWD 251
+DE+ G D EEG E GGWD
Sbjct: 48 GLDEDGYLEGEDGLLDDEEGPEGGDEEGGWD 78
>gnl|CDD|144881 pfam01452, Rota_NSP4, Rotavirus non structural protein. This
protein has been called NSP4, NSP5, NS28, and NCVP5.
The final steps in the assembly of rotavirus occur in
the lumen of the endoplasmic reticulum (ER). Targeting
of the immature inner capsid particle (ICP) to this
compartment is mediated by the cytoplasmic tail of
NSP4, located in the ER membrane.
Length = 174
Score = 27.2 bits (60), Expect = 8.0
Identities = 9/42 (21%), Positives = 16/42 (38%), Gaps = 10/42 (23%)
Query: 41 ERPRMAY----------LSPVHKHTLKTLKILVRMASSGYRI 72
P M Y L HK ++ T+K+ + Y++
Sbjct: 26 IDPGMKYFPYIASVLTVLFTAHKASIPTMKVAKTTSGCSYKV 67
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
0.317 0.132 0.394
Gapped
Lambda K H
0.267 0.0725 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,494,771
Number of extensions: 1358384
Number of successful extensions: 1253
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1213
Number of HSP's successfully gapped: 30
Length of query: 291
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 195
Effective length of database: 6,679,618
Effective search space: 1302525510
Effective search space used: 1302525510
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 (21.7 bits)
S2: 59 (26.5 bits)