RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2301
(350 letters)
>gnl|CDD|227635 COG5325, COG5325, t-SNARE complex subunit, syntaxin [Intracellular
trafficking and secretion].
Length = 283
Score = 103 bits (258), Expect = 2e-25
Identities = 60/275 (21%), Positives = 115/275 (41%), Gaps = 28/275 (10%)
Query: 24 DSRAAPIWTDALEETQYALPRLENKLKELEKLQESHLLRPTLDESTEQETKIELLTQEIS 83
D P + + L + + L K+ H P+ + +E+E +I+ L+++++
Sbjct: 29 DDALTPTFILSAASVDQELTAVRRSISRLGKVYAKHTE-PSFSDKSEKEDEIDELSKKVN 87
Query: 84 RMFNGCHQLIQKIKHQSSDAYTSREKRLAYNVISSLVTNLQQKSIQFRSMQSSYLNKIKT 143
+ C ++++ ++ + N +QQKS QFR Q ++
Sbjct: 88 QDLQRCEKILKTKYKNLQSSFLQSKLLRDLNTECMEGQRIQQKSAQFRKYQVLQAKFLRN 147
Query: 144 REERSKMYFDEDTPTDQYMTSNLMDLWQENDNEMIDRQFESSRPGVSKTQQQLLLMEEDN 203
+ D + E + S G +T QQ L E+
Sbjct: 148 KNN---------------------DQHPLEEEE---DEESLSSLGSQQTLQQQGLSNEEL 183
Query: 204 AAQARI---RSQEVDHIVKSIVDLNHLFKDLSHMVVHQGTILDRIDYNVERTEIEVKQGY 260
Q + R +E+ ++ + I +LN +F+DL +V QG ++DRID+N+E T +K
Sbjct: 184 EYQQILITERDEEIKNLARGIYELNEIFRDLGSLVGEQGELVDRIDFNIENTSDNLKNAN 243
Query: 261 QQLAKAERYHRKNRKMACILCLASTTLILLILLIL 295
++L KA + R+ +K L L ++L + LI
Sbjct: 244 KELEKAPAHQRRTKKCRFYLLLILLVVLLFVSLIK 278
>gnl|CDD|203323 pfam05739, SNARE, SNARE domain. Most if not all vesicular membrane
fusion events in eukaryotic cells are believed to be
mediated by a conserved fusion machinery, the SNARE
[soluble N-ethylmaleimide-sensitive factor (NSF)
attachment protein (SNAP) receptors] machinery. The
SNARE domain is thought to act as a protein-protein
interaction module in the assembly of a SNARE protein
complex.
Length = 62
Score = 69.1 bits (170), Expect = 3e-15
Identities = 24/60 (40%), Positives = 37/60 (61%)
Query: 210 RSQEVDHIVKSIVDLNHLFKDLSHMVVHQGTILDRIDYNVERTEIEVKQGYQQLAKAERY 269
R + ++ + SI +L LF D+ V QG +LDRID NV+ T+ V++ ++L KA RY
Sbjct: 1 RDEALEELESSIGELKQLFLDMGEEVEEQGELLDRIDDNVDNTQSRVERANKRLKKAARY 60
>gnl|CDD|238115 cd00193, t_SNARE, Soluble NSF (N-ethylmaleimide-sensitive fusion
protein)-Attachment protein (SNAP) REceptor domain;
these alpha-helical motifs form twisted and parallel
heterotetrameric helix bundles; the core complex
contains one helix from a protein that is anchored in
the vesicle membrane (synaptobrevin), one helix from a
protein of the target membrane (syntaxin), and two
helices from another protein anchored in the target
membrane (SNAP-25); their interaction forms a core which
is composed of a polar zero layer, a flanking
leucine-zipper layer acts as a water tight shield to
isolate ionic interactions in the zero layer from the
surrounding solvent.
Length = 60
Score = 59.8 bits (146), Expect = 6e-12
Identities = 22/57 (38%), Positives = 36/57 (63%)
Query: 210 RSQEVDHIVKSIVDLNHLFKDLSHMVVHQGTILDRIDYNVERTEIEVKQGYQQLAKA 266
R +E++ + SI +L +F DL V QG +LDRI+ NV+ ++ VK+ ++L KA
Sbjct: 4 RDEELEQLEASIGELKQIFLDLGTEVEEQGELLDRIEDNVDNADVNVKRANKRLKKA 60
>gnl|CDD|197699 smart00397, t_SNARE, Helical region found in SNAREs. All
alpha-helical motifs that form twisted and parallel
four-helix bundles in target soluble
N-ethylmaleimide-sensitive factor (NSF) attachment
protein (SNAP) receptor proteins. This motif found in
"Q-SNAREs".
Length = 66
Score = 57.2 bits (139), Expect = 6e-11
Identities = 25/74 (33%), Positives = 41/74 (55%), Gaps = 8/74 (10%)
Query: 193 QQQLLLMEEDNAAQARIRSQEVDHIVKSIVDLNHLFKDLSHMVVHQGTILDRIDYNVERT 252
QQ L EE R +E++ + KSI +L +F D+ + QG LDRI+ NV+
Sbjct: 1 QQALAREEE--------RDEELEQLEKSIQELKQIFLDMGTELEEQGEQLDRIEDNVDDA 52
Query: 253 EIEVKQGYQQLAKA 266
++ +K+ ++L KA
Sbjct: 53 DVNLKKANKRLKKA 66
>gnl|CDD|201451 pfam00804, Syntaxin, Syntaxin. Syntaxins are the prototype family
of SNARE proteins. They usually consist of three main
regions - a C-terminal transmembrane region, a central
SNARE domain which is characteristic of and conserved in
all syntaxins (pfam05739), and an N-terminal domain that
is featured in this entry. This domain varies between
syntaxin isoforms; in syntaxin 1A it is found as three
alpha-helices with a left-handed twist. It may fold back
on the SNARE domain to allow the molecule to adopt a
'closed' configuration that prevents formation of the
core fusion complex - it thus has an auto-inhibitory
role. The function of syntaxins is determined by their
localisation. They are involved in neuronal exocytosis,
ER-Golgi transport and Golgi-endosome transport, for
example. They also interact with other proteins as well
as those involved in SNARE complexes. These include
vesicle coat proteins, Rab GTPases, and tethering
factors.
Length = 103
Score = 49.7 bits (119), Expect = 7e-08
Identities = 23/101 (22%), Positives = 49/101 (48%), Gaps = 6/101 (5%)
Query: 29 PIWTDALEETQYALPRLENKLKELEKLQESHLLRPTLDESTEQETKIELLTQEISRMFNG 88
P + D +EE + + ++ L+EL+KL + L P D+ +E +E LTQEI ++
Sbjct: 3 PEFFDEVEEIREEIQKIRQNLEELQKLHKRILTAPDSDKELREE--LEELTQEIKQLARA 60
Query: 89 CHQLIQKIKHQ----SSDAYTSREKRLAYNVISSLVTNLQQ 125
+ ++ ++ ++S R+ N +++L +
Sbjct: 61 IKKKLKSLQQLNKSEQGLGHSSAVDRIRKNQLANLSKKFKD 101
>gnl|CDD|227406 COG5074, COG5074, t-SNARE complex subunit, syntaxin [Intracellular
trafficking and secretion].
Length = 280
Score = 51.8 bits (124), Expect = 2e-07
Identities = 47/226 (20%), Positives = 96/226 (42%), Gaps = 34/226 (15%)
Query: 92 LIQKIKHQSSDAYTSREKRLAYNVISSLVTNLQQKSIQFRSMQSSYLNKIKTREERSKMY 151
+K++ S D ++S+ L N+ +K I+ +L + + E +
Sbjct: 59 QSRKLRR-SLDNFSSQTTDLQRNL---------KKDIKSAERDGIHLANKQAQAENVRQK 108
Query: 152 FDEDTPTDQYMTSNLMDLWQENDNEMIDRQFESSRPGVSKTQQQLLLMEEDNA------- 204
F + + + SN ++E + E RQ+ ++P ++ + + + + +
Sbjct: 109 FLKLIQDYRIIDSN----YREEEKEQARRQYIIAQPEATEDEVEAAINDVNGQQVFSQAL 164
Query: 205 -------------AQARIRSQEVDHIVKSIVDLNHLFKDLSHMVVHQGTILDRIDYNVER 251
A+ + R QE+ I K++ +L LF D+ +V+ Q +D ID NVE
Sbjct: 165 LNANRRGEAKTALAEVQARHQEIKKIEKTMAELTQLFNDMEELVIEQQENVDVIDKNVED 224
Query: 252 TEIEVKQGYQQLAKAERYHRKNRKMACILCLASTTLILLILLILDK 297
+ V+QG KA + R RK +I++I++++ K
Sbjct: 225 AQENVEQGVGHTDKAVKSARAARKKKIRCYGICFIIIIVIVVVVFK 270
>gnl|CDD|153335 cd07651, F-BAR_PombeCdc15_like, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of Schizosaccharomyces pombe
Cdc15, and similar proteins. F-BAR domains are
dimerization modules that bind and bend membranes and
are found in proteins involved in membrane dynamics and
actin reorganization. This subfamily is composed of
Schizosaccharomyces pombe Cdc15 and Imp2, and similar
proteins. These proteins contain an N-terminal F-BAR
domain and a C-terminal SH3 domain. S. pombe Cdc15 and
Imp2 play both distinct and overlapping roles in the
maintenance and strengthening of the contractile ring at
the division site, which is required in cell division.
Cdc15 is a component of the actomyosin ring and is
required in normal cytokinesis. Imp2 colocalizes with
the medial ring during septation and is required for
normal septation. F-BAR domains form banana-shaped
dimers with a positively-charged concave surface that
binds to negatively-charged lipid membranes. They can
induce membrane deformation in the form of long tubules.
Length = 236
Score = 32.7 bits (75), Expect = 0.21
Identities = 20/104 (19%), Positives = 39/104 (37%), Gaps = 19/104 (18%)
Query: 50 KELEKLQESHLLRPTLDESTEQETKIELLTQEISRMFNGCHQLIQKIKHQSSDA------ 103
K LEKL L E + ++ L E M + ++I+ +
Sbjct: 40 KRLEKLSRKSLGG---SEEGGLKNSLDTLRLETESMAKSHLKFAKQIRQDLEEKLAAFAS 96
Query: 104 -YTSREKRLAYNVISSLVTNLQQKSIQFRSMQSSYLNKIKTREE 146
YT + K++ ++ +K ++ + Q YL K + + E
Sbjct: 97 SYTQKRKKIQSHM---------EKLLKKKQDQEKYLEKAREKYE 131
>gnl|CDD|238105 cd00179, SynN, Syntaxin N-terminus domain; syntaxins are nervous
system-specific proteins implicated in the docking of
synaptic vesicles with the presynaptic plasma membrane;
they are a family of receptors for intracellular
transport vesicles; each target membrane may be
identified by a specific member of the syntaxin family;
syntaxins contain a moderately well conserved
amino-terminal domain, called Habc, whose structure is
an antiparallel three-helix bundle; a linker of about 30
amino acids connects this to the carboxy-terminal
region, designated H3 (t_SNARE), of the syntaxin
cytoplasmic domain; the highly conserved H3 region forms
a single, long alpha-helix when it is part of the core
SNARE complex and anchors the protein on the cytoplasmic
surface of cellular membranes; H3 is not included in
defining this domain.
Length = 151
Score = 31.9 bits (73), Expect = 0.25
Identities = 32/157 (20%), Positives = 59/157 (37%), Gaps = 22/157 (14%)
Query: 36 EETQYALPRLENKLKELEKLQESHLLRPTLDESTEQETKIELLTQEISRMFNGCHQLIQK 95
EE + + ++ ++EL+KL L P D +Q ++E L QEI ++ +++
Sbjct: 9 EEIRGNIDKISEDVEELQKLHSQLLTAPDADPELKQ--ELESLVQEIKKLAKEIKGKLKE 66
Query: 96 IK---HQSSDAYTSREKRLAYNVISSLVTNLQQKSIQFRSMQSSYLNKIKTREERSKMYF 152
++ Q+ S R+ S L + +F Q Y + K R +R
Sbjct: 67 LEESNEQNEALNGSSVDRIRKTQHSGLSKKFVEVMTEFNKAQRKYRERYKERIQR----- 121
Query: 153 DEDTPTDQYMTSNLMDLWQENDNEMIDRQFESSRPGV 189
Q + + D E+ D ES +
Sbjct: 122 -------QLEITGG----EATDEELED-MLESGNSEI 146
>gnl|CDD|224491 COG1575, MenA, 1,4-dihydroxy-2-naphthoate octaprenyltransferase
[Coenzyme metabolism].
Length = 303
Score = 32.2 bits (74), Expect = 0.35
Identities = 20/100 (20%), Positives = 31/100 (31%), Gaps = 21/100 (21%)
Query: 269 YHRKNRKMACILCLASTTLILLILLILDKESLFTYRPIYLQAYLPTGLFTYRPIYLQAYL 328
+ L L + L+ +IL S + + L L+T P L Y+
Sbjct: 89 RQSMKPALILSLALFLLAGLALLGVILAALSDWLVLLLGLLCIAAGILYTGGPFPL-GYM 147
Query: 329 PTG----LFTYRPI------YLQAY----------LPTGI 348
G + P+ Y+Q LP GI
Sbjct: 148 GLGEIFVGVFFGPLIVLGAYYIQTGRLSWAILLPSLPVGI 187
>gnl|CDD|220671 pfam10275, Peptidase_C65, Peptidase C65 Otubain. This family of
proteins conserved from plants to humans is a highly
specific ubiquitin iso-peptidase that removes ubiquitin
from proteins. The modification of cellular proteins by
ubiquitin (Ub) is an important event that underlies
protein stability and function in eukaryote being a
dynamic and reversible process. Otubain carries several
key conserved domains: (i) the OTU (ovarian tumour
domain) in which there is an active cysteine protease
triad (ii) a nuclear localisation signal, (iii) a Ub
interaction motif (UIM)-like motif phi-xx-A-xxxs-xx-Ac
(where phi indicates an aromatic amino acid, x indicates
any amino acid and Ac indicates an acidic amino acid),
(iv) a Ub-associated (UBA)-like domain and (v) the LxxLL
motif.
Length = 237
Score = 30.7 bits (70), Expect = 0.86
Identities = 20/113 (17%), Positives = 43/113 (38%), Gaps = 14/113 (12%)
Query: 71 QETKIELLTQEISR-MFNGCH----QLIQKIKHQSSDAYTSREKRLAYNVISSLVTNLQQ 125
+ K +L+ F +L++K++ S + K S +
Sbjct: 82 ESLKEKLVALGFDEFTFEDFLDEFIELLEKLEDGGSTSREELLKAFNDPEYSDYIV---- 137
Query: 126 KSIQFRSMQSSYLNKIKTREERSKMYFDEDTPTDQYMTSNLMDLWQENDNEMI 178
I FR + S+Y IK + + + DE +++ + + +E+D+ I
Sbjct: 138 --IFFRLLTSAY---IKENADEYQPFIDELLTVEEFCEQEVEPMAKESDHVQI 185
>gnl|CDD|212556 cd11658, SANT_DMAP1_like, SANT/myb-like domain of Human Dna
Methyltransferase 1 Associated Protein 1-like. These
proteins are members of the SANT/myb group. SANT is
named after 'SWI3, ADA2, N-CoR and TFIIIB', several
factors that share this domain. The SANT domain
resembles the 3 alpha-helix bundle of the DNA-binding
Myb domains and is found in a diverse set of proteins.
Length = 46
Score = 27.8 bits (62), Expect = 1.2
Identities = 10/41 (24%), Positives = 20/41 (48%)
Query: 223 DLNHLFKDLSHMVVHQGTILDRIDYNVERTEIEVKQGYQQL 263
+ ++LF + + ILDR + R+ ++K+ Y L
Sbjct: 5 ETDYLFDLVKRFDLRWNVILDRYPFQKGRSVEDLKEKYYHL 45
>gnl|CDD|227606 COG5281, COG5281, Phage-related minor tail protein [Function
unknown].
Length = 833
Score = 30.8 bits (69), Expect = 1.2
Identities = 24/177 (13%), Positives = 45/177 (25%), Gaps = 14/177 (7%)
Query: 39 QYALPRLENKLKELEKLQESHLLRPTLDEST------EQETKIELLTQEISRMFNGCHQL 92
A ++ K + QE L R QE L ++
Sbjct: 446 ALAKAKILQADKAAKAYQEDILQREAQSRGKTAAAERSQEQMTAALKALLA-------FQ 498
Query: 93 IQKIKHQSSDAYTSREKRLAYNVISSLVTNLQQKSIQFRSMQSSYLNKIKTREE-RSKMY 151
Q + S +K L + ++ + Q + L K E S++
Sbjct: 499 QQIADLSGAKEKASDQKSLLWKAEEQYALLKEEAKQRQLQEQKALLEHKKETLEYTSQLA 558
Query: 152 FDEDTPTDQYMTSNLMDLWQENDNEMIDRQFESSRPGVSKTQQQLLLMEEDNAAQAR 208
D D++ S Q+ + R+ + L +
Sbjct: 559 ELLDQQADRFELSAQAAGSQKERGSDLYREALAQNAAALNKALNELAAYWSALDLLQ 615
>gnl|CDD|148846 pfam07471, Phage_Nu1, Phage DNA packaging protein Nu1.
Terminase, the DNA packaging enzyme of bacteriophage
lambda, is a heteromultimer composed of subunits Nu1
and A. The smaller Nu1 terminase subunit has a
low-affinity ATPase stimulated by non-specific DNA.
Length = 164
Score = 29.5 bits (66), Expect = 1.6
Identities = 21/78 (26%), Positives = 35/78 (44%), Gaps = 2/78 (2%)
Query: 5 EAGVEMKHRGGIGNTVSYFDSRAAPIWTDALEETQYALPRLENKLKELEKLQESHLLRPT 64
G+ + GG G V FD+ A W A + + +L +++EL ES L T
Sbjct: 24 SQGLPVVKGGGKGREV-VFDTAAVIRWY-AERDAEIENEKLRKEVEELRAASESDLQPGT 81
Query: 65 LDESTEQETKIELLTQEI 82
+D + T+ + QE+
Sbjct: 82 IDYERHRLTRAQADAQEL 99
>gnl|CDD|150302 pfam09590, Env-gp36, Lentivirus surface glycoprotein. This protein
is found in feline immunodeficiency retrovirus. It
represents the surface glycoprotein which is found in
the polyprotein C-terminal to the Env protein.
Length = 591
Score = 30.3 bits (68), Expect = 2.0
Identities = 22/99 (22%), Positives = 46/99 (46%), Gaps = 10/99 (10%)
Query: 199 MEEDNAAQ-ARIRS-QEVDHIVKSIVDLNHLFKDLSHMVVHQGTILDRIDYNVERTEIEV 256
+ E NA + R+R + D V S + +L SH + ++ L ++ ++++ IE
Sbjct: 71 LHEINAGKYRRLRYLRYSDEQVLSSL---YLLVGYSHYLGNRNK-LGKLRHDID---IER 123
Query: 257 KQGYQQLAKAERYHRKNRKMACILCLASTTLILLILLIL 295
+ + K E+ N K +LC+ + L L + + +
Sbjct: 124 QAEEK-FEKREKGRTYNNKYCRLLCIGAGFLYLCLFIGI 161
>gnl|CDD|215077 PLN00148, PLN00148, potassium transporter; Provisional.
Length = 785
Score = 30.2 bits (68), Expect = 2.0
Identities = 18/75 (24%), Positives = 37/75 (49%), Gaps = 3/75 (4%)
Query: 100 SSDAYTSREKRLAYNVISSLVTNLQQ-KSIQFRSMQSSY--LNKIKTREERSKMYFDEDT 156
+ D +S ++ ++ + ++Q KS+ +S+QS+Y N ++R R + E+
Sbjct: 648 TRDVQSSSLLMVSEQELADIDDSIQSSKSLTLQSLQSAYEDENPGQSRRRRVRFQLPENP 707
Query: 157 PTDQYMTSNLMDLWQ 171
D + LMDL +
Sbjct: 708 GMDPSVREELMDLIE 722
>gnl|CDD|212057 cd11488, SLC5sbd_SGLT4, Na(+)/glucose cotransporter SGLT4 and
related proteins; solute-binding domain. Human SGLT4
(hSGLT4) has been reported to be a low-affinity glucose
transporter with unusual sugar selectivity: it
transports D-mannose but not galactose or
3-O-methyl-D-glucoside. It is encoded by the SLC5A9 gene
and is expressed in intestine, kidney, liver, brain,
lung, trachea, uterus, and pancreas. hSLGT4 is predicted
to contain 14 membrane-spanning regions. This subgroup
belongs to the solute carrier 5 (SLC5 )transporter
family.
Length = 605
Score = 29.9 bits (67), Expect = 2.4
Identities = 12/40 (30%), Positives = 24/40 (60%)
Query: 188 GVSKTQQQLLLMEEDNAAQARIRSQEVDHIVKSIVDLNHL 227
G+S+T +Q L EE A + ++ S E + +++ ++N L
Sbjct: 552 GLSQTPEQDLSEEEKAALERKLTSIEEKPLWRTVCNINAL 591
>gnl|CDD|214699 smart00503, SynN, Syntaxin N-terminal domain. Three-helix domain
that (in Sso1p) slows the rate of its reaction with the
SNAP-25 homologue Sec9p.
Length = 117
Score = 28.5 bits (64), Expect = 2.5
Identities = 23/109 (21%), Positives = 47/109 (43%), Gaps = 4/109 (3%)
Query: 36 EETQYALPRLENKLKELEKLQESHLLRPTLDESTEQETKIELLTQEISRMFNGCHQLIQK 95
EE + + ++ + EL+KL E L P D+ + K+E L +I R+ +++
Sbjct: 11 EEIRANIQKISQNVAELQKLHEELLTPPDADKELRE--KLERLIDDIKRLAKEIRAKLKE 68
Query: 96 IKHQSS--DAYTSREKRLAYNVISSLVTNLQQKSIQFRSMQSSYLNKIK 142
++ ++ A S R L ++ +F+ +Q Y + K
Sbjct: 69 LEKENLENRASGSASDRTRKAQTEKLRKKFKEVMNEFQRLQRKYREREK 117
>gnl|CDD|226750 COG4300, CadD, Predicted permease, cadmium resistance protein
[Inorganic ion transport and metabolism].
Length = 205
Score = 29.3 bits (66), Expect = 2.6
Identities = 18/61 (29%), Positives = 26/61 (42%), Gaps = 7/61 (11%)
Query: 287 LILLILLILDKESLFTYRPIYLQAYLPTG-------LFTYRPIYLQAYLPTGLFTYRPIY 339
LI+L+L ++S IYL YL + LF + ++ GL PIY
Sbjct: 20 LIILLLFFARRKSRKDILHIYLGQYLGSVILILASLLFAFVLNFVPEEWILGLLGLIPIY 79
Query: 340 L 340
L
Sbjct: 80 L 80
>gnl|CDD|179113 PRK00762, hypA, hydrogenase nickel incorporation protein;
Provisional.
Length = 124
Score = 28.5 bits (64), Expect = 2.6
Identities = 22/74 (29%), Positives = 32/74 (43%), Gaps = 8/74 (10%)
Query: 213 EVDHIVKSIVDLNHLFKD-LSHM--VVHQGTILDRIDYNVER--TEIEVKQGYQQLAKAE 267
EV + I L L + L M V+ +GTI + D VE EIE + GY+ + +
Sbjct: 25 EVTEVTLEIGRLTMLNPEQLRFMLDVLAEGTIAEDADLIVEMIPVEIECECGYEGVVDED 84
Query: 268 RYHRKNRKMACILC 281
+ A I C
Sbjct: 85 ---EIDHYAAVIEC 95
>gnl|CDD|129357 TIGR00255, TIGR00255, TIGR00255 family protein. The apparent
ortholog from Aquifex aeolicus as reported is split into
two consecutive reading frames [Hypothetical proteins,
Conserved].
Length = 291
Score = 28.3 bits (63), Expect = 6.0
Identities = 25/86 (29%), Positives = 37/86 (43%), Gaps = 6/86 (6%)
Query: 193 QQQLLLMEED----NAAQARIRSQEVDHIVKSIVDLNHLFKDLSHMVVHQGTILDRIDYN 248
Q+L L+E + +A I + + + I DL F DL+ + + RID
Sbjct: 160 VQRLDLIEREVKKVRSAMPDILQWQRERLKARIEDLAQEFLDLNRLEQEAALLAQRIDIA 219
Query: 249 VE--RTEIEVKQGYQQLAKAERYHRK 272
E R + VK+ Y L K E RK
Sbjct: 220 EEIDRLDSHVKEFYNILKKGEAVGRK 245
>gnl|CDD|234269 TIGR03588, PseC, UDP-4-keto-6-deoxy-N-acetylglucosamine
4-aminotransferase. This family of enzymes are
aminotransferases of the pfam01041 family involved in
the biosynthesis of pseudaminic acid. They convert
UDP-4-keto-6-deoxy-N-acetylglucosamine into
UDP-4-amino-4,6-dideoxy-N-acetylgalactose. Pseudaminic
acid has a role in surface polysaccharide in Pseudomonas
as well as in the modification of flagellin in
Campylobacter and Helicobacter species.
Length = 380
Score = 28.4 bits (64), Expect = 6.2
Identities = 25/102 (24%), Positives = 40/102 (39%), Gaps = 9/102 (8%)
Query: 247 YNVERTEIEVKQGYQQLAKAERYHRKNRKMACILC--LASTTLILLILLILDKESLFTYR 304
+N T+I+ G QL K +R+ K R++A L + + L +S +
Sbjct: 238 FNYRMTDIQAALGLSQLKKLDRFVAKRREIAARYDRLLKDLPYFTPLTIPLGSKSAWHLY 297
Query: 305 PIYLQAYLPTGLFTYRPIYLQAYLPTGLFT---YRPIYLQAY 343
PI L R +A G+ Y P++LQ Y
Sbjct: 298 PI----LLDQEFGCTRKEVFEALRAAGIGVQVHYIPVHLQPY 335
>gnl|CDD|183240 PRK11624, cdsA, CDP-diglyceride synthase; Provisional.
Length = 285
Score = 28.1 bits (63), Expect = 7.5
Identities = 10/18 (55%), Positives = 12/18 (66%)
Query: 229 KDLSHMVVHQGTILDRID 246
KD H++ G ILDRID
Sbjct: 248 KDSGHLIPGHGGILDRID 265
>gnl|CDD|145995 pfam03148, Tektin, Tektin family. Tektins are cytoskeletal
proteins. They have been demonstrated in such cellular
sites as centrioles, basal bodies, and along ciliary and
flagellar doublet microtubules. Tektins form unique
protofilaments, organised as longitudinal polymers of
tektin heterodimers with axial periodicity matching
tubulin. Tektin polypeptides consist of several
alpha-helical regions that are predicted to form coiled
coils. Indeed, tektins share considerable structural
similarities with intermediate filament proteins.
Possible functional roles for tektins are: stabilisation
of tubulin protofilaments; attachment of A and B-tubules
in ciliary/flagellar microtubule doublets and C-tubules
in centrioles; binding of axonemal components.
Length = 384
Score = 27.9 bits (63), Expect = 7.7
Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 12/48 (25%)
Query: 35 LEETQYALPRLENKLKELEKLQESHLLRPTLDESTEQETKIELLTQEI 82
+ ET+ A +LE +LK+ TL+E +QE IE L + I
Sbjct: 253 ISETEEAKNKLEWQLKK------------TLEEIAQQEKNIEALEKAI 288
>gnl|CDD|213355 cd12821, EcCorA_ZntB-like, Escherichia coli CorA-Salmonella
typhimurium ZntB_like family. A family of the MIT
superfamily of essential membrane proteins involved in
transporting divalent cations (uptake or efflux) across
membranes. Members of this family are found in all three
kingdoms of life. It is a functionally diverse family,
including the Mg2+ transporters Escherichia coli and
Salmonella typhimurium CorAs (which can also transport
Co2+, and Ni2+ ), and the Zn2+ transporter Salmonella
typhimurium ZntB which mediates the efflux of Zn2+ (and
Cd2+). It also includes two Saccharomyces cerevisiae
members: the inner membrane Mg2+ transporters
Mfm1p/Lpe10p, and Mrs2p, and a family of Arabidopsis
thaliana members (AtMGTs) some of which are localized to
distinct tissues, and not all of which can transport
Mg2+. Structures of the intracellular domain of Vibrio
parahaemolyticus and Salmonella typhimurium ZntB form
funnel-shaped homopentamers, the tip of the funnel is
formed from two C-terminal transmembrane (TM) helices
from each monomer, and the large opening of the funnel
from the N-terminal cytoplasmic domains. The GMN
signature motif of the MIT superfamily occurs just after
TM1, mutation within this motif is known to abolish Mg2+
transport through Salmonella typhimurium CorA, and
Mrs2p. Natural variants such as GVN and GIN, such as
occur in some ZntB family proteins, may be associated
with the transport of different divalent cations, such
as zinc and cadmium. The functional diversity of MIT
transporters may also be due to minor structural
differences regulating gating, substrate selection, and
transport.
Length = 285
Score = 27.7 bits (62), Expect = 8.7
Identities = 19/72 (26%), Positives = 26/72 (36%), Gaps = 7/72 (9%)
Query: 30 IWTDALEETQYALPRLENKLKELEKLQESHLLRPTLDESTEQETKIELLTQEISRMFNGC 89
T+ +E Q L L+ EL ++ LR TLD IE QE+
Sbjct: 155 RLTNLIEPQQEVLMALQEAFAELLFSEDEEELRRTLDRIERLLQLIEEYEQELD------ 208
Query: 90 HQLIQKIKHQSS 101
L + SS
Sbjct: 209 -TLQDIEEVVSS 219
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 0.133 0.372
Gapped
Lambda K H
0.267 0.0722 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 17,541,572
Number of extensions: 1673094
Number of successful extensions: 1884
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1868
Number of HSP's successfully gapped: 80
Length of query: 350
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 252
Effective length of database: 6,590,910
Effective search space: 1660909320
Effective search space used: 1660909320
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)