RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2762
(318 letters)
>gnl|CDD|238121 cd00200, WD40, WD40 domain, found in a number of eukaryotic
proteins that cover a wide variety of functions
including adaptor/regulatory modules in signal
transduction, pre-mRNA processing and cytoskeleton
assembly; typically contains a GH dipeptide 11-24
residues from its N-terminus and the WD dipeptide at its
C-terminus and is 40 residues long, hence the name WD40;
between GH and WD lies a conserved core; serves as a
stable propeller-like platform to which proteins can
bind either stably or reversibly; forms a propeller-like
structure with several blades where each blade is
composed of a four-stranded anti-parallel b-sheet;
instances with few detectable copies are hypothesized to
form larger structures by dimerization; each WD40
sequence repeat forms the first three strands of one
blade and the last strand in the next blade; the last
C-terminal WD40 repeat completes the blade structure of
the first WD40 repeat to create the closed ring
propeller-structure; residues on the top and bottom
surface of the propeller are proposed to coordinate
interactions with other proteins and/or small ligands; 7
copies of the repeat are present in this alignment.
Length = 289
Score = 113 bits (285), Expect = 1e-29
Identities = 72/276 (26%), Positives = 119/276 (43%), Gaps = 53/276 (19%)
Query: 25 GLYLATCSSDHTVKVFNLDRNLKKDDSHSQKGTLIAELKGHSGPVWQVAWAHPQFGTLLA 84
G YLA+ SSD T+++++L + G + L GH+ V VA+ P G +L+
Sbjct: 63 GTYLASGSSDKTIRLWDL-----------ETGECVRTLTGHTSYVSSVAF-SPD-GRILS 109
Query: 85 SCSYDRKVIIWRGDNGNWFKYYEYNNHDSSVNSIAWAPKEFGLILACGSSDGTISFLTYM 144
S S D+ + +W + G H VNS+A++P G +A S DGTI +
Sbjct: 110 SSSRDKTIKVWDVETGK--CLTTLRGHTDWVNSVAFSP--DGTFVASSSQDGTI----KL 161
Query: 145 SDTNSWESRK-IAAHTIGCNAVSWGPGIGSLSELDLKGSKLGGVAKRLVSGGCDNLIKIW 203
D + + + HT N+V++ P ++L+S D IK+W
Sbjct: 162 WDLRTGKCVATLTGHTGEVNSVAFSPD-----------------GEKLLSSSSDGTIKLW 204
Query: 204 KQEGDKWIEETKLENHSDWVRDVAWAPSWGLSKCMIASCSQDRKVIIWTSNDYVTWTPFI 263
K + L H + V VA++P L +AS S+D + +W D T
Sbjct: 205 DLSTGKCLGT--LRGHENGVNSVAFSPDGYL----LASGSEDGTIRVW---DLRTGEC-- 253
Query: 264 MNTF---DDVVWNVSWSLTGDILTVSCGDNSVSLWK 296
+ T + V +++WS G L D ++ +W
Sbjct: 254 VQTLSGHTNSVTSLAWSPDGKRLASGSADGTIRIWD 289
Score = 109 bits (275), Expect = 5e-28
Identities = 77/307 (25%), Positives = 120/307 (39%), Gaps = 61/307 (19%)
Query: 10 TGHEDMIHDAEMDYLGLYLATCSSDHTVKVFNLDRNLKKDDSHSQKGTLIAELKGHSGPV 69
GH + G LAT S D T+KV++L+ G L+ LKGH+GPV
Sbjct: 6 KGHTGGVTCVAFSPDGKLLATGSGDGTIKVWDLET-----------GELLRTLKGHTGPV 54
Query: 70 WQVAWAHPQFGTLLASCSYDRKVIIWRGDNGNWFKYYEYNNHDSSVNSIAWAPKEFGLIL 129
VA + GT LAS S D+ + +W + G H S V+S+A++P G IL
Sbjct: 55 RDVAASA--DGTYLASGSSDKTIRLWDLETGE--CVRTLTGHTSYVSSVAFSPD--GRIL 108
Query: 130 ACGSSDGTISFLTYMSDTNSWESRK------IAAHTIGCNAVSWGPGIGSLSELDLKGSK 183
+ S D TI W+ + HT N+V++ P
Sbjct: 109 SSSSRDKTIKV---------WDVETGKCLTTLRGHTDWVNSVAFSPD------------- 146
Query: 184 LGGVAKRLVSGGC-DNLIKIWKQEGDKWIEETKLENHSDWVRDVAWAPSWGLSKCMIASC 242
V+ D IK+W + L H+ V VA++P + S
Sbjct: 147 -----GTFVASSSQDGTIKLW--DLRTGKCVATLTGHTGEVNSVAFSP----DGEKLLSS 195
Query: 243 SQDRKVIIWTSNDYVTWTPF-IMNTFDDVVWNVSWSLTGDILTVSCGDNSVSLWKENTDG 301
S D + +W D T + ++ V +V++S G +L D ++ +W T
Sbjct: 196 SSDGTIKLW---DLSTGKCLGTLRGHENGVNSVAFSPDGYLLASGSEDGTIRVWDLRTGE 252
Query: 302 AWQCITE 308
Q ++
Sbjct: 253 CVQTLSG 259
Score = 93.6 bits (233), Expect = 4e-22
Identities = 71/241 (29%), Positives = 102/241 (42%), Gaps = 40/241 (16%)
Query: 58 LIAELKGHSGPVWQVAWAHPQFGTLLASCSYDRKVIIWRGDNGNWFKYYEYNNHDSSVNS 117
L LKGH+G V VA+ P G LLA+ S D + +W + G + + H V
Sbjct: 1 LRRTLKGHTGGVTCVAF-SPD-GKLLATGSGDGTIKVWDLETGELLRTLK--GHTGPVRD 56
Query: 118 IAWAPKEFGLILACGSSDGTISFLTYMSDTNSWESRKIAAHTIGCNAVSWGPGIGSLSEL 177
+A + G LA GSSD TI + R + HT ++V++
Sbjct: 57 VAASA--DGTYLASGSSDKTIRLWDLETGE---CVRTLTGHTSYVSSVAF---------- 101
Query: 178 DLKGSKLGGVAKRLVSGGCDNLIKIWKQEGDKWIEETKLENHSDWVRDVAWAPSWGLSKC 237
S G + L S D IK+W E K T L H+DWV VA++P
Sbjct: 102 ----SPDGRI---LSSSSRDKTIKVWDVETGK--CLTTLRGHTDWVNSVAFSP----DGT 148
Query: 238 MIASCSQDRKVIIWTSNDYVTWTPFIMNTF---DDVVWNVSWSLTGDILTVSCGDNSVSL 294
+AS SQD + +W D T + T V +V++S G+ L S D ++ L
Sbjct: 149 FVASSSQDGTIKLW---DLRTGKC--VATLTGHTGEVNSVAFSPDGEKLLSSSSDGTIKL 203
Query: 295 W 295
W
Sbjct: 204 W 204
Score = 86.2 bits (214), Expect = 2e-19
Identities = 57/196 (29%), Positives = 86/196 (43%), Gaps = 39/196 (19%)
Query: 10 TGHEDMIHDAEMDYLGLYLATCSSDHTVKVFNLDRNLKKDDSHSQKGTLIAELKGHSGPV 69
GH D ++ G ++A+ S D T+K+++L G +A L GH+G V
Sbjct: 132 RGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLR-----------TGKCVATLTGHTGEV 180
Query: 70 WQVAWAHPQFGTLLASCSYDRKVIIWRGDNGNWFKYYEYNNHDSSVNSIAWAPKEFGLIL 129
VA+ P G L S S D + +W G H++ VNS+A++P G +L
Sbjct: 181 NSVAF-SPD-GEKLLSSSSDGTIKLWDLSTGKCLGTLRG--HENGVNSVAFSPD--GYLL 234
Query: 130 ACGSSDGTISFLTYMSDTNSWE-SRKIAAHTIGCNAVSWGPGIGSLSELDLKGSKLGGVA 188
A GS DGTI + D + E + ++ HT +++W P
Sbjct: 235 ASGSEDGTI----RVWDLRTGECVQTLSGHTNSVTSLAWSPD-----------------G 273
Query: 189 KRLVSGGCDNLIKIWK 204
KRL SG D I+IW
Sbjct: 274 KRLASGSADGTIRIWD 289
>gnl|CDD|225201 COG2319, COG2319, FOG: WD40 repeat [General function prediction
only].
Length = 466
Score = 90.9 bits (224), Expect = 2e-20
Identities = 74/292 (25%), Positives = 123/292 (42%), Gaps = 42/292 (14%)
Query: 10 TGHEDMIHDAEMDYLGLYLATCSS-DHTVKVFNLDRNLKKDDSHSQKGTLIAELKGHSGP 68
GH + + G LA+ SS D T+K+++L G ++ L GH+ P
Sbjct: 152 EGHSESVTSLAFSPDGKLLASGSSLDGTIKLWDLR-----------TGKPLSTLAGHTDP 200
Query: 69 VWQVAWAHPQFGTLLASCSYDRKVIIWRGDNGNWFKYYEYNNHDSSVNSIAWAPKEFGLI 128
V +A+ P G L+AS S D + +W G + + DS V+S + G +
Sbjct: 201 VSSLAF-SPDGGLLIASGSSDGTIRLWDLSTGKLLRSTLSGHSDSVVSSFSP----DGSL 255
Query: 129 LACGSSDGTISFLTYMSDTNSWESRKIAAHTIGCNAVSWGPGIGSLSELDLKGSKLGGVA 188
LA GSSDGTI ++S R ++ H+ +V++ P
Sbjct: 256 LASGSSDGTIRLWDL--RSSSSLLRTLSGHSSSVLSVAFSP-----------------DG 296
Query: 189 KRLVSGGCDNLIKIWKQEGDKWIEETKLENHSDWVRDVAWAPSWGLSKCMIASCSQDRKV 248
K L SG D +++W E K + L+ H V ++++P +++ S D +
Sbjct: 297 KLLASGSSDGTVRLWDLETGKLLSSLTLKGHEGPVSSLSFSPD---GSLLVSGGSDDGTI 353
Query: 249 IIWTSNDYVTWTPFIMNTFDDVVWNVSWSLTGDILTVSCGDNSVSLWKENTD 300
+W D T P V +VS+S G +++ D +V LW +T
Sbjct: 354 RLW---DLRTGKPLKTLEGHSNVLSVSFSPDGRVVSSGSTDGTVRLWDLSTG 402
Score = 87.8 bits (216), Expect = 3e-19
Identities = 75/330 (22%), Positives = 124/330 (37%), Gaps = 49/330 (14%)
Query: 6 NLVDTGHEDMIHDAEMDYLGLYLATCSSDHTVKVFNLDRNLKKDDSHSQKGTLIAELKGH 65
+L+ GHED I G L + SSD T+K+++LD + + + + H
Sbjct: 58 SLLLRGHEDSITSIAFSPDGELLLSGSSDGTIKLWDLD---------NGEKLIKSLEGLH 108
Query: 66 SGPVWQVAWAHPQFGTLLASCSY-DRKVIIWRGDNGNWFKYYEYNNHDSSVNSIAWAPKE 124
V ++A + P ++L + S D V +W H SV S+A++P
Sbjct: 109 DSSVSKLALSSPDGNSILLASSSLDGTVKLWDLSTPGK-LIRTLEGHSESVTSLAFSPDG 167
Query: 125 FGLILACGSSDGTISFLTYMSDTNSWES-RKIAAHTIGCNAVSWGP-------------- 169
L+ + S DGTI D + + +A HT +++++ P
Sbjct: 168 -KLLASGSSLDGTIKLW----DLRTGKPLSTLAGHTDPVSSLAFSPDGGLLIASGSSDGT 222
Query: 170 ------GIGSLSELDLKGSKLGGVA------KRLVSGGCDNLIKIWKQEGDKWIEETKLE 217
G L L G V+ L SG D I++W L
Sbjct: 223 IRLWDLSTGKLLRSTLSGHSDSVVSSFSPDGSLLASGSSDGTIRLWDLRSSS-SLLRTLS 281
Query: 218 NHSDWVRDVAWAPSWGLSKCMIASCSQDRKVIIWTSNDYVTWTPFIMNTFDDVVWNVSWS 277
HS V VA++P L +AS S D V +W + + + V ++S+S
Sbjct: 282 GHSSSVLSVAFSPDGKL----LASGSSDGTVRLWDLETGKLLSSLTLKGHEGPVSSLSFS 337
Query: 278 LTGDILTVSCG-DNSVSLWKENTDGAWQCI 306
G +L D ++ LW T + +
Sbjct: 338 PDGSLLVSGGSDDGTIRLWDLRTGKPLKTL 367
Score = 66.3 bits (160), Expect = 4e-12
Identities = 69/294 (23%), Positives = 116/294 (39%), Gaps = 42/294 (14%)
Query: 19 AEMDYLGLYLATCSSDHTVKVFNLDRNLKKDDSHSQKGTLIAELKGHSGPVWQVAWAHPQ 78
A GL +A+ SSD T+++++L S L + L GHS V+ P
Sbjct: 205 AFSPDGGLLIASGSSDGTIRLWDL----------STGKLLRSTLSGHSD--SVVSSFSPD 252
Query: 79 FGTLLASCSYDRKVIIWRGDNGNWFKYYEYNNHDSSVNSIAWAPKEFGLILACGSSDGTI 138
G+LLAS S D + +W + + + H SSV S+A++P +LA GSSDGT+
Sbjct: 253 -GSLLASGSSDGTIRLWDLRSSSS-LLRTLSGHSSSVLSVAFSPDGK--LLASGSSDGTV 308
Query: 139 SFLTYMSDTNSWESRKIAAHTIGCNAVSWGPGIGSLSELDLKGSKLGGVAKRLVSGGCDN 198
+ S + H +++S+ P L + G D
Sbjct: 309 RLWD-LETGKLLSSLTLKGHEGPVSSLSFSPDGSLL----------------VSGGSDDG 351
Query: 199 LIKIWKQEGDKWIEETKLENHSDWVRDVAWAPSWGLSKCMIASCSQDRKVIIWTSNDYVT 258
I++W + + K V V+++P +++S S D V +W +
Sbjct: 352 TIRLWD---LRTGKPLKTLEGHSNVLSVSFSPDGR----VVSSGSTDGTVRLW--DLSTG 402
Query: 259 WTPFIMNTFDDVVWNVSWSLTGDILTVSCGDNSVSLWKENTDGAWQCITEMGKT 312
++ V ++ +S G L DN++ LW T + GK
Sbjct: 403 SLLRNLDGHTSRVTSLDFSPDGKSLASGSSDNTIRLWDLKTSLKSVSFSPDGKV 456
Score = 48.5 bits (114), Expect = 3e-06
Identities = 37/137 (27%), Positives = 62/137 (45%), Gaps = 15/137 (10%)
Query: 3 SQLNLVDTGHEDMIHDAEMDYLGLYLATCSSDHTVKVFNLDRNLKKDDSHSQKGTLIAEL 62
S L +GH + G LA+ SSD TV++++L+ L
Sbjct: 274 SSLLRTLSGHSSSVLSVAFSPDGKLLASGSSDGTVRLWDLETGKLLS---------SLTL 324
Query: 63 KGHSGPVWQVAWAHPQFGTLLASCSYDRKVIIWRGDNGNWFKYYEYNNHDSSVNSIAWAP 122
KGH GPV +++ P L++ S D + +W G K E S+V S++++P
Sbjct: 325 KGHEGPVSSLSF-SPDGSLLVSGGSDDGTIRLWDLRTGKPLKTLE---GHSNVLSVSFSP 380
Query: 123 KEFGLILACGSSDGTIS 139
+++ GS+DGT+
Sbjct: 381 DGR--VVSSGSTDGTVR 395
>gnl|CDD|197651 smart00320, WD40, WD40 repeats. Note that these repeats are
permuted with respect to the structural repeats
(blades) of the beta propeller domain.
Length = 40
Score = 41.5 bits (98), Expect = 1e-05
Identities = 18/41 (43%), Positives = 24/41 (58%), Gaps = 2/41 (4%)
Query: 55 KGTLIAELKGHSGPVWQVAWAHPQFGTLLASCSYDRKVIIW 95
G L+ LKGH+GPV VA++ G LAS S D + +W
Sbjct: 1 SGELLKTLKGHTGPVTSVAFSP--DGKYLASGSDDGTIKLW 39
Score = 34.6 bits (80), Expect = 0.003
Identities = 11/43 (25%), Positives = 18/43 (41%), Gaps = 4/43 (9%)
Query: 209 KWIEETKLENHSDWVRDVAWAPSWGLSKCMIASCSQDRKVIIW 251
L+ H+ V VA++P +AS S D + +W
Sbjct: 1 SGELLKTLKGHTGPVTSVAFSPD----GKYLASGSDDGTIKLW 39
Score = 31.9 bits (73), Expect = 0.031
Identities = 14/35 (40%), Positives = 17/35 (48%), Gaps = 2/35 (5%)
Query: 106 YEYNNHDSSVNSIAWAPKEFGLILACGSSDGTISF 140
H V S+A++P G LA GS DGTI
Sbjct: 6 KTLKGHTGPVTSVAFSPD--GKYLASGSDDGTIKL 38
Score = 31.5 bits (72), Expect = 0.043
Identities = 10/32 (31%), Positives = 16/32 (50%)
Query: 10 TGHEDMIHDAEMDYLGLYLATCSSDHTVKVFN 41
GH + G YLA+ S D T+K+++
Sbjct: 9 KGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
Score = 25.4 bits (56), Expect = 6.2
Identities = 8/29 (27%), Positives = 13/29 (44%)
Query: 268 DDVVWNVSWSLTGDILTVSCGDNSVSLWK 296
V +V++S G L D ++ LW
Sbjct: 12 TGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
>gnl|CDD|201208 pfam00400, WD40, WD domain, G-beta repeat.
Length = 39
Score = 40.8 bits (96), Expect = 2e-05
Identities = 21/40 (52%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 56 GTLIAELKGHSGPVWQVAWAHPQFGTLLASCSYDRKVIIW 95
G L+ LKGH+GPV VA+ P G LLAS S D V +W
Sbjct: 1 GKLLRTLKGHTGPVTSVAF-SPD-GNLLASGSDDGTVRVW 38
Score = 35.8 bits (83), Expect = 0.001
Identities = 12/38 (31%), Positives = 19/38 (50%), Gaps = 4/38 (10%)
Query: 214 TKLENHSDWVRDVAWAPSWGLSKCMIASCSQDRKVIIW 251
L+ H+ V VA++P ++AS S D V +W
Sbjct: 5 RTLKGHTGPVTSVAFSPD----GNLLASGSDDGTVRVW 38
Score = 32.3 bits (74), Expect = 0.021
Identities = 13/33 (39%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 106 YEYNNHDSSVNSIAWAPKEFGLILACGSSDGTI 138
H V S+A++P G +LA GS DGT+
Sbjct: 5 RTLKGHTGPVTSVAFSPD--GNLLASGSDDGTV 35
Score = 30.4 bits (69), Expect = 0.10
Identities = 10/32 (31%), Positives = 15/32 (46%)
Query: 10 TGHEDMIHDAEMDYLGLYLATCSSDHTVKVFN 41
GH + G LA+ S D TV+V++
Sbjct: 8 KGHTGPVTSVAFSPDGNLLASGSDDGTVRVWD 39
Score = 25.8 bits (57), Expect = 4.7
Identities = 8/29 (27%), Positives = 15/29 (51%)
Query: 268 DDVVWNVSWSLTGDILTVSCGDNSVSLWK 296
V +V++S G++L D +V +W
Sbjct: 11 TGPVTSVAFSPDGNLLASGSDDGTVRVWD 39
Score = 24.6 bits (54), Expect = 9.4
Identities = 10/52 (19%), Positives = 17/52 (32%), Gaps = 17/52 (32%)
Query: 153 RKIAAHTIGCNAVSWGPGIGSLSELDLKGSKLGGVAKRLVSGGCDNLIKIWK 204
R + HT +V++ P L SG D +++W
Sbjct: 5 RTLKGHTGPVTSVAFSPD-----------------GNLLASGSDDGTVRVWD 39
>gnl|CDD|240412 PTZ00420, PTZ00420, coronin; Provisional.
Length = 568
Score = 33.8 bits (77), Expect = 0.11
Identities = 18/80 (22%), Positives = 37/80 (46%), Gaps = 7/80 (8%)
Query: 59 IAELKGHSGPVWQVAWAHPQFGTLLASCSYDRKVIIWR----GDNGNWFKYYE--YNNHD 112
+ +LKGH+ + + + +P F +LAS S D + +W ++ K + H
Sbjct: 67 VIKLKGHTSSILDLQF-NPCFSEILASGSEDLTIRVWEIPHNDESVKEIKDPQCILKGHK 125
Query: 113 SSVNSIAWAPKEFGLILACG 132
++ I W P + ++ + G
Sbjct: 126 KKISIIDWNPMNYYIMCSSG 145
Score = 33.0 bits (75), Expect = 0.22
Identities = 21/72 (29%), Positives = 35/72 (48%), Gaps = 4/72 (5%)
Query: 28 LATCSSDHTVKVFNLDRNLKKDDSHSQKGTLIAELKGHSGPVWQVAWAHPQFGTLLASCS 87
LA+ S D T++V+ + N D+S + LKGH + + W +P ++ S
Sbjct: 90 LASGSEDLTIRVWEIPHN---DESVKEIKDPQCILKGHKKKISIIDW-NPMNYYIMCSSG 145
Query: 88 YDRKVIIWRGDN 99
+D V IW +N
Sbjct: 146 FDSFVNIWDIEN 157
>gnl|CDD|233770 TIGR02188, Ac_CoA_lig_AcsA, acetate--CoA ligase. This model
describes acetate-CoA ligase (EC 6.2.1.1), also called
acetyl-CoA synthetase and acetyl-activating enzyme. It
catalyzes the reaction ATP + acetate + CoA = AMP +
diphosphate + acetyl-CoA and belongs to the family of
AMP-binding enzymes described by pfam00501.
Length = 625
Score = 31.1 bits (71), Expect = 0.81
Identities = 11/39 (28%), Positives = 14/39 (35%)
Query: 89 DRKVIIWRGDNGNWFKYYEYNNHDSSVNSIAWAPKEFGL 127
D+ IIW GD + Y V A K G+
Sbjct: 72 DKVAIIWEGDEPGEVRKITYRELHREVCRFANVLKSLGV 110
>gnl|CDD|173611 PTZ00421, PTZ00421, coronin; Provisional.
Length = 493
Score = 31.0 bits (70), Expect = 0.92
Identities = 32/123 (26%), Positives = 48/123 (39%), Gaps = 26/123 (21%)
Query: 59 IAELKGHSGPVWQVAWAHPQFGTLLASCSYDRKVIIW---RGDNGNWFKYYEYNNHDSSV 115
I L+GH+ V V++ HP +LAS D V +W RG K H +
Sbjct: 118 IVHLQGHTKKVGIVSF-HPSAMNVLASAGADMVVNVWDVERGKAVEVIK-----CHSDQI 171
Query: 116 NSIAWAPKEFGLILACGSSDGTISFL-----TYMSDTNS----------WESRKIAAHTI 160
S+ W G +L S D ++ + T +S + W RK T+
Sbjct: 172 TSLEWNLD--GSLLCTTSKDKKLNIIDPRDGTIVSSVEAHASAKSQRCLWAKRKDLIITL 229
Query: 161 GCN 163
GC+
Sbjct: 230 GCS 232
Score = 29.5 bits (66), Expect = 2.5
Identities = 15/60 (25%), Positives = 29/60 (48%), Gaps = 6/60 (10%)
Query: 191 LVSGGCDNLIKIWKQEGDKWIEETKLENHSDWVRDVAWAPSWGLSKCMIASCSQDRKVII 250
L S G D ++ +W E + ++ HSD + + W L ++ + S+D+K+ I
Sbjct: 141 LASAGADMVVNVWDVE--RGKAVEVIKCHSDQITSL----EWNLDGSLLCTTSKDKKLNI 194
>gnl|CDD|223364 COG0287, TyrA, Prephenate dehydrogenase [Amino acid transport and
metabolism].
Length = 279
Score = 30.0 bits (68), Expect = 1.3
Identities = 17/97 (17%), Positives = 32/97 (32%), Gaps = 19/97 (19%)
Query: 42 LDRNLKKD----DSHSQKGTLIAELKGHSGPVWQVAWAHPQFGTLLASCSYDRKVIIWRG 97
L +LKK D S K +++ ++ + + HP FG + ++ V++
Sbjct: 84 LAPHLKKGAIVTDVGSVKSSVVEAMEKYLPGDVRFVGGHPMFGPEADAGLFENAVVVL-- 141
Query: 98 DNGNWFKYYEYNNHDSSVNSIAWAPKEFGLILACGSS 134
S W + L A G+
Sbjct: 142 -------------TPSEGTEKEWVEEVKRLWEALGAR 165
>gnl|CDD|221762 pfam12768, Rax2, Cortical protein marker for cell polarity.
Diploid yeast cells repeatedly polarize and bud from
their poles, due probably to the presence of highly
stable membrane markers, and Rax2 is one such marker. It
is inherited immutably at the cell cortex for multiple
generations, and has a half-life exceeding several
generations. The persistent inheritance of cortical
protein markers would provide a means of coupling a
cell's history with the future development of a precise
morphogenetic form. Both Rax1 and Rax2 localise to the
distal pole as well as to the division site and they
interact both with each other and with Bud8p and Bud9p
in the establishment and/or maintenance of the cortical
markers for bipolar budding. thus Rax2 is likely to
control cell polarity during vegetative growth, and in
fission yeast this is done by regulating the
localisation of for3p.
Length = 276
Score = 28.8 bits (65), Expect = 3.8
Identities = 17/76 (22%), Positives = 26/76 (34%), Gaps = 6/76 (7%)
Query: 109 NNHDSSVNSIAWAPKEFGLILACGS---SDGTISFLTYMSDTNSWESRKIAAHTIGCNAV 165
NN V S+ WA +L G+ + + TY +W S K A +
Sbjct: 33 NNISGEVTSLKWASNN--KLLIAGNLTVNGNNTNLATYDFKNQTWSSVK-GASDLPGPVT 89
Query: 166 SWGPGIGSLSELDLKG 181
++ S L G
Sbjct: 90 AFTFISDDGSNFWLAG 105
>gnl|CDD|221693 pfam12657, TFIIIC_delta, Transcription factor IIIC subunit delta
N-term. In humans there are six subunits of
transcription factor IIIC, and this one is the 90 kDa
subunit; whereas in fungi the complex resolves into nine
different subunits and this is No. 9 in yeasts. The
whole subunit is involved in RNA polymerase III-mediated
transcription. It is possible that this N-terminal
domain interacts with TFIIIC subunit 8.
Length = 167
Score = 27.8 bits (62), Expect = 5.7
Identities = 14/42 (33%), Positives = 26/42 (61%), Gaps = 5/42 (11%)
Query: 223 VRDVAWAPSWGLSK---CMIASCSQDRKVIIWT-SNDYVTWT 260
VR VAW+P GL+K C++A + + ++ ++ S++ WT
Sbjct: 89 VRAVAWSPP-GLAKNGRCLLAVLTSNLRLSLYEPSSNQGKWT 129
>gnl|CDD|173878 cd08513, PBP2_thermophilic_Hb8_like, The substrate-binding
component of ABC-type thermophilic oligopeptide-binding
protein Hb8-like import systems, contains the type 2
periplasmic binding fold. This family includes the
substrate-binding domain of an ABC-type
oligopeptide-binding protein Hb8 from Thermus
thermophilius and its closest homologs from other
bacteria. The structural topology of this
substrate-binding domain is similar to those of DppA
from Escherichia coli and OppA from Salmonella
typhimurium, and thus belongs to the type 2 periplasmic
binding fold protein (PBP2) superfamily. The DppA binds
dipeptides and some tripeptides and is involved in
chemotaxis toward dipeptides, whereas the OppA binds
peptides of a wide range of lengths (2-35 amino acid
residues) and plays a role in recycling of cell wall
peptides, which precludes any involvement in chemotaxis.
The type 2 periplasmic binding proteins are soluble
ligand-binding components of ABC or tripartite
ATP-independent transporters and chemotaxis systems.
Members of the PBP2 superfamily function in uptake of a
variety of metabolites in bacteria such as amino acids,
carbohydrate, ions, and polyamines. Ligands are then
transported across the cytoplasmic membrane energized by
ATP hydrolysis or electrochemical ion gradient. Besides
transport proteins, the PBP2 superfamily includes the
ligand-binding domains from ionotropic glutamate
receptors, LysR-type transcriptional regulators, and
unorthodox sensor proteins involved in signal
transduction.
Length = 482
Score = 28.4 bits (64), Expect = 5.9
Identities = 13/39 (33%), Positives = 19/39 (48%), Gaps = 8/39 (20%)
Query: 243 SQDRKVIIWTSNDYVTW---TPFIMNTFDDVVWNVSWSL 278
S++ + +T V W TP T DDVV+ +W L
Sbjct: 54 SENGLSVTFTLRPGVKWSDGTPV---TADDVVF--TWEL 87
>gnl|CDD|183455 PRK12342, PRK12342, hypothetical protein; Provisional.
Length = 254
Score = 27.8 bits (62), Expect = 7.8
Identities = 17/63 (26%), Positives = 30/63 (47%), Gaps = 5/63 (7%)
Query: 156 AAHTIGCNAVSWGPGIGSLSELDLKGSKLGGVAKRLVSGGCDNLIKIWKQEGDKWIEETK 215
A IG + + +G G G DL ++G + L+ N + +++G+K I E
Sbjct: 104 AIEKIGFDLLLFGEGSG-----DLYAQQVGLLLGELLQLPVINAVSKIQRQGNKLIVERT 158
Query: 216 LEN 218
LE+
Sbjct: 159 LED 161
>gnl|CDD|183507 PRK12407, flgH, flagellar basal body L-ring protein; Reviewed.
Length = 221
Score = 27.5 bits (61), Expect = 7.8
Identities = 12/41 (29%), Positives = 17/41 (41%)
Query: 273 NVSWSLTGDILTVSCGDNSVSLWKENTDGAWQCITEMGKTS 313
+WSL D GD + E+T + Q T GK +
Sbjct: 53 GYNWSLLQDRRAYRVGDILTVILDESTQSSKQAKTNFGKKN 93
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 0.436
Gapped
Lambda K H
0.267 0.0728 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,808,500
Number of extensions: 1426078
Number of successful extensions: 1189
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1096
Number of HSP's successfully gapped: 47
Length of query: 318
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 221
Effective length of database: 6,635,264
Effective search space: 1466393344
Effective search space used: 1466393344
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)