RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7057
(557 letters)
>gnl|CDD|204121 pfam09070, PFU, PFU (PLAA family ubiquitin binding). This domain
is found N terminal to pfam08324 and binds to ubiquitin.
Length = 116
Score = 169 bits (431), Expect = 8e-51
Identities = 62/116 (53%), Positives = 80/116 (68%), Gaps = 4/116 (3%)
Query: 315 EPGKADGDVKMVREGS-TVVAYSWSEASREWNKLGDVMGSAGGTQESSGKVLYQGKEYDF 373
PGK +G VKMV+ G V AY WSE W K+GDV+ + SSGKVL++GKEYD+
Sbjct: 2 RPGKKEGQVKMVKNGDGKVEAYQWSEG--RWVKIGDVVDGPA-SGASSGKVLFEGKEYDY 58
Query: 374 VFSVDIEEGKPPLKLPYNVSEDPWHAAQAFIHTHHLSQMFLEQVANFIMTNSKSKQ 429
VF VDIE+G PPLKLPYNV ++P+ AA+ FI + L Q +L+QV NFI+ N+K
Sbjct: 59 VFDVDIEDGGPPLKLPYNVGDNPYEAAEKFIARNELPQSYLDQVVNFIIKNTKGVT 114
Score = 92.7 bits (231), Expect = 1e-22
Identities = 29/54 (53%), Positives = 39/54 (72%)
Query: 474 SVDIEEGKPPLKLPYNVSEDPWHAAQAFIHTHHLSQMFLEQVANFIMTNSKSKQ 527
VDIE+G PPLKLPYNV ++P+ AA+ FI + L Q +L+QV NFI+ N+K
Sbjct: 61 DVDIEDGGPPLKLPYNVGDNPYEAAEKFIARNELPQSYLDQVVNFIIKNTKGVT 114
>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 = 159 bits (404), Expect = 1e-44
Identities = 81/250 (32%), Positives = 122/250 (48%), Gaps = 32/250 (12%)
Query: 4 LSTALYGHSMDVRSLSVTPDG-CILSASRDKSAKLWKPNDLSPGAKVNTL---------- 52
L L GH+ VR ++ + DG + S S DK+ +LW DL G V TL
Sbjct: 43 LLRTLKGHTGPVRDVAASADGTYLASGSSDKTIRLW---DLETGECVRTLTGHTSYVSSV 99
Query: 53 ---------LSASWDMTAKLWCLESQQCKLTIRQHEMAVWGV-IQLANGIIVTGCADKTI 102
S+S D T K+W +E+ +C T+R H V V + + D TI
Sbjct: 100 AFSPDGRILSSSSRDKTIKVWDVETGKCLTTLRGHTDWVNSVAFSPDGTFVASSSQDGTI 159
Query: 103 KLHS-EEGEFLKTLTGHTDCVRGLAVLND-TDFVSCSNDASIRVWDSTTGKCVHTMYGHP 160
KL G+ + TLTGHT V +A D +S S+D +I++WD +TGKC+ T+ GH
Sbjct: 160 KLWDLRTGKCVATLTGHTGEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTLRGHE 219
Query: 161 NFIYSVAAH--GDLITSGGEDQCVCVYQ-NKAQNSFMIPA--MSVWAVAILPN-SDIVTG 214
N + SVA G L+ SG ED + V+ + + SV ++A P+ + +G
Sbjct: 220 NGVNSVAFSPDGYLLASGSEDGTIRVWDLRTGECVQTLSGHTNSVTSLAWSPDGKRLASG 279
Query: 215 SSDGIVRVFS 224
S+DG +R++
Sbjct: 280 SADGTIRIWD 289
Score = 155 bits (393), Expect = 4e-43
Identities = 89/299 (29%), Positives = 130/299 (43%), Gaps = 46/299 (15%)
Query: 4 LSTALYGHSMDVRSLSVTPDG-CILSASRDKSAKLWKPNDLSPGAKV------------- 49
L L GH+ V ++ +PDG + + S D + K+W DL G +
Sbjct: 1 LRRTLKGHTGGVTCVAFSPDGKLLATGSGDGTIKVW---DLETGELLRTLKGHTGPVRDV 57
Query: 50 ------NTLLSASWDMTAKLWCLESQQCKLTIRQHEMAVWGVIQLANG-IIVTGCADKTI 102
L S S D T +LW LE+ +C T+ H V V +G I+ + DKTI
Sbjct: 58 AASADGTYLASGSSDKTIRLWDLETGECVRTLTGHTSYVSSVAFSPDGRILSSSSRDKTI 117
Query: 103 KLHS-EEGEFLKTLTGHTDCVRGLAVLNDTDFV-SCSNDASIRVWDSTTGKCVHTMYGHP 160
K+ E G+ L TL GHTD V +A D FV S S D +I++WD TGKCV T+ GH
Sbjct: 118 KVWDVETGKCLTTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGKCVATLTGHT 177
Query: 161 NFIYSVAAHGD--LITSGGEDQCVCVYQNKAQ---NSFMIPAMSVWAVAILPNSDIVTGS 215
+ SVA D + S D + ++ + V +VA P+ ++
Sbjct: 178 GEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTLRGHENGVNSVAFSPDGYLLASG 237
Query: 216 S-DGIVRVFSANPDRQAEDAVQAQYAEEVKKLKSANEQEIGGVKVSDDGIVRVFSANPD 273
S DG +RV+ E V+ L S + + + S DG R+ S + D
Sbjct: 238 SEDGTIRVWDLRT------------GECVQTL-SGHTNSVTSLAWSPDGK-RLASGSAD 282
Score = 121 bits (305), Expect = 9e-31
Identities = 60/190 (31%), Positives = 86/190 (45%), Gaps = 30/190 (15%)
Query: 2 YKLSTALYGHSMDVRSLSVTPDGCILSASRDKSAKLWKPNDLSPGAKVNTLLSASWDMTA 61
K T L GH+ V S++ +PDG + S+S D T
Sbjct: 125 GKCLTTLRGHTDWVNSVAFSPDG-------------------------TFVASSSQDGTI 159
Query: 62 KLWCLESQQCKLTIRQHEMAVWGVIQLANGI-IVTGCADKTIKLHS-EEGEFLKTLTGHT 119
KLW L + +C T+ H V V +G +++ +D TIKL G+ L TL GH
Sbjct: 160 KLWDLRTGKCVATLTGHTGEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTLRGHE 219
Query: 120 DCVRGLAVLNDTD-FVSCSNDASIRVWDSTTGKCVHTMYGHPNFIYSVAAHGD--LITSG 176
+ V +A D S S D +IRVWD TG+CV T+ GH N + S+A D + SG
Sbjct: 220 NGVNSVAFSPDGYLLASGSEDGTIRVWDLRTGECVQTLSGHTNSVTSLAWSPDGKRLASG 279
Query: 177 GEDQCVCVYQ 186
D + ++
Sbjct: 280 SADGTIRIWD 289
>gnl|CDD|225201 COG2319, COG2319, FOG: WD40 repeat [General function prediction
only].
Length = 466
Score = 92.8 bits (229), Expect = 4e-20
Identities = 71/301 (23%), Positives = 127/301 (42%), Gaps = 34/301 (11%)
Query: 2 YKLSTALYGHSMDVRSLSVTPDG--CILSASRDKSAKLWKPNDLSPGAKVNT-------- 51
KL L GHS V SL+ +PDG +S D + KLW P + +
Sbjct: 145 GKLIRTLEGHSESVTSLAFSPDGKLLASGSSLDGTIKLWDLRTGKPLSTLAGHTDPVSSL 204
Query: 52 ---------LLSASWDMTAKLW-CLESQQCKLTIRQHEMAVWGVIQLANGIIVTGCADKT 101
+ S S D T +LW + + T+ H +V ++ +G +D T
Sbjct: 205 AFSPDGGLLIASGSSDGTIRLWDLSTGKLLRSTLSGHSDSVVSSFSPDGSLLASGSSDGT 264
Query: 102 IKLHS--EEGEFLKTLTGHTDCVRGLAVLNDTD-FVSCSNDASIRVWDSTTGKCVHTM-- 156
I+L L+TL+GH+ V +A D S S+D ++R+WD TGK + ++
Sbjct: 265 IRLWDLRSSSSLLRTLSGHSSSVLSVAFSPDGKLLASGSSDGTVRLWDLETGKLLSSLTL 324
Query: 157 YGHPNFIYSVAAHGD---LITSGGEDQCVCVYQNKAQNSFMIPAM--SVWAVAILPNSDI 211
GH + S++ D L++ G +D + ++ + +V +V+ P+ +
Sbjct: 325 KGHEGPVSSLSFSPDGSLLVSGGSDDGTIRLWDLRTGKPLKTLEGHSNVLSVSFSPDGRV 384
Query: 212 V-TGSSDGIVRVFSANPDRQAEDAVQAQYAEEVKKLKSANEQEIGGVKVSDDGIVRVFSA 270
V +GS+DG VR++ + + + V L + + + S D +R++
Sbjct: 385 VSSGSTDGTVRLW--DLSTGSLLRNLDGHTSRVTSLDFSPDGKS-LASGSSDNTIRLWDL 441
Query: 271 N 271
Sbjct: 442 K 442
Score = 80.9 bits (198), Expect = 3e-16
Identities = 58/238 (24%), Positives = 96/238 (40%), Gaps = 32/238 (13%)
Query: 5 STALYGHSMDVRSLSVTPDG-CILSASRDKSAKLWKPNDLSPGAKVNTLLSASWDMTAKL 63
S L GH + S++ +PDG +LS S D + KLW ++ + +L +KL
Sbjct: 58 SLLLRGHEDSITSIAFSPDGELLLSGSSDGTIKLWDLDN--GEKLIKSLEGLHDSSVSKL 115
Query: 64 WCLESQQCKLTIRQHEMAVWGVIQLANGIIVTGCADKTIKLHSEEGEF--LKTLTGHTDC 121
+ ++ + D T+KL ++TL GH++
Sbjct: 116 A------------------LSSPDGNSILLASSSLDGTVKLWDLSTPGKLIRTLEGHSES 157
Query: 122 VRGLAVLNDTD--FVSCSNDASIRVWDSTTGKCVHTMYGHPNFIYSVAAHGD---LITSG 176
V LA D S D +I++WD TGK + T+ GH + + S+A D LI SG
Sbjct: 158 VTSLAFSPDGKLLASGSSLDGTIKLWDLRTGKPLSTLAGHTDPVSSLAFSPDGGLLIASG 217
Query: 177 GEDQCVCVY--QNKAQNSFMIPAMSVWAVAILP--NSDIVTGSSDGIVRVFSANPDRQ 230
D + ++ + S V+ S + +GSSDG +R++
Sbjct: 218 SSDGTIRLWDLSTGKLLRSTLSGHSDSVVSSFSPDGSLLASGSSDGTIRLWDLRSSSS 275
>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 = 43.1 bits (102), Expect = 5e-06
Identities = 18/39 (46%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 109 GEFLKTLTGHTDCVRGLAVLNDTD-FVSCSNDASIRVWD 146
GE LKTL GHT V +A D S S+D +I++WD
Sbjct: 2 GELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
Score = 38.1 bits (89), Expect = 4e-04
Identities = 11/39 (28%), Positives = 21/39 (53%), Gaps = 2/39 (5%)
Query: 149 TGKCVHTMYGHPNFIYSVAAH--GDLITSGGEDQCVCVY 185
+G+ + T+ GH + SVA G + SG +D + ++
Sbjct: 1 SGELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLW 39
Score = 36.9 bits (86), Expect = 8e-04
Identities = 15/38 (39%), Positives = 22/38 (57%), Gaps = 1/38 (2%)
Query: 3 KLSTALYGHSMDVRSLSVTPDG-CILSASRDKSAKLWK 39
+L L GH+ V S++ +PDG + S S D + KLW
Sbjct: 3 ELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
Score = 32.3 bits (74), Expect = 0.031
Identities = 12/40 (30%), Positives = 18/40 (45%), Gaps = 1/40 (2%)
Query: 68 SQQCKLTIRQHEMAVWGVIQLANG-IIVTGCADKTIKLHS 106
S + T++ H V V +G + +G D TIKL
Sbjct: 1 SGELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
Score = 30.4 bits (69), Expect = 0.15
Identities = 8/27 (29%), Positives = 16/27 (59%), Gaps = 1/27 (3%)
Query: 199 SVWAVAILPNSD-IVTGSSDGIVRVFS 224
V +VA P+ + +GS DG ++++
Sbjct: 14 PVTSVAFSPDGKYLASGSDDGTIKLWD 40
>gnl|CDD|201208 pfam00400, WD40, WD domain, G-beta repeat.
Length = 39
Score = 42.0 bits (99), Expect = 1e-05
Identities = 17/39 (43%), Positives = 24/39 (61%), Gaps = 1/39 (2%)
Query: 109 GEFLKTLTGHTDCVRGLAVLNDTD-FVSCSNDASIRVWD 146
G+ L+TL GHT V +A D + S S+D ++RVWD
Sbjct: 1 GKLLRTLKGHTGPVTSVAFSPDGNLLASGSDDGTVRVWD 39
Score = 38.9 bits (91), Expect = 2e-04
Identities = 15/38 (39%), Positives = 23/38 (60%), Gaps = 1/38 (2%)
Query: 3 KLSTALYGHSMDVRSLSVTPDGCIL-SASRDKSAKLWK 39
KL L GH+ V S++ +PDG +L S S D + ++W
Sbjct: 2 KLLRTLKGHTGPVTSVAFSPDGNLLASGSDDGTVRVWD 39
Score = 35.8 bits (83), Expect = 0.002
Identities = 15/38 (39%), Positives = 21/38 (55%), Gaps = 2/38 (5%)
Query: 150 GKCVHTMYGHPNFIYSVAAHGD--LITSGGEDQCVCVY 185
GK + T+ GH + SVA D L+ SG +D V V+
Sbjct: 1 GKLLRTLKGHTGPVTSVAFSPDGNLLASGSDDGTVRVW 38
Score = 30.8 bits (70), Expect = 0.11
Identities = 11/27 (40%), Positives = 17/27 (62%), Gaps = 1/27 (3%)
Query: 199 SVWAVAILPNSD-IVTGSSDGIVRVFS 224
V +VA P+ + + +GS DG VRV+
Sbjct: 13 PVTSVAFSPDGNLLASGSDDGTVRVWD 39
Score = 30.0 bits (68), Expect = 0.24
Identities = 8/36 (22%), Positives = 18/36 (50%), Gaps = 1/36 (2%)
Query: 70 QCKLTIRQHEMAVWGVIQLANG-IIVTGCADKTIKL 104
+ T++ H V V +G ++ +G D T+++
Sbjct: 2 KLLRTLKGHTGPVTSVAFSPDGNLLASGSDDGTVRV 37
>gnl|CDD|177776 PLN00181, PLN00181, protein SPA1-RELATED; Provisional.
Length = 793
Score = 35.4 bits (81), Expect = 0.095
Identities = 26/96 (27%), Positives = 45/96 (46%), Gaps = 12/96 (12%)
Query: 112 LKTLTGHTDCVRGLAVLNDTDFVSCSNDASIRVWD---STTG---KCVHTMYGHPNF--I 163
L T+ GH+ V + ++ + VS S D ++++WD S +G +H+ GH N
Sbjct: 654 LCTMIGHSKTVSYVRFVDSSTLVSSSTDNTLKLWDLSMSISGINETPLHSFMGHTNVKNF 713
Query: 164 YSVAAHGDLITSGGEDQCVCVYQNKAQNSFMIPAMS 199
++ I +G E V VY +F +P +S
Sbjct: 714 VGLSVSDGYIATGSETNEVFVY----HKAFPMPVLS 745
>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A
(vWA) domain [General function prediction only].
Length = 4600
Score = 33.4 bits (76), Expect = 0.37
Identities = 30/120 (25%), Positives = 50/120 (41%), Gaps = 11/120 (9%)
Query: 232 EDAVQAQYAEEVKKLKSANEQEIGGVKVSDDGIVRVFSANPDRQAEDAVQAQYAEEVKKL 291
E+ VQ +KS E E G V D I +P A+ + A+E
Sbjct: 4068 EENVQENEESTEDGVKSDEELEQGEVP-EDQAI----DNHPKMDAKSTFASAEADEENTD 4122
Query: 292 KSANEQEIGGVKVSDLPGKEVLYEPGKADGDVKMVREGSTVVAYSWSEASREWNKLGDVM 351
K + +L ++ + G ADG+ + V+E ++ + SEA R++ LGD +
Sbjct: 4123 KGI------VGENEELGEEDGVRGNGTADGEFEQVQEDTSTPKEAMSEADRQYQSLGDHL 4176
>gnl|CDD|238938 cd01980, Chlide_reductase_Y, Chlide_reductase_Y : Y subunit of
chlorophyllide (chlide) reductase (BchY). Chlide
reductase participates in photosynthetic pigment
synthesis playing a role in the conversion of
chlorophylls(Chl) into bacteriochlorophylls (BChl).
Chlide reductase catalyzes the reduction of the B-ring
of the tetrapyrolle. Chlide reductase is a three subunit
enzyme (subunits are designated BchX, BchY and BchZ).
The similarity between these three subunits and the
subunits for nitrogenase suggests that BchX serves as an
electron donor for the BchY-BchY catalytic subunits.
Length = 416
Score = 32.5 bits (74), Expect = 0.53
Identities = 39/170 (22%), Positives = 57/170 (33%), Gaps = 30/170 (17%)
Query: 194 MIPAMSVWAVAILPNSDIVTGSSDGIVRVFSANPDRQAEDAVQAQYAEEVKKLKSANEQE 253
++ M + AV ++P + R A D A A+ Y +++L+ A
Sbjct: 179 VLERMGLAAVPVVPTRE---------WRELYAAGDAAAVAALHPFYTATIRELEEAGRPI 229
Query: 254 IGGVKVSDDGIVRVFSANPDRQA--EDAVQAQYAEEVKKLKSA--NEQEIGG-VKVSDLP 308
+ G V DG A + D V+ EE K A I G V VS
Sbjct: 230 VSGAPVGADGTAAWLEAVGEALGLDMDQVRKVANEEKAAAKGAIRAFSPIKGRVLVSGYE 289
Query: 309 GKEVLYEPGKADGDVKMVREGSTVVAY--------SWSEASREWNKLGDV 350
G E+L +++ E V Y S S EW V
Sbjct: 290 GNELLV--------ARLLIESGAEVPYVSTSIPKTSLSAPDYEWLSALGV 331
>gnl|CDD|238872 cd01834, SGNH_hydrolase_like_2, SGNH_hydrolase subfamily. SGNH
hydrolases are a diverse family of lipases and
esterases. The tertiary fold of the enzyme is
substantially different from that of the alpha/beta
hydrolase family and unique among all known hydrolases;
its active site closely resembles the Ser-His-Asp(Glu)
triad found in other serine hydrolases.
Length = 191
Score = 31.5 bits (72), Expect = 0.77
Identities = 26/77 (33%), Positives = 34/77 (44%), Gaps = 12/77 (15%)
Query: 270 ANPDRQAEDAVQAQYAEEVKKLKSANEQEIGGVKVSDL--PGKEVLYEPGKA----DGDV 323
PD +A A YA+ V++L + N GV DL P KE + G+A DG V
Sbjct: 121 PLPDGAEYNANLAAYADAVRELAAEN-----GVAFVDLFTPMKEAFQKAGEAVLTVDG-V 174
Query: 324 KMVREGSTVVAYSWSEA 340
G +A W EA
Sbjct: 175 HPNEAGHRALARLWLEA 191
>gnl|CDD|223407 COG0330, HflC, Membrane protease subunits, stomatin/prohibitin
homologs [Posttranslational modification, protein
turnover, chaperones].
Length = 291
Score = 31.6 bits (72), Expect = 0.92
Identities = 15/96 (15%), Positives = 29/96 (30%), Gaps = 24/96 (25%)
Query: 201 WAVAILPNSDIVTGSSDGIVRVFSANPDRQAEDAVQAQYAEEVKKLKSANEQEIGGVKVS 260
+ + +++T I ++ E G+KV
Sbjct: 124 SVIGRMTLDELLTERRAEINAK------------IREILDEAADPW---------GIKVV 162
Query: 261 DDGIVRVFSANPDRQAEDAVQAQYAEEVKKLKSANE 296
D V + +P + + A++ Q A E K E
Sbjct: 163 D---VEIKDIDPPEEVQAAMEKQMAAERDKRAEILE 195
>gnl|CDD|225115 COG2205, KdpD, Osmosensitive K+ channel histidine kinase [Signal
transduction mechanisms].
Length = 890
Score = 30.3 bits (69), Expect = 3.0
Identities = 33/131 (25%), Positives = 48/131 (36%), Gaps = 30/131 (22%)
Query: 219 IVRVFSANPDRQAEDAVQAQYAEEV-----KKLKSA-NEQEI---GGVKVS--------- 260
+ +A QA A + + E+ KKL A ++I G +++
Sbjct: 487 LTGNLTARVREQARAARRREQRTELLYEFSKKLAGARTREDILAAAGQQIASLLNQRVVI 546
Query: 261 ---DDGIVRVFSANPDR-QAEDAVQAQYAEEVKKLKSANEQEIGGVKVSDLPGKEVLYEP 316
DD NPD A+D AQ+A N + G LPG + LY P
Sbjct: 547 LLPDDNGKLQPLGNPDGLSADDRAAAQWA-------FENGKP-AGAGTDTLPGAKYLYLP 598
Query: 317 GKADGDVKMVR 327
K+ G V V
Sbjct: 599 LKSGGKVLGVL 609
>gnl|CDD|236995 PRK11824, PRK11824, polynucleotide phosphorylase/polyadenylase;
Provisional.
Length = 693
Score = 30.0 bits (69), Expect = 3.8
Identities = 19/73 (26%), Positives = 31/73 (42%), Gaps = 23/73 (31%)
Query: 256 GVKVS--DDGIVRVFSANPDRQAEDAVQAQYAEEVKKLKSANEQEIG------------- 300
G K+ DDG V++ + + + AE A + ++ + E E+G
Sbjct: 584 GAKIDIEDDGTVKIAATDGE-AAEAAKER-----IEGI--TAEPEVGEIYEGKVVRIVDF 635
Query: 301 GVKVSDLPGKEVL 313
G V LPGK+ L
Sbjct: 636 GAFVEILPGKDGL 648
>gnl|CDD|241336 cd13182, EVH1-like_Dcp1, Decapping enzyme EVH1-like domain. Dcp1
is a small protein containing an EVH1 domain. The
Dcp1-Dcp2 complex plays a critical step in mRNA
degradation with the removal of the 50 cap structure.
Dcp1 stimulates the activity of Dcp2 by promoting and/or
stabilizing the closed complex. The interface of Dcp1
and Dcp2 is not fully conserved and in higher eukaryotes
it requires an additional factor. The proline-rich
sequence (PRS)-binding sites in Dcp1p indicates that it
belongs to a novel class of EVH1 domains. Dcp1 has 2
prominent sites,one required for the function of the
Dcp1p-Dcp2p complex, and the other, the PRS-binding site
of EVH1 domains, a binding site for decapping regulatory
proteins. It also has a conserved hydrophobic patch is
shown to be critical for decapping. The EVH1 domains are
part of the PH domain superamily.
Length = 116
Score = 28.3 bits (64), Expect = 4.1
Identities = 11/24 (45%), Positives = 13/24 (54%), Gaps = 1/24 (4%)
Query: 330 STVVAYSWSEASREWNKLGDVMGS 353
S VV Y + S EW K DV G+
Sbjct: 21 SHVVLYKFDPDSNEWEKT-DVEGT 43
>gnl|CDD|223092 COG0013, AlaS, Alanyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 879
Score = 29.9 bits (68), Expect = 4.3
Identities = 24/100 (24%), Positives = 43/100 (43%), Gaps = 17/100 (17%)
Query: 212 VTGSSDGIVRV-FSANPDRQAEDAVQAQYAEEVKKLKSANEQEIGGVKVSDDGIVRV--- 267
G + G+ R+ A + +Q Q + +K++ S +KV + + +V
Sbjct: 688 EEGIAAGVRRIEAVTGEA--ALEYLQEQE-DLLKEIASL-------LKVPPELLPKVERL 737
Query: 268 FSANPD--RQAEDAVQAQYAEEVKKLKS-ANEQEIGGVKV 304
+ ++ E + A E+ L S A +EIGGVKV
Sbjct: 738 LEELKELEKELERLKKKLAAAELADLLSNAKAEEIGGVKV 777
>gnl|CDD|234309 TIGR03683, A-tRNA_syn_arch, alanyl-tRNA synthetase. This family of
alanyl-tRNA synthetases is limited to the archaea, and
is a subset of those sequences identified by the model
pfam07973 covering the second additional domain (SAD) of
alanyl and threonyl tRNA synthetases.
Length = 902
Score = 30.0 bits (68), Expect = 4.3
Identities = 24/93 (25%), Positives = 38/93 (40%), Gaps = 14/93 (15%)
Query: 217 DGIVR-VFSANPDRQAEDAVQAQY---AEEVKKLKSANEQEIGGVKVSDDGIVRVFSANP 272
DG+ R F+A A + +Q E LK EQ VK R F
Sbjct: 725 DGVERIEFAAGE--AALEYIQELEDLLRESSDILKVPPEQLPETVK-------RFFEEWK 775
Query: 273 DRQAE-DAVQAQYAEEVKKLKSANEQEIGGVKV 304
+++ E + ++ + AE + + IGGV+V
Sbjct: 776 EQRKEIERLKKKLAELKIYELISEAERIGGVEV 808
>gnl|CDD|131747 TIGR02700, flavo_MJ0208, archaeoflavoprotein, MJ0208 family. This
model describes one of two paralogous families of
archaealflavoprotein. The other, described by TIGR02699
and typified by the partially characterized AF1518 of
Archaeoglobus fulgidus, is a homodimeric FMN-containing
flavoprotein that accepts electrons from ferredoxin and
can transfer them to various oxidoreductases. The
function of this protein family is unknown [Unknown
function, General].
Length = 234
Score = 29.5 bits (66), Expect = 4.3
Identities = 12/40 (30%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 417 VANFIMTNSKSKQGPTEYD-FVFSVDIEEGKPPLKLPYNV 455
+A+ ++TN+ ++ G + +V VD EEG PY +
Sbjct: 106 IADSLVTNAVAQAGKGDVPVWVVPVDYEEGIIRTITPYMI 145
>gnl|CDD|146261 pfam03528, Rabaptin, Rabaptin.
Length = 106
Score = 27.9 bits (62), Expect = 4.6
Identities = 22/84 (26%), Positives = 35/84 (41%), Gaps = 18/84 (21%)
Query: 223 FSANPDRQAEDAVQAQYAEEVKKLKSANEQEIGGVKVSDDGIVRVFSANPDRQAEDAVQA 282
S ++A V Q EEV L++ ++ + G + + + Q E
Sbjct: 6 VSETTKQEAAIKVMRQEQEEVASLQAIMKETVSGYETQWNLL----------QQERLQWI 55
Query: 283 QYAE----EVKKLKS----ANEQE 298
QY E EVKKL+ ANE++
Sbjct: 56 QYQEAEEREVKKLQRRLRQANEED 79
>gnl|CDD|119359 cd06542, GH18_EndoS-like, Endo-beta-N-acetylglucosaminidases are
bacterial chitinases that hydrolyze the chitin core of
various asparagine (N)-linked glycans and glycoproteins.
The endo-beta-N-acetylglucosaminidases have a glycosyl
hydrolase family 18 (GH18) catalytic domain. Some
members also have an additional C-terminal glycosyl
hydrolase family 20 (GH20) domain while others have an
N-terminal domain of unknown function (pfam08522).
Members of this family include
endo-beta-N-acetylglucosaminidase S (EndoS) from
Streptococcus pyogenes, EndoF1, EndoF2, EndoF3, and
EndoH from Flavobacterium meningosepticum, and EndoE
from Enterococcus faecalis. EndoS is a secreted
endoglycosidase from Streptococcus pyogenes that
specifically hydrolyzes the glycan on human IgG between
two core N-acetylglucosamine residues. EndoE is a
secreted endoglycosidase, encoded by the ndoE gene in
Enterococcus faecalis, that hydrolyzes the glycan on
human RNase B.
Length = 255
Score = 29.3 bits (66), Expect = 5.1
Identities = 18/77 (23%), Positives = 30/77 (38%), Gaps = 15/77 (19%)
Query: 219 IVRVFSANPDRQAEDAVQAQYAEEVKKLKSANEQEIGGVKV------SDDGIVRVFSANP 272
+V +F+AN + A AVQ + ++ + G KV + G F+ N
Sbjct: 30 MVSLFAANINLDAATAVQFLLTNKETYIRP---LQAKGTKVLLSILGNHLG--AGFANNL 84
Query: 273 DRQAEDAVQAQYAEEVK 289
A A YA+ +
Sbjct: 85 SDAAAKA----YAKAIV 97
>gnl|CDD|184628 PRK14331, PRK14331, (dimethylallyl)adenosine tRNA
methylthiotransferase; Provisional.
Length = 437
Score = 29.4 bits (66), Expect = 5.3
Identities = 29/109 (26%), Positives = 44/109 (40%), Gaps = 17/109 (15%)
Query: 223 FSANPDR--QAEDA--VQAQYAEEVKKLKSANEQEIGGVKVSDDGIVRVFSANPDRQAED 278
F A DR + D + +Y E+++ LK + I + S D IV P ED
Sbjct: 262 FQAGSDRILKLMDRGYTKEEYLEKIELLK----EYIPDITFSTDIIV----GFPTETEED 313
Query: 279 AVQAQYAEEVKKLKSANEQEIGGVKVSDLPGKEVLYEPGKADGDVKMVR 327
+ E + LK +++ K S PG Y G+ +VK R
Sbjct: 314 -----FEETLDVLKKVEFEQVFSFKYSPRPGTPAAYMEGQEPDEVKTKR 357
>gnl|CDD|215382 PLN02712, PLN02712, arogenate dehydrogenase.
Length = 667
Score = 29.2 bits (65), Expect = 6.7
Identities = 14/24 (58%), Positives = 18/24 (75%)
Query: 325 MVREGSTVVAYSWSEASREWNKLG 348
MV++G TV+AYS S+ S E KLG
Sbjct: 388 MVKQGHTVLAYSRSDYSDEAQKLG 411
>gnl|CDD|237551 PRK13902, alaS, alanyl-tRNA synthetase; Provisional.
Length = 900
Score = 29.0 bits (66), Expect = 8.9
Identities = 25/92 (27%), Positives = 41/92 (44%), Gaps = 12/92 (13%)
Query: 217 DGIVR-VFSANPDRQAEDAVQAQYAEEVKKLKSANEQEIGGVKVSD--DGIVRVFSANPD 273
DG+ R F+A A + +Q LK A EI GV + R F +
Sbjct: 721 DGVERLEFAAGD--AAVEYIQELE----DLLKEA--AEILGVPPEQLPKTVERFFEEWKE 772
Query: 274 RQAE-DAVQAQYAEEVKKLKSANEQEIGGVKV 304
++ E + ++ + AE + + +E+GGVKV
Sbjct: 773 QKKEIEKLRKELAELLASELLSKAEEVGGVKV 804
>gnl|CDD|223756 COG0684, MenG, Demethylmenaquinone methyltransferase [Coenzyme
metabolism].
Length = 210
Score = 28.4 bits (64), Expect = 9.3
Identities = 16/52 (30%), Positives = 26/52 (50%), Gaps = 7/52 (13%)
Query: 203 VAILPNSDIVTGSSDGIVRVFSANPDRQAEDAVQAQYAEEVKKLKSANEQEI 254
V + P DIV +DG+V V P A++ +A A+E+K + + I
Sbjct: 149 VTVNPG-DIVVADADGVVVV----PAELADEVAEA--AKEIKAKEDFIREAI 193
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
0.315 0.130 0.393
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: 27,500,909
Number of extensions: 2607887
Number of successful extensions: 2493
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2416
Number of HSP's successfully gapped: 42
Length of query: 557
Length of database: 10,937,602
Length adjustment: 102
Effective length of query: 455
Effective length of database: 6,413,494
Effective search space: 2918139770
Effective search space used: 2918139770
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 (21.6 bits)
S2: 62 (27.7 bits)