RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7433
(213 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 = 89.7 bits (223), Expect = 1e-21
Identities = 50/216 (23%), Positives = 80/216 (37%), Gaps = 34/216 (15%)
Query: 2 TYQCHNKITSDFVFLGSCSLVATAGHSSESKNVCLWDSLLPQKKALVQAFVCHDQGASSL 61
T H S F ++++ SS K + +WD + K + H +S+
Sbjct: 88 TLTGHTSYVSSVAFSPDGRILSS---SSRDKTIKVWD--VETGK-CLTTLRGHTDWVNSV 141
Query: 62 VFAPQHQLLISAGKKGDICVIDLRQRVIRSRFNAHESPVKCLAIDPHEEFFVTGAGDGDI 121
F+P + S+ + G I + DLR + H V +A P E ++ + DG I
Sbjct: 142 AFSPDGTFVASSSQDGTIKLWDLRTGKCVATLTGHTGEVNSVAFSPDGEKLLSSSSDGTI 201
Query: 122 K-----------------SPVKCLAIDPHEEFFVTGAGDGDIKVWSLSGNHLLYNFPGEH 164
K + V +A P +G+ DG I+VW L + G
Sbjct: 202 KLWDLSTGKCLGTLRGHENGVNSVAFSPDGYLLASGSEDGTIRVWDLRTGECVQTLSGHT 261
Query: 165 ARSSFFKHIGQGVTQLHVD-GGSRLFSCGADGSMKV 199
VT L G RL S ADG++++
Sbjct: 262 NS----------VTSLAWSPDGKRLASGSADGTIRI 287
Score = 89.3 bits (222), Expect = 2e-21
Identities = 46/190 (24%), Positives = 69/190 (36%), Gaps = 31/190 (16%)
Query: 28 SSESKNVCLWDSLLPQKKALVQAFVCHDQGASSLVFAPQHQLLISAGKKGDICVIDLRQR 87
S K + LWD + V+ H SS+ F+P ++L S+ + I V D+
Sbjct: 69 GSSDKTIRLWDL---ETGECVRTLTGHTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETG 125
Query: 88 VIRSRFNAHESPVKCLAIDPHEEFFVTGAGDGDIK-----------------SPVKCLAI 130
+ H V +A P F + + DG IK V +A
Sbjct: 126 KCLTTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGKCVATLTGHTGEVNSVAF 185
Query: 131 DPHEEFFVTGAGDGDIKVWSLSGNHLLYNFPGEHARSSFFKHIGQGVTQLHVDGGSRLF- 189
P E ++ + DG IK+W LS L G H GV + L
Sbjct: 186 SPDGEKLLSSSSDGTIKLWDLSTGKCLGTLRG-H---------ENGVNSVAFSPDGYLLA 235
Query: 190 SCGADGSMKV 199
S DG+++V
Sbjct: 236 SGSEDGTIRV 245
Score = 68.5 bits (168), Expect = 7e-14
Identities = 36/171 (21%), Positives = 58/171 (33%), Gaps = 28/171 (16%)
Query: 47 LVQAFVCHDQGASSLVFAPQHQLLISAGKKGDICVIDLRQRVIRSRFNAHESPVKCLAID 106
L + H G + + F+P +LL + G I V DL + H PV+ +A
Sbjct: 1 LRRTLKGHTGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAAS 60
Query: 107 PHEEFFVTGAGDGDIK-----------------SPVKCLAIDPHEEFFVTGAGDGDIKVW 149
+ +G+ D I+ S V +A P + + D IKVW
Sbjct: 61 ADGTYLASGSSDKTIRLWDLETGECVRTLTGHTSYVSSVAFSPDGRILSSSSRDKTIKVW 120
Query: 150 SLSGNHLLYNFPGEHARSSFFKHIGQGVTQLHVDGGSR-LFSCGADGSMKV 199
+ L G H V + + S DG++K+
Sbjct: 121 DVETGKCLTTLRG-HTDW---------VNSVAFSPDGTFVASSSQDGTIKL 161
Score = 65.4 bits (160), Expect = 8e-13
Identities = 41/167 (24%), Positives = 65/167 (38%), Gaps = 23/167 (13%)
Query: 1 MTYQCHNKITSDFVFLGSCSLVATAGHSSESKNVCLWDSLLPQKKALVQAFVCHDQGASS 60
T + H + F + VA+ SS+ + LWD L K V H +S
Sbjct: 129 TTLRGHTDWVNSVAFSPDGTFVAS---SSQDGTIKLWD--LRTGK-CVATLTGHTGEVNS 182
Query: 61 LVFAPQHQLLISAGKKGDICVIDLRQRVIRSRFNAHESPVKCLAIDPHEEFFVTGAGDGD 120
+ F+P + L+S+ G I + DL HE+ V +A P +G+ DG
Sbjct: 183 VAFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTLRGHENGVNSVAFSPDGYLLASGSEDGT 242
Query: 121 IK-----------------SPVKCLAIDPHEEFFVTGAGDGDIKVWS 150
I+ + V LA P + +G+ DG I++W
Sbjct: 243 IRVWDLRTGECVQTLSGHTNSVTSLAWSPDGKRLASGSADGTIRIWD 289
>gnl|CDD|225201 COG2319, COG2319, FOG: WD40 repeat [General function prediction
only].
Length = 466
Score = 62.8 bits (151), Expect = 1e-11
Identities = 53/225 (23%), Positives = 84/225 (37%), Gaps = 31/225 (13%)
Query: 1 MTYQCHNKITSDFVFLGSCSLVATAGHSSESKNVCLWDSLLPQKKALVQAFVCHDQGASS 60
T + H++ + F L+A+ SS + LWD + + H SS
Sbjct: 149 RTLEGHSESVTSLAFSPDGKLLASG--SSLDGTIKLWDL---RTGKPLSTLAGHTDPVSS 203
Query: 61 LVFAPQHQLLI-SAGKKGDICVIDLRQ-RVIRSRFNAHESPVKCLAIDPHEEFFVTGAGD 118
L F+P LLI S G I + DL +++RS + H V + P +G+ D
Sbjct: 204 LAFSPDGGLLIASGSSDGTIRLWDLSTGKLLRSTLSGHSDSV-VSSFSPDGSLLASGSSD 262
Query: 119 GDIK------------------SPVKCLAIDPHEEFFVTGAGDGDIKVWSLSGNHLLYNF 160
G I+ S V +A P + +G+ DG +++W L LL +
Sbjct: 263 GTIRLWDLRSSSSLLRTLSGHSSSVLSVAFSPDGKLLASGSSDGTVRLWDLETGKLLSSL 322
Query: 161 PGE-HARS----SFFKHIGQGVTQLHVDGGSRLFSCGADGSMKVR 200
+ H SF V+ DG RL+ +K
Sbjct: 323 TLKGHEGPVSSLSFSPDGSLLVSGGSDDGTIRLWDLRTGKPLKTL 367
Score = 43.5 bits (101), Expect = 3e-05
Identities = 33/150 (22%), Positives = 52/150 (34%), Gaps = 18/150 (12%)
Query: 28 SSESKNVCLWDSLLPQKKALVQAFVCHDQGASSLVFAPQHQLLISAGKKGDICVIDLRQR 87
S V LWD L K H+ SSL F+P LL+S G + +
Sbjct: 302 GSSDGTVRLWD-LETGKLLSSLTLKGHEGPVSSLSFSPDGSLLVSGGSDDGTIRLWDLRT 360
Query: 88 VIRSRFNAHESPVKCLAIDPHEEFFVTGAGDGDIK-----------------SPVKCLAI 130
+ S V ++ P +G+ DG ++ S V L
Sbjct: 361 GKPLKTLEGHSNVLSVSFSPDGRVVSSGSTDGTVRLWDLSTGSLLRNLDGHTSRVTSLDF 420
Query: 131 DPHEEFFVTGAGDGDIKVWSLSGNHLLYNF 160
P + +G+ D I++W L + +F
Sbjct: 421 SPDGKSLASGSSDNTIRLWDLKTSLKSVSF 450
Score = 35.8 bits (81), Expect = 0.013
Identities = 24/92 (26%), Positives = 37/92 (40%), Gaps = 6/92 (6%)
Query: 122 KSPVKCLAIDPHEEFFVTGAGDGDIKVWSLSGNHLLYNFPGEHARSSFFKHIGQGVTQLH 181
+ + +A P E ++G+ DG IK+W L L SS K
Sbjct: 65 EDSITSIAFSPDGELLLSGSSDGTIKLWDLDNGEKLIKSLEGLHDSSVSKLALS-----S 119
Query: 182 VDGGSRLFSCG-ADGSMKVRQLPDRDAVVHTL 212
DG S L + DG++K+ L ++ TL
Sbjct: 120 PDGNSILLASSSLDGTVKLWDLSTPGKLIRTL 151
>gnl|CDD|201208 pfam00400, WD40, WD domain, G-beta repeat.
Length = 39
Score = 36.2 bits (84), Expect = 5e-04
Identities = 9/29 (31%), Positives = 14/29 (48%)
Query: 122 KSPVKCLAIDPHEEFFVTGAGDGDIKVWS 150
PV +A P +G+ DG ++VW
Sbjct: 11 TGPVTSVAFSPDGNLLASGSDDGTVRVWD 39
Score = 35.4 bits (82), Expect = 9e-04
Identities = 8/30 (26%), Positives = 13/30 (43%)
Query: 93 FNAHESPVKCLAIDPHEEFFVTGAGDGDIK 122
H PV +A P +G+ DG ++
Sbjct: 7 LKGHTGPVTSVAFSPDGNLLASGSDDGTVR 36
Score = 27.3 bits (61), Expect = 0.82
Identities = 11/37 (29%), Positives = 17/37 (45%)
Query: 47 LVQAFVCHDQGASSLVFAPQHQLLISAGKKGDICVID 83
L++ H +S+ F+P LL S G + V D
Sbjct: 3 LLRTLKGHTGPVTSVAFSPDGNLLASGSDDGTVRVWD 39
>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 = 36.1 bits (84), Expect = 6e-04
Identities = 10/29 (34%), Positives = 16/29 (55%)
Query: 122 KSPVKCLAIDPHEEFFVTGAGDGDIKVWS 150
PV +A P ++ +G+ DG IK+W
Sbjct: 12 TGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
Score = 35.4 bits (82), Expect = 0.001
Identities = 10/30 (33%), Positives = 15/30 (50%)
Query: 93 FNAHESPVKCLAIDPHEEFFVTGAGDGDIK 122
H PV +A P ++ +G+ DG IK
Sbjct: 8 LKGHTGPVTSVAFSPDGKYLASGSDDGTIK 37
Score = 28.4 bits (64), Expect = 0.30
Identities = 10/37 (27%), Positives = 17/37 (45%)
Query: 47 LVQAFVCHDQGASSLVFAPQHQLLISAGKKGDICVID 83
L++ H +S+ F+P + L S G I + D
Sbjct: 4 LLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
Score = 25.0 bits (55), Expect = 5.9
Identities = 8/38 (21%), Positives = 14/38 (36%), Gaps = 3/38 (7%)
Query: 1 MTYQCHNKITSDFVFLGSCSLVATAGHSSESKNVCLWD 38
T + H + F +A+ S+ + LWD
Sbjct: 6 KTLKGHTGPVTSVAFSPDGKYLASG---SDDGTIKLWD 40
>gnl|CDD|225852 COG3315, COG3315, O-Methyltransferase involved in polyketide
biosynthesis [Secondary metabolites biosynthesis,
transport, and catabolism].
Length = 297
Score = 29.6 bits (67), Expect = 1.0
Identities = 17/109 (15%), Positives = 29/109 (26%), Gaps = 28/109 (25%)
Query: 81 VIDLRQRVIRSRFNAHESPVKCLAIDPHEEFFVTGAGDGDIKSPVKCLAIDPHEEFFVTG 140
VI+ +++++ R + + +A+D + D
Sbjct: 126 VIEFKKKLLAERGATPPAHRRLVAVD----LREDDWPQ-----ALAAAGFDRSRPTL--- 173
Query: 141 AGDGDIKVWSLSGNHLLYNFPGEHARSSFFKHIGQGVTQLHVDGGSRLF 189
W G LL P E A I GSR+
Sbjct: 174 --------WIAEG--LLMYLP-EEAVDRLLSRIAA-----LSAPGSRVA 206
>gnl|CDD|234377 TIGR03866, PQQ_ABC_repeats, PQQ-dependent catabolism-associated
beta-propeller protein. Members of this protein family
consist of seven repeats each of the YVTN family
beta-propeller repeat (see TIGR02276). Members occur
invariably as part of a transport operon that is
associated with PQQ-dependent catabolism of alcohols
such as phenylethanol.
Length = 300
Score = 28.5 bits (64), Expect = 2.3
Identities = 13/33 (39%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 61 LVFAP-QHQLLISAGKKGDICVIDL-RQRVIRS 91
L F P + +LL + G D+ VID+ +VI+S
Sbjct: 254 LAFTPDEKRLLTTNGVSNDVSVIDVAALKVIKS 286
>gnl|CDD|218518 pfam05238, CENP-N, Kinetochore protein CHL4 like. CHL4 is a
protein involved in chromosome segregation. It is a
component of the central kinetochore which mediates the
attachment of the centromere to the mitotic spindle.
CENP-N is one of the components that assembles onto the
CENP-A-nucleosome-associated (NAC) centromere. The
centromere, which is the basic element of chromosome
inheritance, is epigenetically determined in mammals.
CENP-A, the centromere-specific histone H3 variant,
assembles an array of nucleosomes and it is this that
seems to be the prime candidate for specifying
centromere identity. CENP-A nucleosomes directly recruit
a proximal CENP-A nucleosome associated complex (NAC)
comprised of CENP-M, CENP-N and CENP-T, CENP-U(50),
CENP-C and CENP-H. Assembly of the CENP-A NAC at
centromeres is dependent on CENP-M, CENP-N and CENP-T.
Additionally, there are seven other subunits which make
up the CENP-A-nucleosome distal (CAD) centromere,
CENP-K, CENP-L, CENP-O, CENP-P, CENP-Q, CENP-R and
CENP-S, also assembling on the CENP-A NAC.
Length = 390
Score = 28.1 bits (63), Expect = 4.0
Identities = 12/73 (16%), Positives = 27/73 (36%), Gaps = 6/73 (8%)
Query: 85 RQRVIRSRFNAHESPVKCLAIDPHEEFFVTGAGDGDIKSPVKCLAIDPHEEFFVTGAGDG 144
R+R+ + RF SP ++ + + D + + ++ E+
Sbjct: 289 RKRIAQERFGGSPSPKDSSELERLQY-KLETPFDSNSNEGDTEIKVEILED----DKEPP 343
Query: 145 DIKVWSLSGNHLL 157
IK+ SG+ +
Sbjct: 344 RIKL-KFSGSDVF 355
>gnl|CDD|173611 PTZ00421, PTZ00421, coronin; Provisional.
Length = 493
Score = 27.5 bits (61), Expect = 5.9
Identities = 28/96 (29%), Positives = 38/96 (39%), Gaps = 7/96 (7%)
Query: 4 QCHNKITSDFVFLGSCSLV-ATAGHSSESKNVCLWDSLLPQKKALVQAFVCHDQGASSLV 62
Q H K F S V A+AG V +WD ++ V+ CH +SL
Sbjct: 122 QGHTKKVGIVSFHPSAMNVLASAGADMV---VNVWDV---ERGKAVEVIKCHSDQITSLE 175
Query: 63 FAPQHQLLISAGKKGDICVIDLRQRVIRSRFNAHES 98
+ LL + K + +ID R I S AH S
Sbjct: 176 WNLDGSLLCTTSKDKKLNIIDPRDGTIVSSVEAHAS 211
>gnl|CDD|223324 COG0246, MtlD, Mannitol-1-phosphate/altronate dehydrogenases
[Carbohydrate transport and metabolism].
Length = 473
Score = 27.3 bits (61), Expect = 7.7
Identities = 15/74 (20%), Positives = 20/74 (27%), Gaps = 8/74 (10%)
Query: 67 HQLLISAGKKGDICVIDLRQRVIRSRFNA-HESPVKCL-AIDPHEEFFVTGA------GD 118
LL G I +DL +R NA E + G+
Sbjct: 36 DDLLAEGGFNDGIVFVDLNDDDVRDALNAQDGLYTLVERGSAGGTEAEIVGSVIAVLSAP 95
Query: 119 GDIKSPVKCLAIDP 132
D V A +P
Sbjct: 96 EDEPEAVLAAAANP 109
>gnl|CDD|234903 PRK01115, PRK01115, DNA polymerase sliding clamp; Validated.
Length = 247
Score = 26.7 bits (60), Expect = 8.7
Identities = 9/37 (24%), Positives = 19/37 (51%), Gaps = 1/37 (2%)
Query: 134 EEFFVTGAGDGDIKVWSLSGNHLLYNF-PGEHARSSF 169
++F++ G+G+ +V + L E A+SS+
Sbjct: 162 DKFYIEAEGEGEDEVELSLDSGPLIELSVEEPAKSSY 198
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
0.322 0.138 0.431
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: 10,723,141
Number of extensions: 985641
Number of successful extensions: 705
Number of sequences better than 10.0: 1
Number of HSP's gapped: 683
Number of HSP's successfully gapped: 23
Length of query: 213
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 120
Effective length of database: 6,812,680
Effective search space: 817521600
Effective search space used: 817521600
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 (21.9 bits)
S2: 57 (25.7 bits)