RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12638
(334 letters)
>gnl|CDD|147776 pfam05804, KAP, Kinesin-associated protein (KAP). This family
consists of several eukaryotic kinesin-associated (KAP)
proteins. Kinesins are intracellular multimeric
transport motor proteins that move cellular cargo on
microtubule tracks. It has been shown that the sea
urchin KRP85/95 holoenzyme associates with a KAP115
non-motor protein, forming a heterotrimeric complex in
vitro, called the Kinesin-II.
Length = 708
Score = 268 bits (687), Expect = 2e-84
Identities = 138/319 (43%), Positives = 191/319 (59%), Gaps = 39/319 (12%)
Query: 55 RKLSVYHVNKEQMANLNLIEKLPRILMIEDSNLQSSTLKLLFNLSFDTNLREKIIKIGFL 114
+KLS++ NK +M +IEKL ++ + +L + TL+LLFNLSFDT LR K++ G L
Sbjct: 311 KKLSIFDENKNEMEENGIIEKLLKLFPCQHEDLLNITLRLLFNLSFDTGLRPKMVNGGLL 370
Query: 115 PKLVSLLEEGKHQKIILQLLYHLSIEDRVKAMFAYTNCMSLLMNMLLVEQDDETDNVLVA 174
PKLVSLL+ H I L +LYHLS +D+ K+MFAYT+C+ +LM M+L + D L+A
Sbjct: 371 PKLVSLLDNDNHHGIALCVLYHLSCDDKAKSMFAYTDCIPMLMKMVLEGTGERVDLELIA 430
Query: 175 LCINLALNSRNAELMLKNRQLELLMIQAFTQKNILLLKVIRNMSIHSN-VKHYFVDYIGD 233
LCINLALN RNA+L+ + + L+LLM +A ++ LL+K+IRN+S H ++ F+DYIGD
Sbjct: 431 LCINLALNKRNAQLICEGQGLDLLMERALKFRDPLLMKMIRNISQHEGPTQNQFIDYIGD 490
Query: 234 IANCVQKEKDENIKLECLGT--------------------------------------LE 255
+A ++ E DE +ECLGT LE
Sbjct: 491 LARIIKNESDEEFVVECLGTLANLTIPDLDWEKIIQEFNLVPWIKTKLQPGAAEDDLVLE 550
Query: 256 VINFIGTAASDPISAEHFCKNSTVDLLINLLKEMQEDDEIVLQILYVFYQICRHASCQNY 315
V+ GT A D A K+ +D LI LL QEDDE V QI+YVFYQ+ H + +
Sbjct: 551 VVIACGTVARDDSCAALLAKSGIIDSLIELLNAKQEDDEFVCQIIYVFYQMLFHEATREV 610
Query: 316 LIKETDAPAYMIDLLNDGN 334
+IKET APAY+IDL++D N
Sbjct: 611 MIKETQAPAYLIDLMHDKN 629
Score = 34.8 bits (80), Expect = 0.067
Identities = 46/212 (21%), Positives = 85/212 (40%), Gaps = 14/212 (6%)
Query: 78 RILMIEDSNLQSSTLKLLFNLSFDTNLREKIIKIGFLPKLVSLLEEGKHQKIIL--QLLY 135
+ L+ + L LL NL+ D + K+ + + LV L+ + +IL L
Sbjct: 252 KGLIKKQEQLLRVAFYLLLNLAEDIKVELKMRRKNIVALLVKALDRDNSELLILVVSFLK 311
Query: 136 HLSIEDRVKAMFAYTNCMSLLMNMLLVEQDDETDNVLVALCINLALNSRNAELMLKNRQL 195
LSI D K + L+ + Q ++ N+ + L NL+ ++ M+ L
Sbjct: 312 KLSIFDENKNEMEENGIIEKLLKLFPC-QHEDLLNITLRLLFNLSFDTGLRPKMVNGGLL 370
Query: 196 -ELLMIQAFTQKNILLLKVIRNMSIHSNVKHYFVDYIGDIANCVQKEKDENIKLECLG-- 252
+L+ + + + L V+ ++S K F +C+ LE G
Sbjct: 371 PKLVSLLDNDNHHGIALCVLYHLSCDDKAKSMFA-----YTDCIPMLMKM--VLEGTGER 423
Query: 253 -TLEVINFIGTAASDPISAEHFCKNSTVDLLI 283
LE+I A + +A+ C+ +DLL+
Sbjct: 424 VDLELIALCINLALNKRNAQLICEGQGLDLLM 455
Score = 29.8 bits (67), Expect = 2.3
Identities = 40/172 (23%), Positives = 73/172 (42%), Gaps = 11/172 (6%)
Query: 61 HVNKEQMANLNLIEKLPRILMIE-DSNLQSSTLKLLFNLSFDTNLREKIIK-IGFLPKLV 118
H Q ++ I L RI+ E D L L NL+ EKII+ +P +
Sbjct: 476 HEGPTQNQFIDYIGDLARIIKNESDEEFVVECLGTLANLTIPDLDWEKIIQEFNLVPWIK 535
Query: 119 SLLEEG-KHQKIILQLLYHL---SIEDRVKAMFAYTNCMSLLMNMLLVEQ-DDETDNVLV 173
+ L+ G ++L+++ + +D A+ A + + L+ +L +Q DDE ++
Sbjct: 536 TKLQPGAAEDDLVLEVVIACGTVARDDSCAALLAKSGIIDSLIELLNAKQEDDEFVCQII 595
Query: 174 ALCINLALNSRNAELMLKNRQLELLMIQAFTQKNILLLKVIRN----MSIHS 221
+ + + E+M+K Q +I KN + KV N ++ H
Sbjct: 596 YVFYQMLFHEATREVMIKETQAPAYLIDLMHDKNAEIRKVCDNTLDIIAEHD 647
>gnl|CDD|237987 cd00020, ARM, Armadillo/beta-catenin-like repeats. An approximately
40 amino acid long tandemly repeated sequence motif
first identified in the Drosophila segment polarity gene
armadillo; these repeats were also found in the
mammalian armadillo homolog beta-catenin, the junctional
plaque protein plakoglobin, the adenomatous polyposis
coli (APC) tumor suppressor protein, and a number of
other proteins. ARM has been implicated in mediating
protein-protein interactions, but no common features
among the target proteins recognized by the ARM repeats
have been identified; related to the HEAT domain; three
consecutive copies of the repeat are represented by this
alignment model.
Length = 120
Score = 41.5 bits (98), Expect = 6e-05
Identities = 30/120 (25%), Positives = 48/120 (40%), Gaps = 5/120 (4%)
Query: 65 EQMANLNLIEKLPRILMIEDSNLQSSTLKLLFNLSFDTN-LREKIIKIGFLPKLVSLLEE 123
E + + L +L D N+Q L NLS N + +++ G LP LV LL+
Sbjct: 1 EAVIQAGGLPALVSLLSSSDENVQREAAWALSNLSAGNNDNIQAVVEAGGLPALVQLLKS 60
Query: 124 GKH--QKIILQLLYHLSI-EDRVKAMFAYTNCMSLLMNMLLVEQDDETDNVLVALCINLA 180
K L L +L+ + K + + L+N LL +++ NLA
Sbjct: 61 EDEEVVKAALWALRNLAAGPEDNKLIVLEAGGVPKLVN-LLDSSNEDIQKNATGALSNLA 119
Score = 39.6 bits (93), Expect = 3e-04
Identities = 21/79 (26%), Positives = 36/79 (45%), Gaps = 3/79 (3%)
Query: 63 NKEQMANLNLIEKLPRILMIEDSNLQSSTLKLLFNLSFDTNLREKIIKI-GFLPKLVSLL 121
N + + + L ++L ED + + L L NL+ + I+ G +PKLV+LL
Sbjct: 41 NIQAVVEAGGLPALVQLLKSEDEEVVKAALWALRNLAAGPEDNKLIVLEAGGVPKLVNLL 100
Query: 122 E--EGKHQKIILQLLYHLS 138
+ QK L +L+
Sbjct: 101 DSSNEDIQKNATGALSNLA 119
Score = 32.3 bits (74), Expect = 0.11
Identities = 24/90 (26%), Positives = 38/90 (42%), Gaps = 4/90 (4%)
Query: 106 EKIIKIGFLPKLVSLLEEG--KHQKIILQLLYHLSIEDR-VKAMFAYTNCMSLLMNMLLV 162
E +I+ G LP LVSLL Q+ L +LS + + L+ +L
Sbjct: 1 EAVIQAGGLPALVSLLSSSDENVQREAAWALSNLSAGNNDNIQAVVEAGGLPALVQLLKS 60
Query: 163 EQDDETDNVLVALCINLALNSRNAELMLKN 192
E ++ L AL NLA + +L++
Sbjct: 61 EDEEVVKAALWALR-NLAAGPEDNKLIVLE 89
Score = 32.3 bits (74), Expect = 0.12
Identities = 19/95 (20%), Positives = 39/95 (41%), Gaps = 7/95 (7%)
Query: 240 KEKDENIKLECLGTLEVINFIGTAASDPISAEHFCKNSTVDLLINLLKEMQEDDEIVLQI 299
DEN++ E L + +A + + + + + L+ LLK ED+E+V
Sbjct: 17 SSSDENVQREAAWALSNL-----SAGNNDNIQAVVEAGGLPALVQLLKS--EDEEVVKAA 69
Query: 300 LYVFYQICRHASCQNYLIKETDAPAYMIDLLNDGN 334
L+ + ++ E +++LL+ N
Sbjct: 70 LWALRNLAAGPEDNKLIVLEAGGVPKLVNLLDSSN 104
>gnl|CDD|214547 smart00185, ARM, Armadillo/beta-catenin-like repeats. Approx. 40
amino acid repeat. Tandem repeats form superhelix of
helices that is proposed to mediate interaction of
beta-catenin with its ligands. Involved in transducing
the Wingless/Wnt signal. In plakoglobin arm repeats bind
alpha-catenin and N-cadherin.
Length = 41
Score = 28.9 bits (66), Expect = 0.32
Identities = 10/38 (26%), Positives = 16/38 (42%)
Query: 63 NKEQMANLNLIEKLPRILMIEDSNLQSSTLKLLFNLSF 100
NK+ + + + L +L ED + L NLS
Sbjct: 4 NKQAVVDAGGLPALVELLKSEDEEVVKEAAWALSNLSS 41
>gnl|CDD|217434 pfam03224, V-ATPase_H_N, V-ATPase subunit H. The yeast
Saccharomyces cerevisiae vacuolar H+-ATPase (V-ATPase)
is a multisubunit complex responsible for acidifying
organelles. It functions as an ATP dependent proton pump
that transports protons across a lipid bilayer. This
domain corresponds to the N terminal domain of the H
subunit of V-ATPase. The N-terminal domain is required
for the activation of the complex whereas the C-terminal
domain is required for coupling ATP hydrolysis to proton
translocation.
Length = 312
Score = 29.5 bits (67), Expect = 2.2
Identities = 13/55 (23%), Positives = 22/55 (40%)
Query: 83 EDSNLQSSTLKLLFNLSFDTNLREKIIKIGFLPKLVSLLEEGKHQKIILQLLYHL 137
LQ ++ L L R+ + + L+ +L+ G K LQL Y+
Sbjct: 162 STLGLQYIAVRCLQELLRVKEYRKLFWESDGVSTLIDILQAGSSNKSGLQLQYYT 216
>gnl|CDD|227396 COG5064, SRP1, Karyopherin (importin) alpha [Intracellular
trafficking and secretion].
Length = 526
Score = 29.5 bits (66), Expect = 3.1
Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 1/52 (1%)
Query: 75 KLPRILMIEDSNLQSSTLKLLFNLSFDTNLREK-IIKIGFLPKLVSLLEEGK 125
+L +L E + +Q+ L+ + N+ ++ + + II G L SLL K
Sbjct: 289 RLVELLSHESAKIQTPALRSVGNIVTGSDDQTQVIINCGALKAFRSLLSSPK 340
>gnl|CDD|218281 pfam04826, Arm_2, Armadillo-like. This domain contains
armadillo-like repeats. Proteins containing this domain
interact with numerous other proteins, through these
interactions they are involved in a wide variety of
processes including carcinogenesis, control of cellular
ageing and survival, regulation of circadian rhythm and
lysosomal sorting of G protein-coupled receptors.
Length = 254
Score = 28.5 bits (64), Expect = 4.5
Identities = 22/99 (22%), Positives = 45/99 (45%), Gaps = 8/99 (8%)
Query: 211 LKVIRNMSIHSNVKHYFVDYIGDIANCVQKEKDENIKLECLGTLEVINFIGTAASDPISA 270
L+++ N+++ ++ +H V YI D + + K++ L L ++ + +SA
Sbjct: 116 LRLLTNLTVTNDYQHLVVSYISDFFRLLSL-GNGKTKVQVLKVLLNLSENPAMTRELLSA 174
Query: 271 EHFCKNSTVDLLINLLKEMQEDDEIVLQILYVFYQICRH 309
+ V + L +E EI+L+ L +F I H
Sbjct: 175 Q-------VPSSLLSLFNKKEAKEILLRALTLFENINDH 206
>gnl|CDD|165247 PHA02937, PHA02937, hypothetical protein; Provisional.
Length = 310
Score = 28.0 bits (62), Expect = 6.6
Identities = 23/119 (19%), Positives = 46/119 (38%), Gaps = 20/119 (16%)
Query: 61 HVNKEQMANLNLIEKLPRILMIEDSNLQSSTLKLLFNLSFD--TNLREKIIK-------- 110
VN L ++ + +MIE ++ T+K+L N+ + L +++
Sbjct: 159 KVNNA----LEILSTIETKIMIEFRLVKDETIKMLLNVLLELAKILMKELQNFREEKIEI 214
Query: 111 ------IGFLPKLVSLLEEGKHQKIILQLLYHLSIEDRVKAMFAYTNCMSLLMNMLLVE 163
I FL K+ LLE+ + L+ + + K Y + +L++E
Sbjct: 215 TSANDIILFLKKISQLLEDSALFTHLANLIDEIDEDVHEKLSIQYLADQAYESLLLILE 273
>gnl|CDD|220789 pfam10508, Proteasom_PSMB, Proteasome non-ATPase 26S subunit. The
26S proteasome, a eukaryotic ATP-dependent, dumb-bell
shaped, protease complex with a molecular mass of approx
20kDa consists of a central 20S proteasome,functioning
as a catalytic machine, and two large V-shaped terminal
modules, having possible regulatory roles,composed of
multiple subunits of 25- 110 kDa attached to the central
portion in opposite orientations. It is responsible for
degradation of abnormal intracellular proteins,
including oxidatively damaged proteins, and may play a
role as a component of a cellular anti-oxidative system.
Expression of catalytic core subunits including PSMB5
and peptidase activities of the proteasome were elevated
following incubation with 3-methylcholanthrene. The 20S
proteasome comprises a cylindrical stack of four rings,
two outer rings formed by seven alpha-subunits
(alpha1-alpha7) and two inner rings of seven
beta-subunits (beta1-beta7). Two outer rings of alpha
subunits maintain structure, while the central beta
rings contain the proteolytic active core subunits beta1
(PSMB6), beta2 (PSMB7), and beta5 (PSMB5). Expression of
PSMB5 can be altered by chemical reactants, such as
3-methylcholanthrene.
Length = 504
Score = 28.2 bits (63), Expect = 7.6
Identities = 49/266 (18%), Positives = 96/266 (36%), Gaps = 50/266 (18%)
Query: 67 MANLNLIEKLPRILMIEDSNLQSSTLKLLFNLSFDTNLREKIIKIGFLPKLVSLLEEGKH 126
L++KL + L ED +Q S L+LL +L+ + E +I+ G + K+ +L++ +
Sbjct: 201 CWESGLLKKLLKELDGEDVLVQLSVLELLTDLAEGNHGAEYLIQNGVVDKISNLIQGVEE 260
Query: 127 QKIILQLLY-------HLSIEDRVKAMFAYTNCMSLLMNMLLVEQDDETDNVLVALCI-N 178
+ L L+ + + Y + + L +ML + +D T +
Sbjct: 261 DPLGAMYLPGIMKFFGKLATMSPPQVIQTYPDFLERLFSML--DSEDPTILPTALDTLGL 318
Query: 179 LALNSRNAELMLKNRQLELLMIQAFTQKNILLLKVIRNMSIHSNVKHYFVDYIGDIANCV 238
LA + +L+ M S + + G
Sbjct: 319 LASSVEGKQLL---------------------------MFKTSGALEHTLKAAGA----H 347
Query: 239 QKEKDENIKLECLGTLEVINFIGT-AASDPISA------EHFCKNSTVDLLINLLKEMQE 291
Q +K L L I + T A++ I E + + ++L+++++K Q
Sbjct: 348 QTMLSVELKKRALQALTSIFYFATEQATEDILNITKSWYELLARKALLNLILDVIK--QP 405
Query: 292 DDEIVLQILYVFYQICRHASCQNYLI 317
E+ L I ++ Q LI
Sbjct: 406 FPELRCAALRFLTAIAKYPWGQTLLI 431
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 0.137 0.391
Gapped
Lambda K H
0.267 0.0877 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 16,442,576
Number of extensions: 1581536
Number of successful extensions: 1192
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1186
Number of HSP's successfully gapped: 32
Length of query: 334
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 237
Effective length of database: 6,635,264
Effective search space: 1572557568
Effective search space used: 1572557568
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: 59 (26.2 bits)