RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9800
(486 letters)
>gnl|CDD|217521 pfam03378, CAS_CSE1, CAS/CSE protein, C-terminus. Mammalian
cellular apoptosis susceptibility (CAS) proteins are
homologous to the yeast chromosome-segregation protein,
CSE1. This family aligns the C-terminal halves
(approximately). CAS is involved in both cellular
apoptosis and proliferation. Apoptosis is inhibited in
CAS-depleted cells, while the expression of CAS
correlates to the degree of cellular proliferation. Like
CSE1, it is essential for the mitotic checkpoint in the
cell cycle (CAS depletion blocks the cell in the G2
phase), and has been shown to be associated with the
microtubule network and the mitotic spindle, as is the
protein MEK, which is thought to regulate the
intracellular localisation (predominantly nuclear vs.
predominantly cytosolic) of CAS. In the nucleus, CAS
acts as a nuclear transport factor in the importin
pathway. The importin pathway mediates the nuclear
transport of several proteins that are necessary for
mitosis and further progression. CAS is therefore
thought to affect the cell cycle through its effect on
the nuclear transport of these proteins. Since apoptosis
also requires the nuclear import of several proteins
(such as P53 and transcription factors), it has been
suggested that CAS also enables apoptosis by
facilitating the nuclear import of at least a subset of
these essential proteins.
Length = 435
Score = 390 bits (1004), Expect = e-132
Identities = 175/402 (43%), Positives = 232/402 (57%), Gaps = 36/402 (8%)
Query: 117 DRVLVMRSPNGQGTLVTADVLAPLAADLYKNLLVIFTRPGSEENEYAMKCIMRSMSTLQD 176
+R+L +R GQ + T +AP A DL +L +PGS+ENEY MKCIMR + +Q+
Sbjct: 1 ERLLTLRDEQGQ-PIFTPADIAPFAKDLLTHLFAALEKPGSQENEYLMKCIMRVLIVIQE 59
Query: 177 KVVPYLSDLLFQLTQRLAAAAKNPSKPNYNHFLFEAITLAIRIVCKQNPEAVATFEQALF 236
V+PY +L LT L +KNPS P +NH+LFEAI IR CK +P AV+ FE+ALF
Sbjct: 60 GVLPYADTVLQHLTNILLVVSKNPSNPRFNHYLFEAIGALIRFACKADPAAVSKFEEALF 119
Query: 237 PIFQVIIQQDTLEFLPYTFQILSLLLEFRPRGSISAPYLELYPFLLSPVLWSRPGNIHPL 296
P FQ I+Q+D EF+PY FQ+L+ LLE P G++ Y+ L+P LLSP LW R GN+ L
Sbjct: 120 PPFQAILQEDVTEFMPYVFQLLAQLLEANPSGTLPDYYMALFPPLLSPALWERRGNVPAL 179
Query: 297 VRLLRAFITKSEPSQFSATLKLNNVLGVFQKLIASK------------------------ 332
VRLL AFI K+ + A KL +LG+FQKLIASK
Sbjct: 180 VRLLSAFIPKA-SQEIVAENKLEPILGIFQKLIASKANDHQGFYLLESVIEYFPPEVLEP 238
Query: 333 ----IFVLLFQRLSSSKTAKYSKGLVTFLMFYVINMGATSLIQLIDSIQGSLFSMVAEKL 388
IF LLFQRL +SKT K+ K V F Y GA LIQLID+IQ +F M+ +
Sbjct: 239 YFKTIFSLLFQRLQNSKTEKFKKRFVVFYHLYSAKYGADFLIQLIDAIQPGVFGMIYLNI 298
Query: 389 ILADLQKVSGAVNRKIAAFGLAKLLTEAKEVTEGPYVQ--APLTGALLNLIQLPEDDSTQ 446
IL + QKV+G ++RK+AA KLL E+ + Y + L ALL L++LP D +T
Sbjct: 299 ILPETQKVAGPLDRKLAAVSYTKLLCESPAFAD-RYPKGWGFLLQALLKLLELPPDPATP 357
Query: 447 PEDHFVDIE--NILEYDAAYSKLTFAADKEEYDPLSDIIQVK 486
ED F+D + + Y +++L A KE DP +I VK
Sbjct: 358 DEDEFIDEADVDDMGYGVGFTQLNTAGKKER-DPFPEIPDVK 398
Score = 43.0 bits (102), Expect = 3e-04
Identities = 19/33 (57%), Positives = 23/33 (69%)
Query: 65 ELCPNELLSPHLKQIFVLLFQRLSSSKTAKYSK 97
E P E+L P+ K IF LLFQRL +SKT K+ K
Sbjct: 229 EYFPPEVLEPYFKTIFSLLFQRLQNSKTEKFKK 261
>gnl|CDD|227944 COG5657, CSE1, CAS/CSE protein involved in chromosome segregation
[Cell division and chromosome partitioning].
Length = 947
Score = 109 bits (275), Expect = 2e-25
Identities = 121/508 (23%), Positives = 196/508 (38%), Gaps = 55/508 (10%)
Query: 16 KYKDTAIYLVTSLASQGSTVKHGTTKSSTLVNLEDFAQQHIFPELNKPDELCPNELLSPH 75
D A L + AS G G + +V+ F I+P+L P+E+ +L
Sbjct: 411 NILDEARQLFAAYASFGL----GVEAVNRMVDFVKFLGSIIYPDLLSPNEIIHLRILRSR 466
Query: 76 LKQIFVLLFQRLSSSKTAKYSKVSHLESAHPVVHSYASHAIDRVLVMRSPNGQGTLVT-- 133
+ I Q L SS+ ++ L S V ++ A ID V+++ + T+
Sbjct: 467 IAYILTFRNQ-LDSSELSESK---FLASQFFVNYTTA--CIDAVVLLTTREAYSTIFDDW 520
Query: 134 ---ADVLAPLAADLYKNLLVIFTRPGS-EENEYAMKCIMRSMSTLQDKVVPYLSDLLFQL 189
L +L +L + P S EE E+ ++ I R + + + P S++L L
Sbjct: 521 NFSVCSKIGLLENLILLVLSLMASPSSLEEREFLLQLISRIIIIDPELIAPLGSEILQLL 580
Query: 190 TQRLAAAAKNPSKPNYNHFLFEAITLAIRIVCKQNPEAVATFEQALFPIFQVIIQQDTLE 249
+ AKNPS P + H+ FE I + + + T AL P F V++ +D E
Sbjct: 581 DNLVEINAKNPSNPQFAHYTFEDIGALVFLKSGMCEITIPTLVLALVPEFPVLLSEDATE 640
Query: 250 FLPYTFQILSLLLEFRPRGSISAPYLELYPFLLSPVLWSRPGNIHPLVRLLRAFITKSEP 309
Y Q+LS+L E + + L L+ L I RLL I +
Sbjct: 641 LWSYVLQLLSILPEHFSGDVLPSVVKILRQPSLATELLPTKLEILKSYRLLDNPILTT-- 698
Query: 310 SQFSATLKLNNVLGVFQKLIASK----------------------------IFVLLFQRL 341
+ VLG+ Q L+ S+ IFVLL RL
Sbjct: 699 GYIFKSSGFQPVLGILQYLLGSEPHDALCFLNLTVVETLYLENIYEPYVNLIFVLLLSRL 758
Query: 342 SSSKTAKY-SKGLVTFLMFYV---INMGATSLIQLIDSIQGSLFSMVAEKLILADLQKVS 397
+SKT ++ K + F + + +G +LI I+ + L + IL + +
Sbjct: 759 KNSKTERFVIKIIHVFSLVSFKDSLTVGCDNLISKINQTKNILIVQLYGNWILGFDE-IH 817
Query: 398 GAVNRKIAAFGLAKLL-TEAKEVTEGPYVQAPLTGALLNLIQLPEDDST--QPEDHFVDI 454
+ +RKI GL+ LL T EV V + L + + D+ + D + D
Sbjct: 818 DSKDRKIHLIGLSNLLRTLHPEVLSYVSVTNLIISLLSEIFETASGDAIIYELNDDYADD 877
Query: 455 ENILEYDAAYSKLTFAADKEEYDPLSDI 482
E A A + + DP+ DI
Sbjct: 878 WFDGEISAE-EFSRLAQLEFKVDPVHDI 904
>gnl|CDD|219873 pfam08506, Cse1, Cse1. This domain is present in Cse1 nuclear
export receptor proteins. Cse1 mediates the nuclear
export of importin alpha. This domain contains HEAT
repeats.
Length = 370
Score = 82.0 bits (203), Expect = 6e-17
Identities = 42/142 (29%), Positives = 58/142 (40%), Gaps = 41/142 (28%)
Query: 2 EDKMMGTFGAYVEI-------------KYKDTAIYLVTSLASQGSTVKHGTTKSSTLVNL 48
E + YV+ K KDTAIYL TSLA++G+ K G T ++ LV++
Sbjct: 243 EALVTNIVSEYVQQFLEEYAANPSLNWKAKDTAIYLFTSLAAKGAVTKSGVTSTNPLVDV 302
Query: 49 EDFAQQHIFPELNKPDELCP--------------NELLSPHLKQIFVLLFQRLSSSKTAK 94
DF I P+L P N+L L +IF LL
Sbjct: 303 VDFFTNQIAPDLMANVNQHPILKADAIKYIYTFRNQLPKEQLIEIFPLL----------- 351
Query: 95 YSKVSHLESAHPVVHSYASHAI 116
+ L+S VVH+YA+ I
Sbjct: 352 ---IRFLQSESYVVHTYAAITI 370
>gnl|CDD|184501 PRK14093, PRK14093,
UDP-N-acetylmuramoylalanyl-D-glutamyl-2,
6-diaminopimelate--D-alanyl-D-alanine ligase;
Provisional.
Length = 479
Score = 31.7 bits (72), Expect = 0.97
Identities = 24/79 (30%), Positives = 34/79 (43%), Gaps = 12/79 (15%)
Query: 290 PGNIHPLVRLLR---AFITKSEP---SQFSATLKLNNVLG-VFQKLIASKIFVL-----L 337
G I PLV+++R A IT EP FS + + +F L VL
Sbjct: 172 AGEIEPLVKMVRPHVAIITTVEPVHLEFFSGIEAIADAKAEIFTGLEPGGAAVLNRDNPQ 231
Query: 338 FQRLSSSKTAKYSKGLVTF 356
F RL++S A +V+F
Sbjct: 232 FDRLAASARAAGIARIVSF 250
>gnl|CDD|240389 PTZ00374, PTZ00374, dihydroxyacetone phosphate acyltransferase;
Provisional.
Length = 1108
Score = 31.8 bits (72), Expect = 0.99
Identities = 14/69 (20%), Positives = 24/69 (34%), Gaps = 6/69 (8%)
Query: 161 EYAMKCIMRSMSTLQDKVVPYLSDLLFQLTQRLAAAAKNPSKPNYNHFLFEAITLAIRIV 220
E+ + I RS Y +D++F +R+ P P F+ + R+
Sbjct: 473 EHLARQIFRSPFAFPPPRPLYHNDIVFHGAERI------PPTPLLTRKYFDDVVWTQRVG 526
Query: 221 CKQNPEAVA 229
N A
Sbjct: 527 LTANGWRFA 535
>gnl|CDD|146969 pfam04584, Pox_A28, Poxvirus A28 family. Family of conserved
Poxvirus A28 family proteins. Conserved region spans
entire protein in the majority of family members.
Length = 140
Score = 30.0 bits (68), Expect = 1.3
Identities = 11/39 (28%), Positives = 21/39 (53%), Gaps = 7/39 (17%)
Query: 455 ENILEYDAAYSKLTFAA-------DKEEYDPLSDIIQVK 486
+NI E++ A+S L ++ D+ +DP ++ VK
Sbjct: 31 DNIKEFNDAHSALEYSKTIGGNYIDRRVFDPNDEVYDVK 69
>gnl|CDD|220351 pfam09701, Cas_Cmr5, CRISPR-associated protein (Cas_Cmr5). CRISPR
is a term for Clustered, Regularly Interspaced Short
Palindromic Repeats. A number of protein families appear
only in association with these repeats and are
designated Cas (CRISPR-Associated) proteins. This
family, represented by TM1791.1 of Thermotoga maritima,
is found in both archaeal and bacterial species.
Length = 119
Score = 28.4 bits (64), Expect = 3.3
Identities = 17/80 (21%), Positives = 30/80 (37%), Gaps = 13/80 (16%)
Query: 189 LTQRLA---AAAKNPSKPNYNHFLFEAITLAIRIVCKQNPEAVATFEQALFPIFQVIIQQ 245
L Q LA + + K L E + +R K++ +A +I+
Sbjct: 43 LGQTLAFLLSKGEKNGK---AKLLLEHLAKWLRERDKESLNEKDDLLEA-------LIEA 92
Query: 246 DTLEFLPYTFQILSLLLEFR 265
D E+ T + L+LL +
Sbjct: 93 DLREYRRATREALALLNWLK 112
>gnl|CDD|233367 TIGR01349, PDHac_trf_mito, pyruvate dehydrogenase complex
dihydrolipoamide acetyltransferase, long form. This
model represents one of several closely related clades
of the dihydrolipoamide acetyltransferase subunit of the
pyruvate dehydrogenase complex. It includes sequences
from mitochondria and from alpha and beta branches of
the proteobacteria, as well as from some other bacteria.
Sequences from Gram-positive bacteria are not included.
The non-enzymatic homolog protein X, which serves as an
E3 component binding protein, falls within the clade
phylogenetically but is rejected by its low score
[Energy metabolism, Pyruvate dehydrogenase].
Length = 436
Score = 29.0 bits (65), Expect = 6.8
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 4/48 (8%)
Query: 184 DLLFQLTQRLAAAAKNPSKPNYNHFLFEAITLAIRIVCKQNPEAVATF 231
D L L + L A A K + N F+ +A LA ++ PEA +++
Sbjct: 243 DKLLALRKELNAMASEVYKLSVNDFIIKASALA----LREVPEANSSW 286
>gnl|CDD|187880 cd09749, Cmr5_III-B, CRISPR/Cas system-associated protein Cmr5.
CRISPR (Clustered Regularly Interspaced Short
Palindromic Repeats) and associated Cas proteins
comprise a system for heritable host defense by
prokaryotic cells against phage and other foreign DNA;
Small alpha-helical protein; signature gene for subtype
III-B.
Length = 119
Score = 27.7 bits (62), Expect = 7.1
Identities = 21/80 (26%), Positives = 32/80 (40%), Gaps = 12/80 (15%)
Query: 189 LTQRLA---AAAKNPSKPNYNHFLFEAITLAIRIVCKQNPEAVATFEQALFPIFQVIIQQ 245
L Q LA A K K N L E + +R K + + + II
Sbjct: 43 LGQALAFLLAKGKKNGK---NSKLLEHLASWLRERDKLQDG------KGREALLEAIITA 93
Query: 246 DTLEFLPYTFQILSLLLEFR 265
D E++ T ++L+LL+ R
Sbjct: 94 DLKEYMRATREVLALLVWLR 113
>gnl|CDD|212687 cd11737, HSPA4_NBD, Nucleotide-binding domain of HSPA4. Human
HSPA4 (also known as 70-kDa heat shock protein 4, APG-2,
HS24/P52, hsp70 RY, and HSPH2; the human HSPA4 gene maps
to 5q31.1) responds to acidic pH stress, is involved in
the radioadaptive response, is required for normal
spermatogenesis and is overexpressed in hepatocellular
carcinoma. It participates in a pathway along with NBS1
(Nijmegen breakage syndrome 1, also known as p85 or
nibrin), heat shock transcription factor 4b (HDF4b), and
HSPA14 (belonging to a different HSP70 subfamily) that
induces tumor migration, invasion, and transformation.
HSPA4 expression in sperm was increased in men with
oligozoospermia, especially in those with varicocele.
HSPA4 belongs to the 105/110 kDa heat shock protein
(HSP105/110) subfamily of the HSP70-like family.
HSP105/110s are believed to function generally as
co-chaperones of HSP70 chaperones, acting as nucleotide
exchange factors (NEFs), to remove ADP from their HSP70
chaperone partners during the ATP hydrolysis cycle.
HSP70 chaperones assist in protein folding and assembly,
and can direct incompetent "client" proteins towards
degradation. Like HSP70 chaperones, HSP105/110s have an
N-terminal nucleotide-binding domain (NBD) and a
C-terminal substrate-binding domain (SBD). For HSP70
chaperones, the nucleotide sits in a deep cleft formed
between the two lobes of the NBD. The two subdomains of
each lobe change conformation between ATP-bound,
ADP-bound, and nucleotide-free states. ATP binding opens
up the substrate-binding site; substrate-binding
increases the rate of ATP hydrolysis. Hsp70 chaperone
activity is also regulated by J-domain proteins.
Length = 383
Score = 28.8 bits (64), Expect = 7.1
Identities = 16/54 (29%), Positives = 25/54 (46%), Gaps = 11/54 (20%)
Query: 398 GAVNRKIAAFGLAKLLTEAKEVTEG-----------PYVQAPLTGALLNLIQLP 440
G NR I A +++++ AK +G P+VQA +L+QLP
Sbjct: 41 GPKNRSIGAAAKSQVISNAKNTVQGFKRFHGRAFSDPFVQAEKPSLAYDLVQLP 94
>gnl|CDD|240281 PTZ00125, PTZ00125, ornithine aminotransferase-like protein;
Provisional.
Length = 400
Score = 28.5 bits (64), Expect = 8.7
Identities = 12/41 (29%), Positives = 23/41 (56%), Gaps = 2/41 (4%)
Query: 291 GNIHPLVRLLRAFITKSEPSQFSATLKLNNVLGVFQKLIAS 331
G+ HP ++L A I +++ ++ N+VLG+ +K I
Sbjct: 46 GHCHP--KILAALINQAQKLTLTSRAFYNDVLGLAEKYITD 84
>gnl|CDD|152718 pfam12283, Protein_K, Bacteriophage protein K. This family of
proteins is found in viruses. Proteins in this family
are approximately 60 amino acids in length. This family
is a protein expressed by bacteriophages which has an
unknown function. There is evidence that it is
non-essential for in vivo production of a mature phage.
Length = 56
Score = 25.7 bits (56), Expect = 9.1
Identities = 13/32 (40%), Positives = 17/32 (53%)
Query: 59 ELNKPDELCPNELLSPHLKQIFVLLFQRLSSS 90
ELN+ L NE + P L ++ LL LS S
Sbjct: 18 ELNRSGLLAENEEIQPILAKLEKLLLCDLSPS 49
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
0.320 0.135 0.377
Gapped
Lambda K H
0.267 0.0555 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 24,541,335
Number of extensions: 2420738
Number of successful extensions: 1935
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1923
Number of HSP's successfully gapped: 26
Length of query: 486
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 385
Effective length of database: 6,457,848
Effective search space: 2486271480
Effective search space used: 2486271480
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 (21.8 bits)
S2: 61 (27.7 bits)