RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 009739
(527 letters)
>gnl|CDD|128777 smart00501, BRIGHT, BRIGHT, ARID (A/T-rich interaction domain)
domain. DNA-binding domain containing a
helix-turn-helix structure.
Length = 93
Score = 105 bits (264), Expect = 2e-27
Identities = 30/92 (32%), Positives = 47/92 (51%), Gaps = 1/92 (1%)
Query: 234 EEQSSFMEELENFFRDRSME-FKPPKFYGEGLNCLKLWRAVTRLGGYEKVTSCKLWRQVG 292
E+ F++ L F +R K P G+ L+ +L+R V GGY++VT K W+++
Sbjct: 1 RERVLFLDRLYKFMEERGSPLKKIPVIGGKPLDLYRLYRLVQERGGYDQVTKDKKWKEIA 60
Query: 293 ESFKPPKTCTTVSWTFRGFYEKALLDYERHKT 324
P T T+ + + R YE+ LL YER
Sbjct: 61 RELGIPDTSTSAASSLRKHYERYLLPYERFLR 92
>gnl|CDD|216473 pfam01388, ARID, ARID/BRIGHT DNA binding domain. This domain is
know as ARID for AT-Rich Interaction Domain, and also
known as the BRIGHT domain.
Length = 90
Score = 102 bits (257), Expect = 2e-26
Identities = 36/89 (40%), Positives = 48/89 (53%), Gaps = 1/89 (1%)
Query: 233 EEEQSSFMEELENFFRDRSMEF-KPPKFYGEGLNCLKLWRAVTRLGGYEKVTSCKLWRQV 291
E+ +F++ L F R K P G+ L+ KL+R V +LGG+EKVT K WR+V
Sbjct: 2 TPEKENFLDRLAKFMERRGTPLDKIPVIGGKPLDLYKLYRLVQKLGGFEKVTKSKKWREV 61
Query: 292 GESFKPPKTCTTVSWTFRGFYEKALLDYE 320
+ P T T+ S R YEK LL YE
Sbjct: 62 AQKLGIPPTITSASQELRSIYEKYLLPYE 90
>gnl|CDD|198082 smart01014, ARID, ARID/BRIGHT DNA binding domain. Members of the
recently discovered ARID (AT-rich interaction domain)
family of DNA-binding proteins are found in fungi and
invertebrate and vertebrate metazoans. ARID-encoding
genes are involved in a variety of biological processes
including embryonic development, cell lineage gene
regulation and cell cycle control. Although the specific
roles of this domain and of ARID-containing proteins in
transcriptional regulation are yet to be elucidated,
they include both positive and negative transcriptional
regulation and a likely involvement in the modification
of chromatin structure. The basic structure of the ARID
domain domain appears to be a series of six
alpha-helices separated by beta-strands, loops, or
turns, but the structured region may extend to an
additional helix at either or both ends of the basic
six. Based on primary sequence homology, they can be
partitioned into three structural classes: Minimal ARID
proteins that consist of a core domain formed by six
alpha helices; ARID proteins that supplement the core
domain with an N-terminal alpha-helix; and Extended-ARID
proteins, which contain the core domain and additional
alpha-helices at their N- and C-termini.
Length = 88
Score = 97.3 bits (243), Expect = 1e-24
Identities = 31/84 (36%), Positives = 44/84 (52%), Gaps = 1/84 (1%)
Query: 238 SFMEELENFFRDRSMEF-KPPKFYGEGLNCLKLWRAVTRLGGYEKVTSCKLWRQVGESFK 296
F++ L F R K P G+ L+ +L+RAV + GG++KVT K W+QV
Sbjct: 5 LFLDRLRKFMEKRGTPLDKIPVIGGKPLDLYRLYRAVQKRGGFDKVTKKKKWKQVARELG 64
Query: 297 PPKTCTTVSWTFRGFYEKALLDYE 320
P + T+ + R YEK LL YE
Sbjct: 65 IPPSATSAGTSLRKHYEKYLLPYE 88
>gnl|CDD|107219 cd00298, ACD_sHsps_p23-like, This domain family includes the
alpha-crystallin domain (ACD) of alpha-crystallin-type
small heat shock proteins (sHsps) and a similar domain
found in p23-like proteins. sHsps are small stress
induced proteins with monomeric masses between 12 -43
kDa, whose common feature is this ACD. sHsps are
generally active as large oligomers consisting of
multiple subunits, and are believed to be
ATP-independent chaperones that prevent aggregation and
are important in refolding in combination with other
Hsps. p23 is a cochaperone of the Hsp90 chaperoning
pathway. It binds Hsp90 and participates in the folding
of a number of Hsp90 clients including the progesterone
receptor. p23 also has a passive chaperoning activity.
p23 in addition may act as the cytosolic prostaglandin
E2 synthase. Included in this family is the p23-like
C-terminal CHORD-SGT1 (CS) domain of suppressor of G2
allele of Skp1 (Sgt1) and the p23-like domains of human
butyrate-induced transcript 1 (hB-ind1), NUD (nuclear
distribution) C, Melusin, and NAD(P)H cytochrome b5
(NCB5) oxidoreductase (OR).
Length = 80
Score = 50.3 bits (121), Expect = 4e-08
Identities = 21/78 (26%), Positives = 39/78 (50%), Gaps = 3/78 (3%)
Query: 446 TKDCFEVYALVPGLLREEVRVQSDPAGRLVISGE-PEHPDNPWGVTPFKKVVSLPARIDP 504
T D V +PG+ +E+++V+ + L ISG+ E + F++ LP +DP
Sbjct: 4 TDDEVVVTVDLPGVKKEDIKVEVED-NVLTISGKREEEEERERSYGEFERSFELPEDVDP 62
Query: 505 HLTSAVVTLHGQLFVRVP 522
+ A + +G L + +P
Sbjct: 63 EKSKASLE-NGVLEITLP 79
>gnl|CDD|107221 cd06464, ACD_sHsps-like, Alpha-crystallin domain (ACD) of
alpha-crystallin-type small(s) heat shock proteins
(Hsps). sHsps are small stress induced proteins with
monomeric masses between 12 -43 kDa, whose common
feature is the Alpha-crystallin domain (ACD). sHsps are
generally active as large oligomers consisting of
multiple subunits, and are believed to be
ATP-independent chaperones that prevent aggregation and
are important in refolding in combination with other
Hsps.
Length = 88
Score = 48.3 bits (116), Expect = 2e-07
Identities = 26/91 (28%), Positives = 43/91 (47%), Gaps = 14/91 (15%)
Query: 442 NVQRTKDCFEVYALVPGLLREEVRVQSDPAGRLVISGEPEHPDN----------PWGVTP 491
+V T D + V A +PG +E+++V+ + G L ISGE E + +G
Sbjct: 1 DVYETDDAYVVEADLPGFKKEDIKVEVED-GVLTISGEREEEEEEEENYLRRERSYG--S 57
Query: 492 FKKVVSLPARIDPHLTSAVVTLHGQLFVRVP 522
F + LP +DP A + +G L + +P
Sbjct: 58 FSRSFRLPEDVDPDKIKASLE-NGVLTITLP 87
>gnl|CDD|223149 COG0071, IbpA, Molecular chaperone (small heat shock protein)
[Posttranslational modification, protein turnover,
chaperones].
Length = 146
Score = 41.2 bits (97), Expect = 2e-04
Identities = 22/98 (22%), Positives = 43/98 (43%), Gaps = 13/98 (13%)
Query: 435 PADWVKINVQRTKDCFEVYALVPGLLREEVRVQSDPAGRLVISGEPEHPDNPWGVT---- 490
P ++++ T D + + A +PG+ +E++ + + L I GE E +
Sbjct: 37 PTGTPPVDIEETDDEYRITAELPGVDKEDIEITVEG-NTLTIRGEREEEEEEEEEGYLRR 95
Query: 491 -----PFKKVVSLPARIDPHLTSAVVTL-HGQLFVRVP 522
F++ LP ++DP + A +G L V +P
Sbjct: 96 ERAYGEFERTFRLPEKVDPEVIKA--KYKNGLLTVTLP 131
>gnl|CDD|233366 TIGR01348, PDHac_trf_long, pyruvate dehydrogenase complex
dihydrolipoamide acetyltransferase, long form. This
model describes a subset of pyruvate dehydrogenase
complex dihydrolipoamide acetyltransferase specifically
close by both phylogenetic and per cent identity (UPGMA)
trees. Members of this set include two or three copies
of the lipoyl-binding domain. E. coli AceF is a member
of this model, while mitochondrial and some other
bacterial forms belong to a separate model [Energy
metabolism, Pyruvate dehydrogenase].
Length = 546
Score = 37.5 bits (87), Expect = 0.017
Identities = 47/213 (22%), Positives = 82/213 (38%), Gaps = 30/213 (14%)
Query: 6 AELTKNEAPGEDLPGSSKSTEQDAPPAEALPAVNVNPLDTNTVSDVKNLESHSTPLQEPP 65
AE K AP + + + A PA + + TV D+ ++E +
Sbjct: 83 AEAKKEAAPAPTAGAPAPAAQAQAAPAAGQSS----GVQEVTVPDIGDIE-------KVT 131
Query: 66 SISLDV-LGDTSSADPDIQPSAYASVKAKTLEVPNT-----------IEDTTAETDTILS 113
I + V +GDT SAD Q ++EVP + D+ D IL+
Sbjct: 132 VIEVLVKVGDTVSAD---QSLITLESDKASMEVPAPASGVVKSVKVKVGDSVPTGDLILT 188
Query: 114 SNSELPESSKVEAPDNSPVESKAGHAAASKAEASTAEPHADSIAELPAESEAKPSFKVQA 173
+ + AP ++ +++ A + A+ A A + A P ++ + KV
Sbjct: 189 LSVAGSTPATAPAPASAQPAAQSPAATQPEPAAAPAAAKAQAPA--PQQAGTQNPAKVDH 246
Query: 174 ATP--NRNAAPSDTELKNVNDTEIKDKVNKSEL 204
A P R A +L V T IK ++ + ++
Sbjct: 247 AAPAVRRLAREFGVDLSAVKGTGIKGRILREDV 279
>gnl|CDD|225346 COG2732, COG2732, Barstar, RNAse (barnase) inhibitor
[Transcription].
Length = 91
Score = 30.9 bits (70), Expect = 0.36
Identities = 13/34 (38%), Positives = 18/34 (52%), Gaps = 2/34 (5%)
Query: 241 EELENFFRDRSMEFKPPKFYGEGLNCLKLWRAVT 274
E+ E+F RD S F +YG L+ LW +T
Sbjct: 12 EDQEDFHRDFSQTFGLADYYGRNLDA--LWDVLT 43
>gnl|CDD|240289 PTZ00144, PTZ00144, dihydrolipoamide succinyltransferase;
Provisional.
Length = 418
Score = 32.7 bits (75), Expect = 0.45
Identities = 19/95 (20%), Positives = 27/95 (28%), Gaps = 2/95 (2%)
Query: 100 TIEDTTAETDTILSSNSELPESSKVEAPDNSPVESKAGHAAASKAEASTAEPHADSIAEL 159
I AE + + L E AP + + A A E
Sbjct: 97 VITKIFAEEGDTVEVGAPLSEIDTGGAPPAAAPAAAAAAKAEKTTPEKPKAAAPT--PEP 154
Query: 160 PAESEAKPSFKVQAATPNRNAAPSDTELKNVNDTE 194
PA S+ P + P A P T + + E
Sbjct: 155 PAASKPTPPAAAKPPEPAPAAKPPPTPVARADPRE 189
>gnl|CDD|107229 cd06472, ACD_ScHsp26_like, Alpha crystallin domain (ACD) found in
Saccharomyces cerevisiae (Sc) small heat shock protein
(Hsp)26 and similar proteins. sHsps are molecular
chaperones that suppress protein aggregation and protect
against cell stress, and are generally active as large
oligomers consisting of multiple subunits. ScHsp26 is
temperature-regulated, it switches from an inactive to a
chaperone-active form upon elevation in temperature. It
associates into large 24-mers storage forms which upon
heat shock disassociate into dimers. These dimers
initiate the interaction with non-native substrate
proteins and re-assemble into large globular assemblies
having one monomer of substrate bound per dimer. This
group also contains Arabidopsis thaliana (Ath) Hsp15.7,
a peroxisomal matrix protein which can complement the
morphological phenotype of S. cerevisiae mutants
deficient in Hsps26. AthHsp15.7 is minimally expressed
under normal conditions and is strongly induced by heat
and oxidative stress. Also belonging to this group is
wheat HSP16.9 which differs in quaternary structure from
the shell-type particles of ScHsp26, it assembles as a
dodecameric double disc, with each disc organized as a
trimer of dimers.
Length = 92
Score = 30.4 bits (69), Expect = 0.47
Identities = 15/43 (34%), Positives = 23/43 (53%), Gaps = 5/43 (11%)
Query: 437 DWVKINVQRTKDCFEVYALVPGLLREEVRVQSDPAGRLVISGE 479
DW + T + A VPG+ +E+V+V+ + L ISGE
Sbjct: 3 DW-----KETPEAHVFKADVPGVKKEDVKVEVEDGRVLRISGE 40
>gnl|CDD|235906 PRK07003, PRK07003, DNA polymerase III subunits gamma and tau;
Validated.
Length = 830
Score = 32.9 bits (75), Expect = 0.49
Identities = 27/157 (17%), Positives = 46/157 (29%), Gaps = 6/157 (3%)
Query: 27 QDAPPAEALPAVNVNPLDTNTVSDVKNLESHSTPLQEPPSISLDVLGDTSSADPDIQPSA 86
P A+ L + + + P P + D D + D + A
Sbjct: 394 SAVPAVTAVTGAAGAALAPKAAAAAAATRAEAPPAAPAPPATADRGDDAADGDAPVPAKA 453
Query: 87 YASVKAKTLEVPNTIEDTTAETDTILSSNSELPESSKVEAPDNSPVESKAGHAAASKAEA 146
A A + + S ++ P S P A +AA+ A
Sbjct: 454 NARASADSRCDERDAQPPAD------SGSASAPASDAPPDAAFEPAPRAAAPSAATPAAV 507
Query: 147 STAEPHADSIAELPAESEAKPSFKVQAATPNRNAAPS 183
A A + E + A P+ + + TP A +
Sbjct: 508 PDARAPAAASREDAPAAAAPPAPEARPPTPAAAAPAA 544
Score = 31.7 bits (72), Expect = 1.3
Identities = 43/191 (22%), Positives = 61/191 (31%), Gaps = 33/191 (17%)
Query: 24 STEQDAPPAEALPAVNVNPLDTNTVSDVKNLESHSTPL----------QEPPSISLDVLG 73
+T +APPA P + D D + +PP+ S
Sbjct: 420 ATRAEAPPAAPAPPATADRGDDAADGDAPVPAKANARASADSRCDERDAQPPADSGSASA 479
Query: 74 DTSSADPDI----QPSAYASVKAKTLEVPNTIEDTTAETDTILSSNSELPESSKVEAPDN 129
S A PD P A A A VP+ A + ++ + ++ P
Sbjct: 480 PASDAPPDAAFEPAPRAAAPSAATPAAVPDARAPAAASREDAPAAAAPPAPEARPPTPAA 539
Query: 130 SPVESKAGHAAA----------------SKAEASTAEPHADSIAELPAESEAKPSFKVQA 173
+ ++AG AAA A+ A+P A A A A P VQ
Sbjct: 540 AAPAARAGGAAAALDVLRNAGMRVSSDRGARAAAAAKPAA---APAAAPKPAAPRVAVQV 596
Query: 174 ATPNRNAAPSD 184
TP AA D
Sbjct: 597 PTPRARAATGD 607
>gnl|CDD|183558 PRK12495, PRK12495, hypothetical protein; Provisional.
Length = 226
Score = 31.4 bits (71), Expect = 0.90
Identities = 21/106 (19%), Positives = 35/106 (33%), Gaps = 1/106 (0%)
Query: 78 ADPDIQPSAYASVKAKTLEVPNTIEDTTAETDTILSSNSELPESSKVEAPDNSPVESKAG 137
A D A A+ + + +D + + S PE+S A D + + A
Sbjct: 74 AGDDAGDGAEATAPSDAGSQASPDDDAQPAAEAEAADQSAPPEASSTSATDEAATDPPAT 133
Query: 138 HAAASKAEAS-TAEPHADSIAELPAESEAKPSFKVQAATPNRNAAP 182
AA TA+P P + +TP+ + A
Sbjct: 134 AAARDGPTPDPTAQPATPDERRSPRQRPPVSGEPPTPSTPDAHVAG 179
>gnl|CDD|148679 pfam07218, RAP1, Rhoptry-associated protein 1 (RAP-1). This family
consists of several rhoptry-associated protein 1 (RAP-1)
sequences which appear to be specific to Plasmodium
falciparum.
Length = 790
Score = 32.0 bits (72), Expect = 1.0
Identities = 37/163 (22%), Positives = 54/163 (33%), Gaps = 11/163 (6%)
Query: 98 PNTIEDTTAETDTILSSN-SELPESSKVEAPDNSPVESKAGHAAASKAEASTAEPHADSI 156
PN S SK A S SK G + +S A+ + + S+
Sbjct: 126 PNEAGKPGKPKGNQGEGLASSSDGKSKASAKSGSKSASKHGESNSSDESATDSGKASASV 185
Query: 157 AELPAESEAKPSFKVQAATPNRNAAPSDTELKNVNDTEIKDKVNK-SELPTLPMNEKSNS 215
A + E P TP + NVN +K + K E + N+
Sbjct: 186 AGIVGADEEAPPAPKNTLTPLEELYET-----NVNLFALKHPLEKLEEEIDILKNDGDKV 240
Query: 216 AQL--FLLDGNDEGSESGTEEEQSSFMEE--LENFFRDRSMEF 254
A+ F LD E +E +E E E F D ++F
Sbjct: 241 AEEEEFELDEEHEEAEEDKKEALEKIGAEGDEEKFKFDEEIKF 283
>gnl|CDD|183854 PRK13042, PRK13042, superantigen-like protein; Reviewed.
Length = 291
Score = 31.1 bits (70), Expect = 1.2
Identities = 27/85 (31%), Positives = 42/85 (49%), Gaps = 19/85 (22%)
Query: 104 TTAETDTILSSNSELPESSKVEAPDNSPVESKAGHAAASKAEASTAEPHADSIAELPAES 163
T T T ++N+ P S+KVEAP ++P ++K EA ++P+A +
Sbjct: 18 TGVITTTTQAANATTPSSTKVEAPQSTP--------PSTKVEAPQSKPNATT-------- 61
Query: 164 EAKPSFKVQAATPNRNA-APSDTEL 187
PS KV+A NA PS T++
Sbjct: 62 --PPSTKVEAPQQTPNATTPSSTKV 84
>gnl|CDD|215655 pfam00011, HSP20, Hsp20/alpha crystallin family.
Length = 101
Score = 29.5 bits (67), Expect = 1.3
Identities = 19/69 (27%), Positives = 32/69 (46%), Gaps = 8/69 (11%)
Query: 443 VQRTKDCFEVYALVPGLLREEVRVQSDPAGRLVISGEPEHP--DNPWGVT-----PFKKV 495
++ KD F V VPG EE++V+ + R+++ G+ E D+ + F +
Sbjct: 2 IKEDKDAFVVKLDVPGFKPEELKVKVE-DNRVLVKGKHEKEEEDDHGLRSERSYRSFSRK 60
Query: 496 VSLPARIDP 504
LP DP
Sbjct: 61 FVLPENADP 69
>gnl|CDD|240165 cd05142, Barstar, Barstar is an intracellular inhibitor of barnase,
an extracellular ribonuclease of Bacillus
amyloliquefaciens. Barstar binds tightly to the barnase
active site and sterically blocks it thus inhibiting its
potentially lethal RNase activity inside the cell.
Barstar also binds and inhibits a ribonuclease called
RNase Sa (produced by Streptomyces aureofaciens) which
belongs to the same enzyme family as does barnase.
Length = 87
Score = 28.8 bits (65), Expect = 1.6
Identities = 10/34 (29%), Positives = 17/34 (50%), Gaps = 2/34 (5%)
Query: 241 EELENFFRDRSMEFKPPKFYGEGLNCLKLWRAVT 274
+E+ + E P++YGE L+ LW +T
Sbjct: 10 RSIEDLHQILKKELALPEYYGENLDA--LWDCLT 41
>gnl|CDD|237284 PRK13108, PRK13108, prolipoprotein diacylglyceryl transferase;
Reviewed.
Length = 460
Score = 29.9 bits (67), Expect = 3.6
Identities = 35/173 (20%), Positives = 66/173 (38%), Gaps = 22/173 (12%)
Query: 15 GEDLPGSSKSTEQDA-PPAEALPAVNVNPLDTNTVSDVKNLESHSTPL-----QEPPSIS 68
G + PG+ + +E E PA + V + S P+ +P ++
Sbjct: 278 GREAPGALRGSEYVVDEALEREPA-------ELAAAAVASAASAVGPVGPGEPNQPDDVA 330
Query: 69 LDVLGDTSSADPDIQPSAYASVKAKTLEVPNTIEDTTAETDTILSSNSELPESSKVEAPD 128
V + + ++ + V + E +E+T +E D E P +AP
Sbjct: 331 EAVKAEVAEVTDEVAAESVVQVADRDGESTPAVEET-SEADIE----REQPGDLAGQAPA 385
Query: 129 NSPVESKAGHAAASKAEASTAEPHADSIAELPAESEAKPSFKVQAATPNRNAA 181
V+++A AA + A +E H ++ E+P ++ P A P+ A
Sbjct: 386 AHQVDAEAASAAPEEPAALASEAHDETEPEVPEKAAPIPD----PAKPDELAV 434
>gnl|CDD|237000 PRK11855, PRK11855, dihydrolipoamide acetyltransferase; Reviewed.
Length = 547
Score = 29.8 bits (68), Expect = 3.7
Identities = 21/90 (23%), Positives = 34/90 (37%), Gaps = 5/90 (5%)
Query: 91 KAKTLEVPN----TIEDTTAETDTILSSNSELPESSKVEAPDNSPVESKAGHAAASKAEA 146
KA T+E+P+ +++ + +S S L A + A AA+ A A
Sbjct: 159 KA-TMEIPSPVAGVVKEIKVKVGDKVSVGSLLVVIEVAAAAPAAAAAPAAAAPAAAAAAA 217
Query: 147 STAEPHADSIAELPAESEAKPSFKVQAATP 176
P A + A + A K A+P
Sbjct: 218 PAPAPAAAAAPAAAAPAAAAAPGKAPHASP 247
>gnl|CDD|234399 TIGR03923, T7SS_EccE, type VII secretion protein EccE. This model
represents the transmembrane protein EccB of the
actinobacterial flavor of type VII secretion systems.
Species such as Mycobacterium tuberculosis have several
instances of this system per genome, designated EccE1,
EccE2, etc. This model represents a conserved core
region, and many members have 200 or more additional
C-terminal residues [Protein fate, Protein and peptide
secretion and trafficking].
Length = 341
Score = 29.7 bits (67), Expect = 3.7
Identities = 25/106 (23%), Positives = 33/106 (31%), Gaps = 15/106 (14%)
Query: 411 LAVKAARTKTSKSQLDVAVVDLGPPADWVKINVQRTKDCFEVYALVPGLLREEVRVQSDP 470
LA R + D A +D+ D V + G L + V P
Sbjct: 58 LAWLRRRRRLPPDAGDPAALDVPLGDDPVGVRWD------------GGFLTVVLEVTPPP 105
Query: 471 AGRLVISGEPEHPDNPWGVTPFKKVVSLPARIDPHLTSAVVTLHGQ 516
VI+ DN P + L + D L S V HGQ
Sbjct: 106 DALTVITRSSVLTDNV---LPLPLLAELLDQYDIRLDSIDVVSHGQ 148
>gnl|CDD|236333 PRK08691, PRK08691, DNA polymerase III subunits gamma and tau;
Validated.
Length = 709
Score = 29.7 bits (66), Expect = 4.3
Identities = 42/219 (19%), Positives = 80/219 (36%), Gaps = 25/219 (11%)
Query: 7 ELTKNEAPGEDLPGSSKSTEQDAPPAEA--------LPAVNVNPLDTNTVSDVKNLESHS 58
E T+ ++P + ++ P EA + P + T V N E++
Sbjct: 373 ENTELQSPSAQTAEKETAAKKPQPRPEAETAQTPVQTASAAAMPSEGKTAGPVSNQENND 432
Query: 59 T-PLQEPPSISLDVLGDTSSADPDIQPSAYASVKAKTLEVPNTIEDTTAETDTILSSNSE 117
P ++ P + G ++ IQ ++ A N + A + + SE
Sbjct: 433 VPPWEDAPDEAQTAAGTAQTSAKSIQTASEAETPP-----ENQVSKNKAADNETDAPLSE 487
Query: 118 LPESSKVEA-PDNSPVESKA-GHAAASKAEASTAEPHADSIAELPAESEAKPSFKVQAAT 175
+P + ++A P++ VE++ H A ++ P D E +E P
Sbjct: 488 VPSENPIQATPNDEAVETETFAHEAPAEPFYGYGFPDNDCPPE--DGAEIPPP------- 538
Query: 176 PNRNAAPSDTELKNVNDTEIKDKVNKSELPTLPMNEKSN 214
+AAP+DT ++ + + P+ P E S
Sbjct: 539 DWEHAAPADTAGGGADEEAEAGGIGGNNTPSAPPPEFST 577
>gnl|CDD|200219 TIGR02927, SucB_Actino, 2-oxoglutarate dehydrogenase, E2 component,
dihydrolipoamide succinyltransferase. This model
represents an Actinobacterial clade of E2 enzyme, a
component of the 2-oxoglutarate dehydrogenase complex
involved in the TCA cycle. These proteins have multiple
domains including the catalytic domain (pfam00198), one
or two biotin domains (pfam00364) and an E3-component
binding domain (pfam02817).
Length = 579
Score = 29.2 bits (65), Expect = 6.7
Identities = 39/181 (21%), Positives = 58/181 (32%), Gaps = 29/181 (16%)
Query: 12 EAPGEDLPGSSKSTEQDAP-PAEALPAVNVNPLDTN-TVSDVKNLESHSTPLQEPPSISL 69
A E AP PA PA + ++VK E + + + L
Sbjct: 88 PAAPEPEAAPEPEAPAPAPTPAAEAPAPAAPQAGGSGEATEVKMPELGESVTEGTVTSWL 147
Query: 70 DVLGDTSSADPDIQPSAYASVKAKTLEVPNTI----------EDTTAETDTILS------ 113
+GDT D +P S E+P+ + ED T E T+L+
Sbjct: 148 KAVGDTVEVD---EPLLEVSTDKVDTEIPSPVAGTLLEIRAPEDDTVEVGTVLAIIGDAN 204
Query: 114 SNSELPESSKVEAPDNSPVESKAGHAAASKAEASTAEPHADSIAELPAESEAKPSFKVQA 173
+ P + AP + E AA + A PA + AK + A
Sbjct: 205 AAPAEPAEEEAPAPSEAGSEPAPDPAARAPHAAPDPPA--------PAPAPAKTAAPAAA 256
Query: 174 A 174
A
Sbjct: 257 A 257
>gnl|CDD|236304 PRK08581, PRK08581, N-acetylmuramoyl-L-alanine amidase; Validated.
Length = 619
Score = 29.0 bits (65), Expect = 7.8
Identities = 24/178 (13%), Positives = 56/178 (31%), Gaps = 19/178 (10%)
Query: 44 DTNT--VSDVKNLESHSTPLQEPPSISLDVLGDTSSADPDIQPSAYASVKAKTLEVPNTI 101
DT++ N + + + ++D S+ D L N
Sbjct: 54 DTSSKDTDKADNNNTSNQDNNDKKFSTIDSSTSDSNNIIDFIYKNLPQTNINQLLTKNKY 113
Query: 102 EDTTAETDTILSSNSELPESSKVEAPDNSPVESKAGH---AAASKAEASTA--------- 149
+D + T I + + + S E P NS + + ++ K + T
Sbjct: 114 DDNYSLTTLIQNLFNLNSDISDYEQPRNSEKSTNDSNKNSDSSIKNDTDTQSSKQDKADN 173
Query: 150 --EPHADSIAELPAESEAKPSFKVQAATPNRNAAPSDTELKNVNDTEIKDKVNKSELP 205
P +++ + + + PN++ + ++ + KD + S+
Sbjct: 174 QKAPSSNNTKPSTSNKQPNSP---KPTQPNQSNSQPASDDTANQKSSSKDNQSMSDSA 228
>gnl|CDD|227430 COG5099, COG5099, RNA-binding protein of the Puf family,
translational repressor [Translation, ribosomal
structure and biogenesis].
Length = 777
Score = 28.9 bits (65), Expect = 8.2
Identities = 18/96 (18%), Positives = 32/96 (33%)
Query: 40 VNPLDTNTVSDVKNLESHSTPLQEPPSISLDVLGDTSSADPDIQPSAYASVKAKTLEVPN 99
N N + + H + P S + L + +S P + + T +
Sbjct: 1 PNSDTMNNLLPSIKSQLHHSKKSPPSSTTSQELMNGNSTPNSFSPIPSKASSSATFTLNL 60
Query: 100 TIEDTTAETDTILSSNSELPESSKVEAPDNSPVESK 135
I ++ T SS+ P S A +S S+
Sbjct: 61 PINNSVNHKITSSSSSRRKPSGSWSVAISSSTSGSQ 96
>gnl|CDD|237555 PRK13914, PRK13914, invasion associated secreted endopeptidase;
Provisional.
Length = 481
Score = 28.6 bits (63), Expect = 9.3
Identities = 28/132 (21%), Positives = 48/132 (36%), Gaps = 11/132 (8%)
Query: 19 PGSSKSTEQDAPPAEALPAVNVNPLDTNTVSDVKNLESHSTPLQEPPSISLDVLGDTSSA 78
P + TE A +A P V N +TNT + K + +T Q P T +A
Sbjct: 252 PKAEVKTEAPAAEKQAAPVVKENT-NTNTATTEK--KETTTQQQTAPK------APTEAA 302
Query: 79 DPDIQPSAYASVKAKTLEVPNTIEDTTAETDTILSSNSELPESSKVEAPDNSPVESKAGH 138
P PS + +T T + ++ + S+ + + + + +
Sbjct: 303 KPAPAPSTNTNANKTNTNTNTNTNNTNTSTPSKNTNTNT--NSNTNTNSNTNANQGSSNN 360
Query: 139 AAASKAEASTAE 150
+ S A A AE
Sbjct: 361 NSNSSASAIIAE 372
>gnl|CDD|199823 cd10498, MH2_SMAD_4, C-terminal Mad Homology 2 (MH2) domain in
SMAD4. The MH2 domain is located at the C-terminus of
the SMAD (small mothers against decapentaplegic) family
of proteins, which are signal transducers and
transcriptional modulators that mediate multiple
signaling pathways. The MH2 domain is responsible for
type I receptor interaction, phosphorylation-triggered
homo- and hetero-oligomerization, and transactivation.
It is negatively regulated by the N-terminal MH1 domain.
SMAD4, which belongs to the Dwarfin family of proteins,
is involved in many cell functions such as
differentiation, apoptosis, gastrulation, embryonic
development and the cell cycle. SMAD4 binds receptor
regulated SMADs (R-SMADs) such as SMAD1 or SMAD2, and
forms an oligomeric complex that binds to DNA and serves
as a transcription factor. SMAD4 is often mutated in
several cancers, such as multiploid colorectal cancer,
cervical cancer and pancreatic carcinoma, as well as in
juvenile polyposis syndrome.
Length = 222
Score = 28.2 bits (63), Expect = 9.3
Identities = 10/16 (62%), Positives = 13/16 (81%)
Query: 290 QVGESFKPPKTCTTVS 305
QVGE+FK P +C TV+
Sbjct: 15 QVGETFKVPSSCPTVT 30
>gnl|CDD|180536 PRK06347, PRK06347, autolysin; Reviewed.
Length = 592
Score = 28.5 bits (63), Expect = 9.8
Identities = 17/60 (28%), Positives = 24/60 (40%), Gaps = 3/60 (5%)
Query: 4 NSAELTKNEAPGEDLPGSSKSTEQDAPPAEALPAVN---VNPLDTNTVSDVKNLESHSTP 60
+ +N P +++ EQ P E PA P + TVS+ N S STP
Sbjct: 74 PATATPENTTEPTVEPKQTETKEQTKTPEEKQPAAKQVEKAPAEPATVSNPDNATSSSTP 133
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
0.308 0.126 0.357
Gapped
Lambda K H
0.267 0.0771 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 25,611,307
Number of extensions: 2413189
Number of successful extensions: 1719
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1678
Number of HSP's successfully gapped: 81
Length of query: 527
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 426
Effective length of database: 6,457,848
Effective search space: 2751043248
Effective search space used: 2751043248
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 61 (27.2 bits)