RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9966
(1101 letters)
>gnl|CDD|224157 COG1236, YSH1, Predicted exonuclease of the beta-lactamase fold
involved in RNA processing [Translation, ribosomal
structure and biogenesis].
Length = 427
Score = 224 bits (573), Expect = 2e-64
Identities = 97/284 (34%), Positives = 136/284 (47%), Gaps = 8/284 (2%)
Query: 1 MFQVKVGNQSIVYTGDYNMTPDRHLGAAWIDKCRPDLLITESTYATTIRDSKRCRERDFL 60
++V I+YTGD DR L A + C D+LI ESTY + ++ ER F+
Sbjct: 148 AILLEVDGGRILYTGDVKRRKDRLLNGAELPPC-IDVLIVESTYGDRLHPNRDEVERRFI 206
Query: 61 KKVHECVDRGGKVLIPVFALGRAQELCILLETYWERMNLQAPIYFAVGLTEKATNYYKMF 120
+ V ++RGG VLIP FALGRAQEL ++L PIY + A Y K
Sbjct: 207 ESVKAALERGGTVLIPAFALGRAQELLLILRELGFAG--DYPIYVDGPIARVALAYAKYP 264
Query: 121 ITWTNQKIRKTFVQRNMFDFKHIRPFDKSFIDNPGPMVVFATPGMLHSGLSLIIFKKWAP 180
I + K R + R + ID GP VV A PGML G S K
Sbjct: 265 IGLDLPDLLKVAESR-FRFVESRRNSMREGID-KGPAVVLAAPGMLKGGRSRYYLKHLLS 322
Query: 181 VENNMLIMPGFCVQGTIGHKVLSGVKKLEFENKQIIDVKMAIEYMSFSAHADAKGIMQLI 240
E N +++PG+ +GT+G +L G + I VK +E + FSAHAD +++ I
Sbjct: 323 DEKNWVLLPGYQAEGTLGRVLLEGGTSVH-IKGIEIKVKARVEELDFSAHADGDELLEFI 381
Query: 241 QYCEPKNVLLVHGEASKMVFLKEKIKQEF--NLDCFMPANGESC 282
+ P V+LVHGE L+ ++ +E + +PANGE
Sbjct: 382 KDISPPKVVLVHGEPEYGAALRARLLEELIGIRELELPANGEEY 425
>gnl|CDD|188365 TIGR03675, arCOG00543, arCOG00543 universal archaeal
KH-domain/beta-lactamase-domain protein. This family of
proteins is universal in the archaea and consistsof an
N-terminal type-1 KH-domain (pfam00013) a central
beta-lactamase-domain (pfam00753) with a C-terminal
motif associated with RNA metabolism (pfam07521).
KH-domains are associated with RNA-binding, so taken
together, this protein is a likely metal-dependent
RNAase. This family was defined in as arCOG01782.
Length = 630
Score = 179 bits (457), Expect = 3e-47
Identities = 93/287 (32%), Positives = 154/287 (53%), Gaps = 17/287 (5%)
Query: 11 IVYTGDYNMTPDRHLGAAWIDKCRPDLLITESTY--ATTIRDSKRCRERDFLKKVHECVD 68
IVYTGD+ R L A R + LI ESTY + S+ E++ +K V+E +
Sbjct: 341 IVYTGDFKYEKTRLLDPAVNKFPRVETLIMESTYGGRDDYQPSREEAEKELIKVVNETIK 400
Query: 69 RGGKVLIPVFALGRAQELCILLETYWERMNL-QAPIYFAVGLTEKATNYYKMFITWTNQK 127
RGGKVLIPVFA+GRAQE+ ++LE + + + P+Y G+ +AT + + + N++
Sbjct: 401 RGGKVLIPVFAVGRAQEVMLVLEEAMRKGLIPEVPVYLD-GMIWEATAIHTAYPEYLNKE 459
Query: 128 IRKTFVQR--NMFD---FKHIRPFDK--SFIDNPGPMVVFATPGMLHSGLSLIIFKKWAP 180
+R+ N F F + D+ I++ P ++ AT GML+ G + FK AP
Sbjct: 460 LRERIFHEGENPFLSEIFHRVEGSDERREIIESDEPAIILATSGMLNGGPVVEYFKLLAP 519
Query: 181 VENNMLIMPGFCVQGTIGHKVLSGVKKLEFENK---QIIDVKMAIEYMS-FSAHADAKGI 236
N L+ G+ +GT+G ++ SG +++ + + I + M +E + FS H+D + +
Sbjct: 520 DPRNSLVFVGYQAEGTLGRRIQSGWREIPLTDDGKTETIKINMEVETIEGFSGHSDRRQL 579
Query: 237 MQLIQYCEPK--NVLLVHGEASKMVFLKEKIKQEFNLDCFMPANGES 281
M ++ +PK +LL HGE SK + L I ++F ++ P N E+
Sbjct: 580 MNYVRRMQPKPEKILLNHGEPSKCLDLASSIYKKFKIETIAPKNLET 626
>gnl|CDD|224696 COG1782, COG1782, Predicted metal-dependent RNase, consists of a
metallo-beta-lactamase domain and an RNA-binding KH
domain [General function prediction only].
Length = 637
Score = 179 bits (455), Expect = 5e-47
Identities = 95/292 (32%), Positives = 160/292 (54%), Gaps = 18/292 (6%)
Query: 7 GNQSIVYTGDYNMTPDRHLGAAWIDKCRPDLLITESTY--ATTIRDSKRCRERDFLKKVH 64
G +IVYTGD+ R L A R + LI ESTY ++ + E++ +K ++
Sbjct: 343 GLYNIVYTGDFKFEKTRLLEPANNKFPRVETLIMESTYGGRDDVQPPREEAEKELIKVIN 402
Query: 65 ECVDRGGKVLIPVFALGRAQELCILLETYWERMNL-QAPIYFAVGLTEKATNYYKMFITW 123
+ + RGGKVLIPVFA+GR+QE+ I+LE + + + P+Y G+ +AT + + +
Sbjct: 403 DTLKRGGKVLIPVFAVGRSQEVMIVLEEAMRKGLIPEVPVYLD-GMIWEATAIHTAYPEY 461
Query: 124 TNQKIRKTFVQR--NMF---DFKHIRPFDK--SFIDNPGPMVVFATPGMLHSGLSLIIFK 176
N+++R+ N F FK + D+ I++ P ++ AT GML+ G + FK
Sbjct: 462 LNKELRERIFHEGENPFLSEIFKRVEGSDERQEIIESDEPAIILATSGMLNGGPVVEYFK 521
Query: 177 KWAPVENNMLIMPGFCVQGTIGHKVLSGVKKLEFENK----QIIDVKMAIEYMS-FSAHA 231
AP N LI G+ +GT+G ++ SG K++ + ++I V M +E + FS H+
Sbjct: 522 HLAPDPKNTLIFVGYQAEGTLGRRIQSGAKEIPIPGEDGKTEVIKVNMEVETIEGFSGHS 581
Query: 232 DAKGIMQLIQYCEPK--NVLLVHGEASKMVFLKEKIKQEFNLDCFMPANGES 281
D + +M+ ++ PK +LL HGE SK + L I+++F ++ + P N E+
Sbjct: 582 DRRQLMKYVRRMNPKPEKILLNHGEPSKCLDLASSIRRKFKIETYAPKNLET 633
>gnl|CDD|214983 smart01027, Beta-Casp, Beta-Casp domain. The beta-CASP domain is
found C terminal to the beta-lactamase domain in
pre-mRNA 3'-end-processing endonuclease. The active site
of this enzyme is located at the interface of these two
domains.
Length = 126
Score = 139 bits (354), Expect = 1e-38
Identities = 47/126 (37%), Positives = 66/126 (52%), Gaps = 7/126 (5%)
Query: 83 AQELCILLETYWERMNLQ-APIYFAVGLTEKATNYYKMFITWTNQKIRKTFVQ-RNMFDF 140
QEL ++LE W L PIY + +AT YK + W + +IRK F Q RN FDF
Sbjct: 1 TQELLLILEELWREGELPNVPIYLDSPMAARATEIYKSYPEWMSDEIRKRFEQGRNPFDF 60
Query: 141 KHIRPFD-----KSFIDNPGPMVVFATPGMLHSGLSLIIFKKWAPVENNMLIMPGFCVQG 195
K+++ K D GP V+ A+ GML G S K+ AP N +I+ G+ +G
Sbjct: 61 KNLKFVKSLEESKRLNDYKGPKVIIASSGMLTGGRSRHYLKRLAPDPRNTVILTGYQAEG 120
Query: 196 TIGHKV 201
T+G K+
Sbjct: 121 TLGRKL 126
>gnl|CDD|220932 pfam10996, Beta-Casp, Beta-Casp domain. The beta-CASP domain is
found C terminal to the beta-lactamase domain in
pre-mRNA 3'-end-processing endonuclease. The active site
of this enzyme is located at the interface of these two
domains.
Length = 124
Score = 115 bits (291), Expect = 3e-30
Identities = 44/125 (35%), Positives = 62/125 (49%), Gaps = 7/125 (5%)
Query: 83 AQELCILLETYWERMNLQ-APIYFAVGLTEKATNYYKMFITWTNQKIRKTFVQRNMFDFK 141
AQEL +LLE W + PIY + KAT YK + W + K F+ R F F
Sbjct: 1 AQELLLLLEELWREGIPKDVPIYLDSPMAIKATEIYKSYPEWLSDSA-KEFLLRGAFPFD 59
Query: 142 HIRPFD-----KSFIDNPGPMVVFATPGMLHSGLSLIIFKKWAPVENNMLIMPGFCVQGT 196
+++ K + GP V+ A+ GML G SL KK AP N +I+ G+ +GT
Sbjct: 60 NLKFVRSVDESKELNNLGGPKVIIASSGMLEGGRSLHYLKKLAPDPKNTVILTGYQAEGT 119
Query: 197 IGHKV 201
+G K+
Sbjct: 120 LGRKL 124
>gnl|CDD|203663 pfam07521, RMMBL, RNA-metabolising metallo-beta-lactamase. The
metallo-beta-lactamase fold contains five sequence
motifs. The first four motifs are found in pfam00753 and
are common to all metallo-beta-lactamases. The fifth
motif appears to be specific to function. This entry
represents the fifth motif from metallo-beta-lactamases
involved in RNA metabolism.
Length = 43
Score = 59.0 bits (144), Expect = 2e-11
Identities = 17/43 (39%), Positives = 30/43 (69%)
Query: 214 QIIDVKMAIEYMSFSAHADAKGIMQLIQYCEPKNVLLVHGEAS 256
++I VK +E + FS HAD + +++L++ +P+ V+LVHGE
Sbjct: 1 EVIPVKARVETLHFSGHADQEELLELLKLLKPEKVILVHGEPR 43
>gnl|CDD|222313 pfam13679, Methyltransf_32, Methyltransferase domain. This family
appears to be a methyltransferase domain.
Length = 143
Score = 57.2 bits (139), Expect = 1e-09
Identities = 27/102 (26%), Positives = 36/102 (35%), Gaps = 17/102 (16%)
Query: 779 KRKSKAPVVSI-KDEELVVCKDKCKQI---------THFVTPDSDISSILSQAYPQDSLH 828
KRK VV I ELV +K F+ + +S P
Sbjct: 49 KRKYGVRVVGIDARAELV---EKANARAQKLGFNKRMSFLEGTIA-GATVSARLPDPVD- 103
Query: 829 NVCIMGLHTCGDLSGTALRLFTKSSLQCLVQVGCCYHLLEEE 870
+ LH C + ALR + +V V CCYH L E+
Sbjct: 104 --VVTALHACDTATDDALRFALCKQAKAIVLVPCCYHELAEQ 143
Score = 43.3 bits (103), Expect = 8e-05
Identities = 18/77 (23%), Positives = 34/77 (44%), Gaps = 9/77 (11%)
Query: 669 KKSYEVQVMSQVVAAVTNSCDSSH----IIDLGGGQGYLSTILALQ-----HGKKTLSLD 719
KK ++V+ +++ V + ++D G G+GYL IL +G + + +D
Sbjct: 1 KKLHQVERLAEFVEPLIKEVLDKTGCITVVDHGAGKGYLGFILYYLLFKRKYGVRVVGID 60
Query: 720 YNQVNTHGAAVRSKKLE 736
A R++KL
Sbjct: 61 ARAELVEKANARAQKLG 77
>gnl|CDD|200373 TIGR04122, Xnuc_lig_assoc, putative exonuclease, DNA
ligase-associated. Members of this protein family
frequently are found annotated as a putative exonuclease
involved in mRNA processing. This protein is found,
exclusively in bacteria, associated with three other
proteins: an ATP-dependent DNA ligase, a helicase, and
putative phosphoesterase.
Length = 326
Score = 41.8 bits (99), Expect = 0.001
Identities = 34/126 (26%), Positives = 51/126 (40%), Gaps = 24/126 (19%)
Query: 3 QVKV--GNQSIVYTGDYNMTPDRHLGAAWIDKCRP------DLLITESTYATTI--RDSK 52
QV++ G + V +GDY PD C P D ITE+T+ +
Sbjct: 93 QVRLEYGGEVWVVSGDYKRAPDP--------TCAPFEPVPCDTFITEATFGLPVFRWPPP 144
Query: 53 RCRERDFLKKVHECVDRGGKVLIPVFALGRAQELCILLETYWERMNLQAPIYFAVGLTEK 112
L + + G L+ +ALG+AQ + LL ++R PIY G E
Sbjct: 145 AEEIAKILAWWAQNPEAGRASLLGAYALGKAQRVLALLRAAYDR-----PIYLH-GAVEN 198
Query: 113 ATNYYK 118
T+ Y+
Sbjct: 199 LTDLYR 204
>gnl|CDD|202525 pfam03069, FmdA_AmdA, Acetamidase/Formamidase family. This family
includes amidohydrolases of formamide EC:3.5.1.49 and
acetamide. Methylophilus methylotrophus fmdA forms a
homotrimer suggesting all the members of this family
also do.
Length = 316
Score = 40.5 bits (95), Expect = 0.004
Identities = 21/100 (21%), Positives = 34/100 (34%), Gaps = 19/100 (19%)
Query: 274 FMPANGESCFVQTDMKISIDVSVNLLKEEAVKY----NSEPPNPLKERQIHGVLVIKDSS 329
+GE CF +M + V V ++K P P++ R ++V
Sbjct: 189 ASQGDGEVCFCAIEMSGEVTVKVEVIKGGLEWPGLETPPFDPGPVEPRFYDWLIV----- 243
Query: 330 ISLMDVDEACKEVGISRHIVRFTSNVQISDSSPINKTLEL 369
+ VDEA KE + I+ T+E
Sbjct: 244 -EGISVDEAIKEH---------YLDATIAYRRACLNTIEY 273
>gnl|CDD|217904 pfam04113, Gpi16, Gpi16 subunit, GPI transamidase component. GPI
(glycosyl phosphatidyl inositol) transamidase is a
multi-protein complex. Gpi16, Gpi8 and Gaa1 for a
sub-complex of the GPI transamidase. GPI transamidase
that adds glycosylphosphatidylinositols (GPIs) to newly
synthesised proteins. Gpi16 is an essential
N-glycosylated transmembrane glycoprotein. Gpi16 is
largely found on the lumenal side of the ER. It has a
single C-terminal transmembrane domain and a small
C-terminal, cytosolic extension with an ER retrieval
motif.
Length = 559
Score = 37.4 bits (87), Expect = 0.039
Identities = 36/237 (15%), Positives = 81/237 (34%), Gaps = 47/237 (19%)
Query: 267 QEFNLDCFMPANGESCFVQTDMKISIDVSVNLLKEEAVKYNSEPPNPLKERQIHGVLV-I 325
Q +D + + + M+ ++DV +++ + + + + P L
Sbjct: 211 QSMAIDVRPVCDDDQGECKLQMEQTVDVVLDVERSKRPRLKPDTQKPCHSDDTCFPLGDT 270
Query: 326 KDSSISLMD-----VDEACKEVGISRHIVRFTSNVQISDSSPINKTLELIYDQLLSYLQD 380
+ S SL + + +C S+ ++ + ++ S + + ++ D
Sbjct: 271 SEVSWSLSELFGRPLKGSCPLADSSKVCLQVPESRSVNVSPGAREVKG-TDGFIRTFDLD 329
Query: 381 KSQEYKIQLTE----SSLSIDSVLLSVER--IDDKNKRVFVTWPNQDEEVGKIVLHVLKS 434
S + ++L + ++ D +L ER +R G + +
Sbjct: 330 NSTPFDLKLPWPESTTVVTSDQPVLKAERSLTGHGQER------------GGLRIIF--- 374
Query: 435 MSNTQGQP-----FEFYPYTDTVFVLSSSRYVQGTYYLHTYLTSVTKHQKETMELIK 486
+N FE P+ +V+ YLHT + QK T +LI+
Sbjct: 375 -TNPSSSTVEFIYFEILPW-----------FVRV--YLHTLQIKIDGQQKPTKDLIE 417
>gnl|CDD|100107 cd02440, AdoMet_MTases, S-adenosylmethionine-dependent
methyltransferases (SAM or AdoMet-MTase), class I;
AdoMet-MTases are enzymes that use
S-adenosyl-L-methionine (SAM or AdoMet) as a substrate
for methyltransfer, creating the product
S-adenosyl-L-homocysteine (AdoHcy). There are at least
five structurally distinct families of AdoMet-MTases,
class I being the largest and most diverse. Within this
class enzymes can be classified by different substrate
specificities (small molecules, lipids, nucleic acids,
etc.) and different target atoms for methylation
(nitrogen, oxygen, carbon, sulfur, etc.).
Length = 107
Score = 33.2 bits (76), Expect = 0.16
Identities = 17/70 (24%), Positives = 29/70 (41%), Gaps = 9/70 (12%)
Query: 693 IIDLGGGQGYLSTILALQHGKKTLSLDYNQVNTHGAAVRSKKLE---------DSEKESK 743
++DLG G G L+ LA G + +D + V A + L D+E+
Sbjct: 2 VLDLGCGTGALALALASGPGARVTGVDISPVALELARKAAAALLADNVEVLKGDAEELPP 61
Query: 744 GPFQSYAGVI 753
+S+ +I
Sbjct: 62 EADESFDVII 71
>gnl|CDD|218968 pfam06276, FhuF, Ferric iron reductase FhuF-like transporter. This
family consists of several bacterial ferric iron
reductase protein (FhuF) sequences. FhuF is involved in
the reduction of ferric iron in cytoplasmic ferrioxamine
B. This family also includes the IucA and IucC proteins.
Length = 163
Score = 32.0 bits (73), Expect = 0.83
Identities = 20/99 (20%), Positives = 31/99 (31%), Gaps = 25/99 (25%)
Query: 1004 YFLKTALAPVIEALIVLDRVL--------------------YLREQQKPQIISNLFLSLL 1043
+L L P++ L+ L YLR+ Q ++ + L L
Sbjct: 6 RYLGLLLPPLLHLLLAYGIALEAHGQNVLLVLDEDGRPVRLYLRDFQGVRLSPDPLLELP 65
Query: 1044 TQVDDEEVTRLFDSHQREYEYLQIYYFLKTALAPVIEAL 1082
L + E + YY L P+I AL
Sbjct: 66 EAEKSS----LLYDDEELRERIF-YYLFVNHLRPLIAAL 99
>gnl|CDD|129037 smart00801, dDENN, Domain always found downstream of DENN domain,
found in a variety of signalling proteins. The dDENN
domain is part of the tripartite DENN domain. It is
always found downstream of the DENN domain itself, which
is found in a variety of signalling proteins involved in
Rab-mediated processes or regulation of MAPKs signalling
pathways. The DENN domain is always encircled on both
sides by more divergent domains, called uDENN (for
upstream DENN) and dDENN (for downstream DENN). The
function of the DENN domain remains to date unclear,
although it appears to represent a good candidate for a
GTP/GDP exchange activity.
Length = 69
Score = 29.2 bits (66), Expect = 1.9
Identities = 11/36 (30%), Positives = 19/36 (52%)
Query: 125 NQKIRKTFVQRNMFDFKHIRPFDKSFIDNPGPMVVF 160
N +IR+ F++ + F R F + PGP++ F
Sbjct: 1 NDEIREAFLRFFVNLFGGYRNFLRELRKEPGPVITF 36
>gnl|CDD|221897 pfam13017, Maelstrom, piRNA pathway germ-plasm component.
Maelstrom is a germ-plasm component protein, that is
shown to be functionally involved in the piRNA pathway.
It is conserved throughout Eukaryota, though it appears
to have been lost from all examined teleost fish
species. The domain architecture shows that it is
coupled with several DNA- and RNA- related domains such
as HMG box, SR-25-like and HDAC_interact domains.
Sequence analysis and fold recognition have found a
distant similarity between Maelstrom domain and the DnaQ
3'-5' exonuclease family with the RNase H fold
(Exonuc_X-T, pfam00929); notably, that the Maelstrom
domains from basal eukaryotes contain the conserved
3'-5' exonuclease active site residues
(Asp-Glu-Asp-His-Asp, DEDHD). However, the animal and
some amoeba maelstrom contain another set of conserved
residues (Glu-His-His-Cys-His-Cys, EHHCHC). This
evolutionary link together with structural examinations
leads to the hypothesis that Maelstrom domains may have
a potential nuclease-transposase activity or RNA-binding
ability that may be implicated in piRNA biogenesis. A
protein function evolution mode, namely "active site
switch", has been proposed, in which the amoeba
Maelstrom domains are the possible evolutionary
intermediates due to their harbouring of the specific
characteristics of both 3'-5' exonuclease and Maelstrom
domains.
Length = 213
Score = 30.8 bits (70), Expect = 2.7
Identities = 15/67 (22%), Positives = 27/67 (40%), Gaps = 2/67 (2%)
Query: 218 VKMAIEYMSFSAHADAKGIMQLIQY--CEPKNVLLVHGEASKMVFLKEKIKQEFNLDCFM 275
VK ++Y++ A + + QY K +L + + K+ K N D +
Sbjct: 99 VKSCLKYLASDAGESERIKVYDFQYLFFVLKKEVLDYAGSIKVFPSKHITDALLNKDFYE 158
Query: 276 PANGESC 282
+G SC
Sbjct: 159 YTSGISC 165
>gnl|CDD|224035 COG1110, COG1110, Reverse gyrase [DNA replication, recombination, and
repair].
Length = 1187
Score = 31.2 bits (71), Expect = 3.7
Identities = 15/81 (18%), Positives = 22/81 (27%)
Query: 927 TLPLFYRALLEKYLRSKITINDEEPKVVGRLATKCSNFVEYVHRAVDKLKLDLEVDDEEV 986
R L S + GRL Y + KLK +VD
Sbjct: 425 EESDPKRLLYLLSALSDREARSRLEGLAGRLRRIIRRLSPYSLLKLMKLKKRPDVDRHLA 484
Query: 987 TRLFNSHQREYEYLQIYYFLK 1007
+ + E L+ +K
Sbjct: 485 EEVRTLAEFVRELLKDEERVK 505
>gnl|CDD|220645 pfam10239, DUF2465, Protein of unknown function (DUF2465). FAM98A
and B proteins are found from worms to humans but their
function is unknown. This entry is of a family of
proteins that is rich in glycines.
Length = 318
Score = 30.2 bits (68), Expect = 5.3
Identities = 21/85 (24%), Positives = 38/85 (44%), Gaps = 10/85 (11%)
Query: 567 RLTSLMNGESIITVDELFSKLQARKCGQVVESAKVSQLMSEKKSYEVQVMSQVVAAVTNS 626
RL S + ++ + L S+LQA ++V K K + E + S V +
Sbjct: 89 RLKSKED--CLLLLLFLSSELQA---ARIVLKKKPE-----KMALEEEKCSPVFQELKLI 138
Query: 627 CDSSHIIDLGSTITVDELFSKLQAR 651
C + + + IT+ ELFS ++ +
Sbjct: 139 CATLGLPKPPADITLSELFSGIEKK 163
>gnl|CDD|173809 cd07483, Peptidases_S8_Subtilisin_Novo-like, Peptidase S8 family
domain in Subtilisin_Novo-like proteins. Subtilisins
are a group of alkaline proteinases originating from
different strains of Bacillus subtilis. Novo is one of
the strains that produced enzymes belonging to this
group. The enzymes obtained from the Novo and BPN'
strains are identical. The Carlsburg and Novo
subtilisins are thought to have arisen from a common
ancestral protein. They have similar peptidase and
esterase activities, pH profiles, catalyze
transesterification reactions, and are both inhibited by
diispropyl fluorophosphate, though they differ in 85
positions in the amino acid sequence. Members of the
peptidases S8 and S35 clan include endopeptidases,
exopeptidases and also a tripeptidyl-peptidase. The S8
family has an Asp/His/Ser catalytic triad similar to
that found in trypsin-like proteases, but do not share
their three-dimensional structure and are not homologous
to trypsin. The S53 family contains a catalytic triad
Glu/Asp/Ser with an additional acidic residue Asp in the
oxyanion hole, similar to that of subtilisin.. The
stability of these enzymes may be enhanced by calcium,
some members have been shown to bind up to 4 ions via
binding sites with different affinity. Some members of
this clan contain disulfide bonds. These enzymes can be
intra- and extracellular, some function at extreme
temperatures and pH values.
Length = 291
Score = 30.0 bits (68), Expect = 5.9
Identities = 15/48 (31%), Positives = 21/48 (43%), Gaps = 12/48 (25%)
Query: 217 DVKMAIEY----------MSFSAH--ADAKGIMQLIQYCEPKNVLLVH 252
D+ AI Y MSF + + + I+Y E K VL+VH
Sbjct: 129 DIANAIRYAVDNGAKVINMSFGKSFSPNKEWVDDAIKYAESKGVLIVH 176
>gnl|CDD|223668 COG0595, COG0595, mRNA degradation ribonucleases J1/J2
(metallo-beta-lactamase superfamily) [Translation,
ribosomal structure and biogenesis; Replication,
recombination and repair].
Length = 555
Score = 30.3 bits (69), Expect = 7.4
Identities = 17/50 (34%), Positives = 22/50 (44%), Gaps = 7/50 (14%)
Query: 4 VKVGNQSIVYTGDYNMTPDRHLGA-------AWIDKCRPDLLITESTYAT 46
+K +IVYTGD+ P G A I K LI++ST A
Sbjct: 154 IKTPEGNIVYTGDFKFDPTPVDGEPTDLARLAEIGKEGVLALISDSTNAE 203
>gnl|CDD|220633 pfam10214, Rrn6, RNA polymerase I-specific transcription-initiation
factor. RNA polymerase I-specific
transcription-initiation factor Rrn6 and Rrn7 represent
components of a multisubunit transcription factor
essential for the initiation of rDNA transcription by
Pol I. These proteins are found in fungi.
Length = 753
Score = 30.1 bits (68), Expect = 7.5
Identities = 18/107 (16%), Positives = 39/107 (36%), Gaps = 13/107 (12%)
Query: 484 LIKNTIDEMIEFITPNIACVNTHTV-HFMVEKLWET--TIPKAILSQVNNSPSFDSLLEE 540
+ N ++++ E + + V L + ++P N FDSL+ +
Sbjct: 476 ALGNLLNKLDELWSKVSDAKESSISSSRTVLSLLDELPSLPDHD----QNITEFDSLISQ 531
Query: 541 FWKSRQDNHVETNSELVKFFQAADKFRLTSLMNGESIITVDELFSKL 587
Q + +S + Q + ES ++D+++ KL
Sbjct: 532 LSSHYQSEDLTFSSLINFLNQLIHVL------SEESRTSLDDIYDKL 572
>gnl|CDD|224370 COG1453, COG1453, Predicted oxidoreductases of the aldo/keto
reductase family [General function prediction only].
Length = 391
Score = 29.6 bits (67), Expect = 9.7
Identities = 34/148 (22%), Positives = 49/148 (33%), Gaps = 42/148 (28%)
Query: 931 FYRALLEKYLRSKITINDEEPKVVGRLATK-CSNFVEYVHRAVDKLKLDLEVDDEEVTRL 989
F L+ R K+ LATK S V+ D E++ R+
Sbjct: 65 FLGKALKDGYREKVK-----------LATKLPSWPVK---------------DREDMERI 98
Query: 990 FNSHQREYEYLQIYYF-------LKTALAPVIEALIVLDRVLYLREQQKPQIISNLFLSL 1042
FN + E L Y L T IE L V D +L + + I N S
Sbjct: 99 FN---EQLEKLGTDYIDYYLIHGLNTETWEKIERLGVFD---FLEKAKAEGKIRNAGFS- 151
Query: 1043 LTQVDDEEVTRLFDSHQREYEYLQIYYF 1070
E + D++ ++ LQ Y
Sbjct: 152 -FHGSTEVFKEIVDAYPWDFVQLQYNYI 178
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 0.134 0.387
Gapped
Lambda K H
0.267 0.0812 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 54,659,579
Number of extensions: 5367131
Number of successful extensions: 4483
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4460
Number of HSP's successfully gapped: 34
Length of query: 1101
Length of database: 10,937,602
Length adjustment: 107
Effective length of query: 994
Effective length of database: 6,191,724
Effective search space: 6154573656
Effective search space used: 6154573656
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: 64 (28.3 bits)