RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12903
(267 letters)
>gnl|CDD|220671 pfam10275, Peptidase_C65, Peptidase C65 Otubain. This family of
proteins conserved from plants to humans is a highly
specific ubiquitin iso-peptidase that removes ubiquitin
from proteins. The modification of cellular proteins by
ubiquitin (Ub) is an important event that underlies
protein stability and function in eukaryote being a
dynamic and reversible process. Otubain carries several
key conserved domains: (i) the OTU (ovarian tumour
domain) in which there is an active cysteine protease
triad (ii) a nuclear localisation signal, (iii) a Ub
interaction motif (UIM)-like motif phi-xx-A-xxxs-xx-Ac
(where phi indicates an aromatic amino acid, x indicates
any amino acid and Ac indicates an acidic amino acid),
(iv) a Ub-associated (UBA)-like domain and (v) the LxxLL
motif.
Length = 237
Score = 258 bits (661), Expect = 6e-87
Identities = 113/237 (47%), Positives = 158/237 (66%), Gaps = 10/237 (4%)
Query: 40 EISDSIMLVGDKEDIMVLEQQY-IGDEVYKGKVKDLARKYSNLRRTRPDGNCFFRSFGFA 98
E + LVG+KE + L ++Y + D +Y K+KDL++KYS +RR R DGNCF+R+FGF+
Sbjct: 1 EEENQGPLVGEKEPLSALTKEYALADPIYLKKIKDLSKKYSGIRRVRGDGNCFYRAFGFS 60
Query: 99 LLESL-------YHLDFRLIAEKSKDKLLELGFQKFTLEDFHDQFMEVVNLI-SKPETNE 150
LE L F E K+KL+ LGF +FT EDF D+F+E++ + T+
Sbjct: 61 YLEILLRKKDPAEINRFIARIESLKEKLVALGFDEFTFEDFLDEFIELLEKLEDGGSTSR 120
Query: 151 DTLVEVFNNKDYSDYVVVYLRLIASGQLQQDADFYQNFIEGNRTVFEFCRQEVEPMFKES 210
+ L++ FN+ +YSDY+V++ RL+ S ++++AD YQ FI+ TV EFC QEVEPM KES
Sbjct: 121 EELLKAFNDPEYSDYIVIFFRLLTSAYIKENADEYQPFIDELLTVEEFCEQEVEPMAKES 180
Query: 211 DHIHIIALSTALDVGVRVRYMDRGDSTEAIAHDFPED-KPPQIHLLYRPGHYDILYP 266
DH+ IIAL+ AL + VRV Y+DR + E H+FP + P+I LLYRPGHYDILYP
Sbjct: 181 DHVQIIALAEALGIPVRVEYLDRSEGNEYNHHNFPPEPNAPKITLLYRPGHYDILYP 237
>gnl|CDD|216981 pfam02338, OTU, OTU-like cysteine protease. This family is
comprised of a group of predicted cysteine proteases,
homologous to the Ovarian Tumour (OTU) gene in
Drosophila. Members include proteins from eukaryotes,
viruses and pathogenic bacterium. The conserved cysteine
and histidine, and possibly the aspartate, represent the
catalytic residues in this putative group of proteases.
Length = 123
Score = 34.0 bits (78), Expect = 0.023
Identities = 23/101 (22%), Positives = 38/101 (37%), Gaps = 11/101 (10%)
Query: 169 YLRLIASGQLQQDADFYQNFIEGNRTVFEFCRQEVEPMFKESDHIHIIALSTALDVGVRV 228
LR L+++ + ++ F+E + + + +I I AL+ L V + V
Sbjct: 26 ELREAVVEYLRENREDFEKFLEED---ENEYYKWISKDGAWGGNIEIFALAHILRVPIIV 82
Query: 229 RYMDRGDSTEAIAHDF---PEDKPPQIHLLY-----RPGHY 261
+ G T I P +K P I L Y HY
Sbjct: 83 YKLQGGRITVYIKIYGTYLPLNKKPVIRLSYLGLEYTGNHY 123
Score = 32.1 bits (73), Expect = 0.11
Identities = 13/64 (20%), Positives = 22/64 (34%), Gaps = 2/64 (3%)
Query: 85 RPDGNCFFRSFGFALLESLYHLDFRLIAEKSKDKLLELGFQKFTLEDFHDQFMEVVNLIS 144
DGNC F + L ++ + E + L E ++ + + E IS
Sbjct: 1 PGDGNCLFHAVSDQLGDAGRQELHDELREAVVEYLREN--REDFEKFLEEDENEYYKWIS 58
Query: 145 KPET 148
K
Sbjct: 59 KDGA 62
>gnl|CDD|227826 COG5539, COG5539, Predicted cysteine protease (OTU family)
[Posttranslational modification, protein turnover,
chaperones].
Length = 306
Score = 35.2 bits (81), Expect = 0.027
Identities = 34/226 (15%), Positives = 78/226 (34%), Gaps = 28/226 (12%)
Query: 56 VLEQQYIGDEVYKGKVKDLARKYSNLRR-TRPDGNCFFRSFGFALLESLYHLDFRLIAEK 114
+ E+Q + + K+ + ++ + R R +G C S+ + + + + +
Sbjct: 17 LTEKQRFELKDLQTKITRIMKQLTFGRPPQRLNGKCLDLSYALSQKDEVEIEKAPKLRAE 76
Query: 115 SKDKLLELGFQKFTLEDFHDQFMEVVNLISKPETNEDTLVEVFNNKDYSDYV-------- 166
+ + + Q + + + S ++ + V + D
Sbjct: 77 TNE------ADQ-EDSLTPLQNIPELGISSFEKSVSQQSINVLEDMPGQDDNSRLFQAER 129
Query: 167 -------VVYLRLIASGQLQQDADFYQNFIEGNRTVFEFCRQEVEPMFKESDHIHIIALS 219
V LR + S ++ + D Y I V + V+P + I I +S
Sbjct: 130 YSLRDASVAKLREVVSLEVLSNPDLYNPAILE-IDVIAYATWIVKPDSQGDGCIEIAIIS 188
Query: 220 TALDVGVRVRYMDRGDSTEAIAHDFPEDKPPQIHLLYRPGHYDILY 265
L V + V +D+ +H + + +I +L+ H+D
Sbjct: 189 DQLPVRIHVVDVDKDSEDRYNSHPYVQ----RISILFTGIHFDEET 230
>gnl|CDD|177970 PLN02336, PLN02336, phosphoethanolamine N-methyltransferase.
Length = 475
Score = 31.6 bits (72), Expect = 0.39
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 119 LLELGFQKFTLEDFHDQFMEVVNL-ISKPETNEDTLVEVFNNKDYSDYV 166
L + GF ED DQF++V+ + E +D + F+ +DY+D V
Sbjct: 402 LKDAGFDDVIAEDRTDQFLQVLQRELDAVEKEKDEFISDFSEEDYNDIV 450
>gnl|CDD|223615 COG0541, Ffh, Signal recognition particle GTPase [Intracellular
trafficking and secretion].
Length = 451
Score = 30.6 bits (70), Expect = 0.96
Identities = 13/31 (41%), Positives = 19/31 (61%), Gaps = 3/31 (9%)
Query: 112 AEKSKDKLLELGFQKFTLEDFHDQFMEVVNL 142
AEK +KL + KFTLEDF +Q ++ +
Sbjct: 315 AEKLAEKLKK---GKFTLEDFLEQLEQMKKM 342
>gnl|CDD|237790 PRK14694, PRK14694, putative mercuric reductase; Provisional.
Length = 468
Score = 29.5 bits (66), Expect = 2.0
Identities = 16/60 (26%), Positives = 31/60 (51%), Gaps = 5/60 (8%)
Query: 10 QASFDKGYSEDANQVNQDDLILQQSKNIEKEISDSIM--LVGDKEDIMVL--EQQYIGDE 65
++ FD G S A V++ L+ QQ +E E+ +S ++ + I VL E +++ +
Sbjct: 67 ESPFDDGLSAQAPVVDRSALLAQQQARVE-ELRESKYQSILRENAAITVLNGEARFVDER 125
>gnl|CDD|227354 COG5021, HUL4, Ubiquitin-protein ligase [Posttranslational
modification, protein turnover, chaperones].
Length = 872
Score = 29.3 bits (66), Expect = 2.8
Identities = 18/77 (23%), Positives = 27/77 (35%), Gaps = 9/77 (11%)
Query: 127 FTLEDFHDQFMEVVNLISKPETNEDTLVEVFNNKDYSDYVVVYLRLIASGQLQQDADFYQ 186
FT+ED V LI + V N K+Y VV Y +L + Q +
Sbjct: 672 FTVEDDSFGESRTVELI---PNGRNISVTNENKKEYVKKVVDY-KLNKRVEKQ-----FS 722
Query: 187 NFIEGNRTVFEFCRQEV 203
F G + ++
Sbjct: 723 AFKSGFSEIIPPDLLQI 739
>gnl|CDD|185013 PRK15053, dpiB, sensor histidine kinase DpiB; Provisional.
Length = 545
Score = 29.0 bits (65), Expect = 3.1
Identities = 22/94 (23%), Positives = 38/94 (40%), Gaps = 10/94 (10%)
Query: 91 FFRSFGFALLESLYHLDFRLIAEKSKDKLLELGFQKFTLEDFHDQFMEVVNLISKPETNE 150
FF+ F L L L F + + + F+ + D M +I+ +
Sbjct: 12 FFQRLAFPLRIFLLILVFSIFVIAALAQYFSASFEDYLTLHVRDMAMNQAKIIA----SN 67
Query: 151 DTLVEVFNNKDYSDYVVVYLRLIASGQLQQDADF 184
D+++ +DY L IA+ +LQ+D DF
Sbjct: 68 DSVISAVKTRDYKR-----LATIAN-KLQRDTDF 95
>gnl|CDD|172537 PRK14045, PRK14045, 1-aminocyclopropane-1-carboxylate deaminase;
Provisional.
Length = 329
Score = 28.3 bits (63), Expect = 4.0
Identities = 16/45 (35%), Positives = 23/45 (51%), Gaps = 11/45 (24%)
Query: 37 IEKEISDSIMLVGDKEDIMVLEQQYIGDEVYKGK----VKDLARK 77
I KE++ I VG E +++ D VY GK + DLA+K
Sbjct: 263 ITKEVAKLIRSVGTMEGLIL-------DPVYTGKAFYGLMDLAKK 300
>gnl|CDD|236780 PRK10867, PRK10867, signal recognition particle protein;
Provisional.
Length = 433
Score = 28.5 bits (65), Expect = 4.1
Identities = 12/31 (38%), Positives = 17/31 (54%), Gaps = 3/31 (9%)
Query: 112 AEKSKDKLLELGFQKFTLEDFHDQFMEVVNL 142
AEK KL + KF LEDF +Q ++ +
Sbjct: 316 AEKLAKKLKK---GKFDLEDFLEQLQQMKKM 343
>gnl|CDD|223831 COG0760, SurA, Parvulin-like peptidyl-prolyl isomerase
[Posttranslational modification, protein turnover,
chaperones].
Length = 320
Score = 27.7 bits (61), Expect = 5.7
Identities = 14/64 (21%), Positives = 22/64 (34%), Gaps = 1/64 (1%)
Query: 18 SEDANQVNQDDLILQQSKNIEKEISDSIMLVGDKED-IMVLEQQYIGDEVYKGKVKDLAR 76
E + +D L +Q E+ +LV + L G K +LA+
Sbjct: 146 EEQEAEALRDKLQNKQQGKKVTEVQARHILVKAEAKAKEALALLKKGVREAKADFAELAK 205
Query: 77 KYSN 80
K S
Sbjct: 206 KQSE 209
>gnl|CDD|233068 TIGR00642, mmCoA_mut_beta, methylmalonyl-CoA mutase, heterodimeric
type, beta chain. The adenosylcobalamin-binding,
catalytic chain of methylmalonyl-CoA mutase may form
homodimers, as in mitochondrion and E. coli, or
heterodimers with a shorter, homologous chain that does
not bind adenosylcobalamin. This model describes this
non-catalytic beta chain, as found in the enzyme from
Propionibacterium freudenreichii, for which the
3-dimensional structure has been solved [Central
intermediary metabolism, Other].
Length = 619
Score = 27.6 bits (61), Expect = 7.9
Identities = 18/80 (22%), Positives = 28/80 (35%), Gaps = 11/80 (13%)
Query: 71 VKDLARKYSNLRRTRPDGNCFFRSFGFALLESLYHLDFRLIAEKSKDKLLELGFQ----- 125
V+ A+ + R D N + + + E + L + L E GF
Sbjct: 204 VRRAAKFSPDSRAVTVDANIYHNAGAGDVAELAWALAT---GAEYLRALTEQGFTATEAF 260
Query: 126 ---KFTLEDFHDQFMEVVNL 142
F + HDQFM + L
Sbjct: 261 DTINFRVTATHDQFMTIAKL 280
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 0.139 0.399
Gapped
Lambda K H
0.267 0.0739 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,999,132
Number of extensions: 1369371
Number of successful extensions: 1254
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1248
Number of HSP's successfully gapped: 36
Length of query: 267
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 172
Effective length of database: 6,723,972
Effective search space: 1156523184
Effective search space used: 1156523184
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: 58 (26.1 bits)