RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14915
(1046 letters)
>gnl|CDD|220735 pfam10408, Ufd2P_core, Ubiquitin elongating factor core. This is
the most conserved part of the core region of Ufd2P
ubiquitin elongating factor or E4, running from helix
alpha-11 to alpha-38. It consists of 31 helices of
variable length connected by loops of variable size
forming a compact unit; the helical packing pattern of
the compact unit consists of five structural repeats
that resemble tandem Armadillo (ARM) repeats. This
domain is involved in ubiquitination as it binds Cdc48p
and escorts ubiquitinated proteins from Cdc48p to the
proteasome for degradation. The core is structurally
similar to the nuclear transporter protein
importin-alpha. The core is associated with the U-box at
the C-terminus, pfam04564, which has ligase activity.
Length = 625
Score = 582 bits (1503), Expect = 0.0
Identities = 250/641 (39%), Positives = 369/641 (57%), Gaps = 36/641 (5%)
Query: 339 LGPFFSISVFAEDDVKVGNHFFSSVTDLNNKSIQAT---LQNGLQLTRGFLYRICHTMLR 395
LGP S+S +D +V +FS + + I A L+ L L++I ++LR
Sbjct: 1 LGPLLSLSPLPDDFPEVAEKYFSDPNSRSKQQINALISSLRQTLSNLIDNLFQIFKSLLR 60
Query: 396 NNP-TRETMLGYLAALVGHNEKRAQLQSEESTLAGDGFMLNLLAVFQALS--------DK 446
+P +RE L + A ++ N KR ++Q + TL+ DGFMLNL AV L K
Sbjct: 61 ASPESREKTLSWFAKIINLNHKRRKMQVDPKTLSSDGFMLNLTAVLLRLCQPFLDPTSSK 120
Query: 447 IDLFKVDLMYPFHPNKSEMLSFKNDTRLKMSSQEVEDWLASLSSTAWREPKFSSTCWFLT 506
ID K+D Y S+ + K +TRL +E +++ + S F + C+FLT
Sbjct: 121 ID--KIDPDY-LLRKLSKRIDIKEETRLNADEEEADEFYSEKSEEG--AKNFITECFFLT 175
Query: 507 LHCTHLSLLPALAKYQRRVRSLRDLQKLVDELSSTEETWRGTVIARRNKDFLKRWKHQIK 566
L HL + P + KY+R +R L+ LQ ++EL + W LKR + Q++
Sbjct: 176 LRALHLGIGPLIEKYKRLLRELKRLQDELEELEQSRSNW----------AQLKRLEKQLE 225
Query: 567 KLSRSKACADAGLLDKNLMKKSAVFYMSVAEYLLRVM----TGEENLCNITLPLPSTVRP 622
LS K + LLD +L+++ F VA +LLRV E + LPLP V
Sbjct: 226 ILSAEKLSLEGFLLDPSLLQRLLQFLSFVAVWLLRVADPKNLYPEGQ-KLKLPLPKKVPE 284
Query: 623 EFAALPEWYVEDIAEFLLFALQYIPGIEDVVE-DRCVTWLLVTMCSPQMIKNPYLLAKLI 681
F LPE+++EDI +F+LF P + D ++ D + + ++ M SP+ IKNP+L AKL+
Sbjct: 285 AFKYLPEFFIEDIVDFILFLFSNSPLVLDYIKLDSIIEFCIIFMGSPEYIKNPHLKAKLV 344
Query: 682 EVLFISNPDVQTRTSN-LYDRIMAHKFSSQFLPSYLMKFYTDVETTGSSSEFYDKFTIRY 740
E+LFI P + L D H + + L L+KFY DVE TG+S++FYDKF IRY
Sbjct: 345 EILFIGLPPLDNSQKGFLSDIFEGHPLAKEHLLPALLKFYIDVEKTGASTQFYDKFNIRY 404
Query: 741 HISLILKGMWESPIHRQAFINESKTGNQ-FVKFVNMLMNDTTFLLDESLESLKRIHETQE 799
+IS IL+ +W++P +RQ ESK N FV+F+N+L+ND T+LLDESL LK I + Q+
Sbjct: 405 YISQILEYLWKNPSYRQQLRKESKENNDFFVRFINLLLNDATYLLDESLSYLKEIKQLQK 464
Query: 800 LMRDEAAYAAIPAEQQLSRERQLAADERQCRSYLTLGRETVDMFHYLTVEIKEPFLRPEL 859
++D A + ++ E++ RE +L ERQ +SYL L ETV + LT EI +PFL PE+
Sbjct: 465 ELQDRAEWESLSQEEREERESELRQLERQAKSYLQLANETVKLLKLLTSEIPKPFLSPEI 524
Query: 860 VYRLSAMLNFNLQQLCGPKCNHLKVSSPDKYGWDPRRLLNQLVDIYLHL-DCDEFAAAIA 918
V RL+AMLN+NL QL GPKC++LKV +P+KYG+DP++LL+ +VDIYL+L DEF A+A
Sbjct: 525 VDRLAAMLNYNLDQLVGPKCSNLKVKNPEKYGFDPKQLLSDIVDIYLNLSRSDEFIEAVA 584
Query: 919 QDERSFRKELFDDAADRMERRQILLPSSLDKFRALASRAHE 959
+D RS+ ELF+ A + R + ++KF LA++ E
Sbjct: 585 RDGRSYSPELFEKAERILRRIGLKSEEDIEKFEELANKLEE 625
>gnl|CDD|227444 COG5113, UFD2, Ubiquitin fusion degradation protein 2
[Posttranslational modification, protein turnover,
chaperones].
Length = 929
Score = 379 bits (975), Expect = e-116
Identities = 227/825 (27%), Positives = 375/825 (45%), Gaps = 46/825 (5%)
Query: 241 NQTLPNGFLSDFVCTLYEDEETFKQVMSPILQGVYKAMTEASIADPDYSKPLEALTDLLE 300
LP FLS F ++ + + L+ + + +E L+
Sbjct: 127 KMLLPMIFLSSFKQRQLDEASNLDNLFTSALEALTGLHGVLEEDTVLKN-VMEIYWGLVN 185
Query: 301 IRIGSNVWPVCSALVSQVQFQPELNTKAVGREIAVTSYLGPFFSISVFAEDDVKVGNHFF 360
+ ++V P + + LG S+S + DV +
Sbjct: 186 TKPIADVILKF----------PIYSGTNFPCGFEYKTLLGFIESLSYK-KCDVAARALDY 234
Query: 361 SSV-TDLNNKSIQATLQNGLQLTRGFLYRICHTMLRNNPT-RETMLGYLAALVGHNEKRA 418
+ + + + +L+ L L++I H+++R++ R + Y A ++ N +R+
Sbjct: 235 LGIRSRQVVEKSRRSLRLTLSDHSDKLFQIIHSLVRSSKELRANFMKYFAKVINVNHERS 294
Query: 419 QLQSEESTLAGDGFMLNLLAVFQALSD--------KIDLFKVDLMYPFHPNKSEMLSFKN 470
+ DGFM N+ V S KID VD +Y +P + K
Sbjct: 295 KTIFSWRENISDGFMYNMSMVLSRFSRPFLDIGCSKID--MVDKIYFNNP----RVDIKE 348
Query: 471 DTRLKMSSQEVEDWLASLSSTAWREPKFSSTCWFLTLHCTHLSLLPALAKYQRRVRSLRD 530
+T+L + + ++ + + A F S +FL L H + ++ +R
Sbjct: 349 ETKLNVDEKSLD---SFYTKPAEGSNNFISDIFFLYLTKIHYGVNATFTSCEKFGEYIR- 404
Query: 531 LQKLVDELSSTEETWRGTVIARRNKDFLKRWKHQIKKLSRSKACADAGLL-DKNLMKKSA 589
KL + L G+ A R L R + K SK A G L +L
Sbjct: 405 --KLKESLEYECRLLDGSFQATRLTAQLSRME-AYLKGIDSKMSALNGFLFMTSLFADEF 461
Query: 590 VFYMSVAEYLLRVMTGEENL--CNITLPLPSTVRPEFAALPEWYVEDIAEFLLFALQY-- 645
F + EYL RV TLP F +PE +E+ ++L +++
Sbjct: 462 PFTDFMTEYLARVEDPWPTYPFYYKTLPWMENAPMTFKLIPEATIENALNYVLESIKDWR 521
Query: 646 IPGIEDVVEDRCVTWLLVTMCSPQMIKNPYLLAKLIEVLFISNPDVQTRTSNLYDRIMAH 705
P + +E C +V IKNP L KL L + +++ + ++ I
Sbjct: 522 SPIFKKELEPLCEFVKIVLHR-SSAIKNPMLNRKLDYYLSLGRDEMRMESRSIIHDIFKE 580
Query: 706 -KFSSQFLPSYLMKFYTDVETTGSSSEFYDKFTIRYHISLILKGMWESPIHRQAFINESK 764
K S++L LM FY ++E+TG S++FYDKF IR+ I ++ ++ P + + +
Sbjct: 581 GKVFSRWLLPALMAFYIEIESTGQSTQFYDKFNIRFIICMMKDFEYKQPSYSEGLSSIKD 640
Query: 765 TG-NQFVKFVNMLMNDTTFLLDESLESLKRIHETQELMRDEAAYAAIPAEQQLSRERQLA 823
T FVKF ++ND T LLDE+L+ L H Q L+ D + + I ++ LA
Sbjct: 641 TNLPFFVKFDAKMLNDLTRLLDEALKELVEEHNIQSLLADAISNSNISERIGELQKS-LA 699
Query: 824 ADERQCRSYLTLGRETVDMFHYLTVEIKEPFLRPELVYRLSAMLNFNLQQLCGPKCNHLK 883
+RQ R+ L D+F ++ EI + FL E+V RL+ MLN+NL+ L GPKC LK
Sbjct: 700 FAKRQARNSCLLVDGCFDLFTHILDEIPDAFLVDEIVSRLARMLNYNLKILTGPKCTDLK 759
Query: 884 VSSPDKYGWDPRRLLNQLVDIYLHL-DCDEFAAAIAQDERSFRKELFDDAADRMERRQIL 942
V P++YG++ + LL ++V +Y++L +F A+A D+RSF + F A E + ++
Sbjct: 760 VKDPEQYGFNAKNLLRRMVMVYINLRSESKFVEAVASDKRSFDIDFFRRALRICENKYLI 819
Query: 943 LPSSLDKFRALASRAHEISVANIKKEVDYNDAPDEFRDPLMDTLMEDPVTLP-SGVVMDR 1001
S +++ R+ +R ++ V +E D D PDEF DPLM T+M+DPV LP S + +DR
Sbjct: 820 SESQIEELRSFINRLEKVRVIEAVEEEDMGDVPDEFLDPLMFTIMKDPVKLPTSRITIDR 879
Query: 1002 SVIVRHLLNSSTDPFSRQPLFEDNLKPNEELKKKIEAWKREKIEK 1046
S I HLL+ TDPF+R PL D++ PN EL++KI + + K +K
Sbjct: 880 STIKAHLLSDGTDPFNRMPLTLDDVTPNAELREKINRFYKCKGQK 924
>gnl|CDD|203049 pfam04564, U-box, U-box domain. This domain is related to the Ring
finger pfam00097 but lacks the zinc binding residues.
Length = 73
Score = 108 bits (273), Expect = 1e-28
Identities = 42/71 (59%), Positives = 50/71 (70%), Gaps = 1/71 (1%)
Query: 974 APDEFRDPLMDTLMEDPVTLPSGVVMDRSVIVRHLLN-SSTDPFSRQPLFEDNLKPNEEL 1032
PDEF DP+ LM+DPV LPSG+ DRS I RHLL+ TDPF+R+PL D L PN EL
Sbjct: 1 IPDEFLDPITLELMKDPVILPSGITYDRSTIERHLLSVDPTDPFTREPLTHDQLIPNLEL 60
Query: 1033 KKKIEAWKREK 1043
K+KI+AW E
Sbjct: 61 KEKIDAWLEEN 71
>gnl|CDD|128780 smart00504, Ubox, Modified RING finger domain. Modified RING finger
domain, without the full complement of Zn2+-binding
ligands. Probable involvement in E2-dependent
ubiquitination.
Length = 63
Score = 91.5 bits (228), Expect = 2e-22
Identities = 29/63 (46%), Positives = 39/63 (61%)
Query: 977 EFRDPLMDTLMEDPVTLPSGVVMDRSVIVRHLLNSSTDPFSRQPLFEDNLKPNEELKKKI 1036
EF P+ +M+DPV LPSG +RS I + LL+ TDP + QPL ++L PN LK I
Sbjct: 1 EFLCPISLEVMKDPVILPSGQTYERSAIEKWLLSHGTDPVTGQPLTHEDLIPNLALKSAI 60
Query: 1037 EAW 1039
+ W
Sbjct: 61 QEW 63
>gnl|CDD|152929 pfam12495, Vip3A_N, Vegetative insecticide protein 3A N terminal.
This family of proteins is found in bacteria. Proteins
in this family are typically between 170 and 789 amino
acids in length. The family is found in association with
pfam02018. Vip3A represents a novel class of proteins
insecticidal to lepidopteran insect larvae.
Length = 177
Score = 33.5 bits (76), Expect = 0.32
Identities = 23/70 (32%), Positives = 43/70 (61%), Gaps = 5/70 (7%)
Query: 105 EITPQI--IENTICKILSVTYSQVDASNTIL--YLPQVASVLTE-LKQNSVTITYQDLIS 159
E++ +I I N ++L+ +++DA NT+L YLP++ S+L++ +KQN + +S
Sbjct: 73 ELSKEILKIANEQNQVLNDVNNKLDAINTMLRVYLPKITSMLSDVMKQNYALSLQIEYLS 132
Query: 160 QSLVELQDIL 169
+ L E+ D L
Sbjct: 133 KQLQEISDKL 142
>gnl|CDD|185736 cd08995, GH32_Aec43_like, Glycosyl hydrolase family 32. This
glycosyl hydrolase family 32 (GH32) includes
characterized as well as uncharacterized proteins. GH32
enzymes cleave sucrose into fructose and glucose via
beta-fructofuranosidase activity, producing invert sugar
that is a mixture of dextrorotatory D-glucose and
levorotatory D-fructose, thus named invertase (EC
3.2.1.26). GH32 family also contains other
fructofuranosidases such as inulinase (EC 3.2.1.7),
exo-inulinase (EC 3.2.1.80), levanase (EC 3.2.1.65), and
transfructosidases such sucrose:sucrose
1-fructosyltransferase (EC 2.4.1.99), fructan:fructan
1-fructosyltransferase (EC 2.4.1.100), sucrose:fructan
6-fructosyltransferase (EC 2.4.1.10), fructan:fructan
6G-fructosyltransferase (EC 2.4.1.243) and levan
fructosyltransferases (EC 2.4.1.-). These retaining
enzymes (i.e. they retain the configuration at anomeric
carbon atom of the substrate) catalyze hydrolysis in two
steps involving a covalent glycosyl enzyme intermediate:
an aspartate located close to the N-terminus acts as the
catalytic nucleophile and a glutamate acts as the
general acid/base; a conserved aspartate residue in the
Arg-Asp-Pro (RDP) motif stabilizes the transition state.
These enzymes are predicted to display a 5-fold
beta-propeller fold as found for GH43 and CH68. The
breakdown of sucrose is widely used as a carbon or
energy source by bacteria, fungi, and plants. Invertase
is used commercially in the confectionery industry,
since fructose has a sweeter taste than sucrose and a
lower tendency to crystallize.
Length = 280
Score = 32.3 bits (74), Expect = 1.1
Identities = 8/24 (33%), Positives = 11/24 (45%)
Query: 730 SEFYDKFTIRYHISLILKGMWESP 753
SEF + Y +S G W +P
Sbjct: 198 SEFSENRKTHYRVSKSPFGPWRAP 221
>gnl|CDD|212820 cd11887, SH3_Bbc1, Src Homology 3 domain of Bbc1 and similar
domains. This subfamily is composed of Saccharomyces
cerevisiae Bbc1p, also called Mti1p (Myosin tail
region-interacting protein), and similar proteins. Bbc1p
interacts with and regulates type I myosins in yeast,
Myo3p and Myo5p, which are involved in actin
cytoskeletal reorganization. It also binds and inhibits
Las17, a WASp family protein that functions as an
activator of the Arp2/3 complex. Bbc1p contains an
N-terminal SH3 domain. SH3 domains bind to proline-rich
ligands with moderate affinity and selectivity,
preferentially to PxxP motifs; they play a role in the
regulation of enzymes by intramolecular interactions,
changing the subcellular localization of signal pathway
components and mediate multiprotein complex assemblies.
Length = 60
Score = 28.8 bits (65), Expect = 2.0
Identities = 10/36 (27%), Positives = 19/36 (52%)
Query: 450 FKVDLMYPFHPNKSEMLSFKNDTRLKMSSQEVEDWL 485
FKV +YP+ + + L+F + ++ +E DW
Sbjct: 2 FKVKALYPYESDHEDDLNFDVGQLITVTEEEDADWY 37
>gnl|CDD|222060 pfam13347, MFS_2, MFS/sugar transport protein. This family is part
of the major facilitator superfamily of membrane
transport proteins.
Length = 425
Score = 30.6 bits (70), Expect = 4.4
Identities = 8/21 (38%), Positives = 12/21 (57%)
Query: 703 MAHKFSSQFLPSYLMKFYTDV 723
+ + L +YL+ FYTDV
Sbjct: 9 LGNNIIYALLSTYLLYFYTDV 29
>gnl|CDD|237673 PRK14325, PRK14325, (dimethylallyl)adenosine tRNA
methylthiotransferase; Provisional.
Length = 444
Score = 30.9 bits (71), Expect = 4.5
Identities = 25/84 (29%), Positives = 41/84 (48%), Gaps = 19/84 (22%)
Query: 5 TPDEIRQRRLAKLGAIANS---ARNDSSNSAQDMIGS--SILFNSPSGRDDMIGSIG--- 56
P+E+++ RL +L A+ N A + S M+G+ +L PS +D + IG
Sbjct: 353 VPEEVKKERLQRLQALINQQQMAFSRS------MVGTVQRVLVEGPSRKDGQL--IGRTE 404
Query: 57 --QKVNLGTSPMEIDKSV-IKISE 77
+ VN P I + V +KI+E
Sbjct: 405 NNRVVNFEGDPDLIGQFVDVKITE 428
>gnl|CDD|114259 pfam05527, DUF758, Domain of unknown function (DUF758). Family of
eukaryotic proteins with unknown function, which are
induced by tumour necrosis factor.
Length = 186
Score = 30.0 bits (68), Expect = 4.6
Identities = 7/33 (21%), Positives = 16/33 (48%)
Query: 251 DFVCTLYEDEETFKQVMSPILQGVYKAMTEASI 283
+ + LY E ++ + I G+ K + E ++
Sbjct: 154 ELLTALYGPEGPYRPHLKKICAGLNKLLDEGTL 186
>gnl|CDD|233100 TIGR00713, hemL, glutamate-1-semialdehyde-2,1-aminomutase. This
enzyme, glutamate-1-semialdehyde-2,1-aminomutase
(glutamate-1-semialdehyde aminotransferase, GSA
aminotransferase), contains a pyridoxal phosphate
attached at a Lys residue at position 283 of the seed
alignment. It is in the family of class III
aminotransferases [Biosynthesis of cofactors, prosthetic
groups, and carriers, Heme, porphyrin, and cobalamin].
Length = 423
Score = 30.0 bits (68), Expect = 6.9
Identities = 18/57 (31%), Positives = 32/57 (56%), Gaps = 2/57 (3%)
Query: 50 DMIGSIGQKVNLGTSPMEIDKSVIKISEKPQAHGEPMEVEIEPVREIKIVKAPSMEI 106
D + S G + LG + + ++V + E+ ++G P E EI +EI I + PS+E+
Sbjct: 52 DYVLSWGPLI-LGHAHPRVVEAVKEALERGTSYGAPTEAEILLAKEI-ISRVPSVEM 106
>gnl|CDD|236417 PRK09224, PRK09224, threonine dehydratase; Reviewed.
Length = 504
Score = 30.1 bits (69), Expect = 7.3
Identities = 23/74 (31%), Positives = 32/74 (43%), Gaps = 26/74 (35%)
Query: 896 RLLNQLVDIYLHLDCDEFAAAIAQDERSFRKELFDDAADRMERRQILLPSSLDKFRALAS 955
RL + VD + +D DE AAI K++F+D R I P+ ALA
Sbjct: 243 RLCQEYVDDVITVDTDEICAAI--------KDVFEDT------RSIAEPAG-----ALA- 282
Query: 956 RAHEISVANIKKEV 969
+A +KK V
Sbjct: 283 ------LAGLKKYV 290
>gnl|CDD|182466 PRK10444, PRK10444, UMP phosphatase; Provisional.
Length = 248
Score = 29.8 bits (67), Expect = 7.5
Identities = 19/52 (36%), Positives = 26/52 (50%), Gaps = 8/52 (15%)
Query: 417 RAQLQSEESTLAGDGFMLNLLAVFQA-------LSDKIDLFKVDLMYPFHPN 461
+ Q SEE+ + GD ++LA FQA LS L +D M PF P+
Sbjct: 186 KMQAHSEETVIVGDNLRTDILAGFQAGLETILVLSGVSTLDDIDSM-PFRPS 236
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
0.319 0.133 0.384
Gapped
Lambda K H
0.267 0.0768 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 53,139,684
Number of extensions: 5286102
Number of successful extensions: 4963
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4944
Number of HSP's successfully gapped: 24
Length of query: 1046
Length of database: 10,937,602
Length adjustment: 107
Effective length of query: 939
Effective length of database: 6,191,724
Effective search space: 5814028836
Effective search space used: 5814028836
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 (28.4 bits)