RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7224
(297 letters)
>gnl|CDD|216556 pfam01532, Glyco_hydro_47, Glycosyl hydrolase family 47. Members
of this family are alpha-mannosidases that catalyze the
hydrolysis of the terminal 1,2-linked alpha-D-mannose
residues in the oligo-mannose oligosaccharide
Man(9)(GlcNAc)(2).
Length = 445
Score = 204 bits (521), Expect = 8e-63
Identities = 73/196 (37%), Positives = 113/196 (57%), Gaps = 12/196 (6%)
Query: 6 ELSVFETTIRFIGAILTLYSFTGDPMYRDKAVHIADKMLPAFKTPTGIPHALINVYTGDS 65
++SVFETTIR++G +L+ Y +GD + +KAV +AD++LPAF TPTGIP+ +N+ G
Sbjct: 72 DVSVFETTIRYLGGLLSAYDLSGDDLLLEKAVDLADRLLPAFDTPTGIPYPRVNL--GKG 129
Query: 66 KNYAWASGSASILSELGTLHLEFVYLSDVTGNPIYREKVEKIRSVISSI--EKPNGLYPN 123
A G AS L+E GTL LEF LS +TG+P Y + E++ + GL P
Sbjct: 130 GVNPVAGG-ASSLAEAGTLQLEFTRLSQLTGDPKYEDAAERVMDALWKSQSRSLPGLVPI 188
Query: 124 YLNPKTGHWGQSHISMGALGDSFYEYLLKAWIQSNKEDTEGPESFKFTDTLEAKAYRSQD 183
+++P TG + I++GA GDS+YEYLLK +I +D + + + +A +
Sbjct: 189 FIDPSTGQFTGGDITLGAGGDSYYEYLLKQYILLGGKDPQYLDMYD-------EAMDAIK 241
Query: 184 KYYILRPEVIESYFYL 199
K+ + RP ++
Sbjct: 242 KHLLFRPSTPSDLLFV 257
Score = 103 bits (258), Expect = 6e-25
Identities = 39/78 (50%), Positives = 47/78 (60%), Gaps = 5/78 (6%)
Query: 218 MMKHAWDNYVTYAWGKNELKPLSRRGHSGSIFGSAELGMTIIDGLDTLYIMGLTDEYEDG 277
HAWD Y YAWG +EL+P+S RG FG G T++D LDTLYIMGLTDE+E+
Sbjct: 1 AFLHAWDGYKKYAWGHDELRPISCRGRDS--FGG--WGATLVDSLDTLYIMGLTDEFEEA 56
Query: 278 KKWVAESLTLDDKTHKVV 295
WV + L DK V
Sbjct: 57 VDWVEKKLDF-DKDSTDV 73
Score = 83.4 bits (207), Expect = 4e-18
Identities = 30/67 (44%), Positives = 38/67 (56%), Gaps = 7/67 (10%)
Query: 164 GPESFKFTDTLEAKAYRS------QDKYYILRPEVIESYFYLWRVTKDPKYREWGWDYVQ 217
GPE F F + D +Y+LRPE IES FYL+R+T DPKYREWGW+ Q
Sbjct: 319 GPEIFYFNPCPCWDEDKWDFYVKIADSHYLLRPETIESLFYLYRLTGDPKYREWGWEIFQ 378
Query: 218 -MMKHAW 223
+ K+
Sbjct: 379 AIEKYTR 385
Score = 32.2 bits (74), Expect = 0.37
Identities = 14/40 (35%), Positives = 19/40 (47%), Gaps = 1/40 (2%)
Query: 23 LYSFTGDPMYRDKAVHIADKMLPAFKTPTGIPHALINVYT 62
LY TGDP YR+ I + +TP G + +V T
Sbjct: 360 LYRLTGDPKYREWGWEIFQAIEKYTRTPCG-YAGIKDVTT 398
Score = 27.6 bits (62), Expect = 8.2
Identities = 9/30 (30%), Positives = 13/30 (43%), Gaps = 5/30 (16%)
Query: 198 YLWRVTKDPKYREWGWDYVQM-MKHAWDNY 226
L ++T DPKY D + M W +
Sbjct: 153 RLSQLTGDPKY----EDAAERVMDALWKSQ 178
>gnl|CDD|240427 PTZ00470, PTZ00470, glycoside hydrolase family 47 protein;
Provisional.
Length = 522
Score = 205 bits (523), Expect = 2e-62
Identities = 83/155 (53%), Positives = 108/155 (69%), Gaps = 2/155 (1%)
Query: 8 SVFETTIRFIGAILTLYSFTGDPMYRDKAVHIADKMLPAFKTPTGIPHALINVYTGDSKN 67
SVFETTIR +G +L+ Y TGD MY +KA IAD++LPAF TG P + IN+ TG
Sbjct: 152 SVFETTIRVLGGLLSAYDLTGDEMYLEKAREIADRLLPAFNEDTGFPASEINLATGRKSY 211
Query: 68 YAWASGSASILSELGTLHLEFVYLSDVTGNPIYREKVEKIRSVISSIEKP-NGLYPNYLN 126
WA G SILSE+GTL LEF YLS++TG+P Y E V+K+ + S++ NGLYP +LN
Sbjct: 212 PGWA-GGCSILSEVGTLQLEFNYLSEITGDPKYAEYVDKVMDALFSMKPAINGLYPIFLN 270
Query: 127 PKTGHWGQSHISMGALGDSFYEYLLKAWIQSNKED 161
P G + +HIS+GALGDS+YEYLLK W+ +N +
Sbjct: 271 PDAGRFCGNHISLGALGDSYYEYLLKQWLYTNGRE 305
Score = 97.9 bits (244), Expect = 7e-23
Identities = 39/78 (50%), Positives = 49/78 (62%), Gaps = 5/78 (6%)
Query: 218 MMKHAWDNYVTYAWGKNELKPLSRRGHSGSIFGSAELGMTIIDGLDTLYIMGLTDEYEDG 277
MKHAW+ Y YAWG +EL+PL++R H LG+TIID LDTL IMGL EY++G
Sbjct: 79 AMKHAWEGYKEYAWGHDELRPLTKRHHE-----WFGLGLTIIDSLDTLKIMGLKKEYKEG 133
Query: 278 KKWVAESLTLDDKTHKVV 295
+ WVA +L T V
Sbjct: 134 RDWVANNLKQSKDTGLGV 151
Score = 79.8 bits (197), Expect = 1e-16
Identities = 27/54 (50%), Positives = 32/54 (59%)
Query: 164 GPESFKFTDTLEAKAYRSQDKYYILRPEVIESYFYLWRVTKDPKYREWGWDYVQ 217
GPE F F + D +YILRPE +ES F L+R+T DPKYREW W Q
Sbjct: 398 GPEIFHFDPNSGDISPNVHDSHYILRPETVESIFILYRLTGDPKYREWAWKIFQ 451
Score = 28.2 bits (63), Expect = 5.8
Identities = 14/36 (38%), Positives = 18/36 (50%)
Query: 17 IGAILTLYSFTGDPMYRDKAVHIADKMLPAFKTPTG 52
+ +I LY TGDP YR+ A I + KT G
Sbjct: 427 VESIFILYRLTGDPKYREWAWKIFQAIEKHCKTENG 462
>gnl|CDD|224250 COG1331, COG1331, Highly conserved protein containing a thioredoxin
domain [Posttranslational modification, protein
turnover, chaperones].
Length = 667
Score = 37.3 bits (87), Expect = 0.009
Identities = 28/110 (25%), Positives = 39/110 (35%), Gaps = 23/110 (20%)
Query: 15 RFIGAILTLYSFTGDPMYRDKAVHIADKMLPAFKTPTG-----------IPHALINVYTG 63
I +L LY TGD Y +KA+ +AD+ + F G + G
Sbjct: 472 FLILGLLALYEATGDLAYLEKAIELADEAIADFWDDEGGFYDTPSDSEDLLIRPKEPTDG 531
Query: 64 DSKNYAWASGSASILSELGTLHLEFVYLSDVTGNPIYREKVEKIRSVISS 113
A SG+A L L L +TG+ Y E E I +
Sbjct: 532 -----ATPSGNAVAAQALLRLSL-------LTGDARYLEAAEDILQAFAG 569
>gnl|CDD|234385 TIGR03897, lanti_2_LanM, type 2 lantibiotic biosynthesis protein
LanM. Members of this family are known generally as
LanM, a multifunctional enzyme of lantibiotic
biosynthesis. This catalysis by LanM distinguishes the
type 2 lantibiotics, such as mersacidin, cinnamycin, and
lichenicidin, from LanBC-produced type 1 lantibiotics
such as nisin and subtilin. The N-terminal domain
contains regions associated with Ser and Thr
dehydration. The C-terminal region contains a pfam05147
domain, which catalyzes the formation of the lanthionine
bridge [Cellular processes, Toxin production and
resistance].
Length = 931
Score = 35.3 bits (82), Expect = 0.039
Identities = 28/117 (23%), Positives = 44/117 (37%), Gaps = 21/117 (17%)
Query: 17 IGAILTLYSFTGDPMYRDKAVHIADKMLPAFKTPTGIPHALINVYTGDSKNYAWAS-GSA 75
I +L LY TGDP + A+ + +L K + D K S G+A
Sbjct: 701 ILVLLNLYEVTGDPEVLELAIACGEHLL---KQAVKEEGGIAWKTPQDEKPLTGFSHGAA 757
Query: 76 SILSELGTLHLEFVYLSDVTGNPIYREKVEKIRSVISSIEKPNGLYPNYLNPKTGHW 132
I L L+ VTG+ Y E ++ + L+ +P+ G+W
Sbjct: 758 GIAWALLRLY-------KVTGDQRYLEAAKEA------LAYERSLF----DPEEGNW 797
>gnl|CDD|239881 cd04434, LanC_like, LanC-like proteins. LanC is the cyclase enzyme
of the lanthionine synthetase. Lanthionine is a
lantibiotic, a unique class of peptide antibiotics. They
are ribosomally synthesized as a precursor peptide and
then post-translationally modified to contain thioether
cross-links called lanthionines (Lans) or
methyllanthionines (MeLans), in addition to
2,3-didehydroalanine (Dha) and (Z)-2,3-didehydrobutyrine
(Dhb). These unusual amino acids are introduced by the
dehydration of serine and threonine residues, followed
by thioether formation via addition of cysteine thiols,
catalysed by LanB and LanC or LanM. LanC, the cyclase
component, is a zinc metalloprotein, whose bound metal
has been proposed to activate the thiol substrate for
nucleophilic addition. A related domain is also present
in LanM and other pro- and eukaryotic proteins of
unknown function.
Length = 343
Score = 31.0 bits (70), Expect = 0.65
Identities = 21/93 (22%), Positives = 30/93 (32%), Gaps = 8/93 (8%)
Query: 19 AILTLYSFTGDPMYRDKAVHIADKMLPAFKTPTGIPHALINVYTGDSKNYAWASGSASIL 78
A+L LY T D + + K + +G G+ AW G+ IL
Sbjct: 167 ALLLLYKKTVDK-SLEALIKALLKYERRLQDDSGGFWWPSRSNGGNRFLVAWCHGAPGIL 225
Query: 79 SELGTLHLEFVYLSDVTGNPIYREKVEKIRSVI 111
L L G+ Y E EK +
Sbjct: 226 L---ALLL----AYKALGDDKYDEAAEKALELA 251
>gnl|CDD|240108 cd04791, LanC_SerThrkinase, Lanthionine synthetase C-like domain
associated with serine threonine kinases. Some members
of this subgroup lack the zinc binding site and the
active site residues, and therefore are most likely
inactive. The function of this domain is unknown.
Length = 321
Score = 30.8 bits (70), Expect = 0.90
Identities = 22/91 (24%), Positives = 33/91 (36%), Gaps = 11/91 (12%)
Query: 17 IGAILTLYSFTGDPMYRDKAVHIADKMLPAFKTPTGIPHALINVYTGDSKNYAWASGSAS 76
IG L ++ TGDP + A IA+ + A + D ++ G A
Sbjct: 88 IGLALLYFARTGDPALLEAAAKIAELLAEALERGDPALL----WPDFDRVDHGLLHGWAG 143
Query: 77 ILSELGTLHLEFVYLSDVTGNPIYREKVEKI 107
I L + L TG+ Y E E+
Sbjct: 144 I-------ALFLLRLYKATGDSRYLELAEEA 167
Score = 29.6 bits (67), Expect = 2.1
Identities = 29/107 (27%), Positives = 42/107 (39%), Gaps = 12/107 (11%)
Query: 17 IGAILT-LYSFTGDPMYRDKAVHIADKMLPAFKTPTGIPHALINVYTGDSKNYAWASGSA 75
I L LY TGD Y + A DK L G L+ V G SGSA
Sbjct: 144 IALFLLRLYKATGDSRYLELAEEALDKELARAVVDDG---GLLQVDEGARLLPYLCSGSA 200
Query: 76 SILSELGTLHLEFVYLSDVTGNPIYREKVEKIR-SVISSIEKPNGLY 121
+ + L +TG+ +R++ + I + +SS GL+
Sbjct: 201 GLGLLMLRLE-------AITGDKRWRDEADGIAHAALSSCYANPGLF 240
>gnl|CDD|223136 COG0058, GlgP, Glucan phosphorylase [Carbohydrate transport and
metabolism].
Length = 750
Score = 30.0 bits (68), Expect = 1.9
Identities = 12/53 (22%), Positives = 16/53 (30%), Gaps = 7/53 (13%)
Query: 172 DTLEAKAYRSQDKYYILRPEVIESYFYLWRVTKDPKYREWGWDYVQMMKHAWD 224
D L A Y YY L EV + P ++ K+ D
Sbjct: 636 DALRADGYDPNALYYELENEVKPVLDEIIDGRFSPGWKS-------RFKNLID 681
>gnl|CDD|219654 pfam07944, DUF1680, Putative glycosyl hydrolase of unknown function
(DUF1680). The members of this family are sequences
derived from hypothetical bacterial and eukaryotic
proteins of unknown function. One members of this family
is annotated as a possible arabinosidase, but no
references were found to back this. These proteins are
related to a large family of glycosyl hydrolases.
Length = 511
Score = 29.2 bits (66), Expect = 2.6
Identities = 35/229 (15%), Positives = 70/229 (30%), Gaps = 76/229 (33%)
Query: 25 SFTGDPMYRDKAVHIA---DKMLPAFKTPTGIPHALINVYTG-----------DSKNYAW 70
SF GD ++ + D++L F+ G+P+ I Y G W
Sbjct: 7 SFWGDRQQTNREYLLPLDPDRLLHTFRLEAGLPNKAI-AYGGWEDEFPGFPFRGHDLGKW 65
Query: 71 ASGSASILSELGTLHLEFVYLSDVTGNPIYREKVEKIRSVISSIEKPNGLYPNYLNP--- 127
S A Y+ T +P ++++++ ++ ++ +G YL
Sbjct: 66 LSAVA--------------YMLASTPDPELEKRLDRLVDELAEAQQGDG----YLGTYPE 107
Query: 128 --------KTGHWGQS-------HISMGALGDSFYEY-----LLKAWIQSNKEDTEGPES 167
G W + + G + ++Y+ L
Sbjct: 108 SNFDRNEAGNGRWAPNHELYNLGKLIAGLV--AYYQATGKRQALDVAT------------ 153
Query: 168 FKFTDTLEAKA-----YRSQDKYYILRPEVIESYFYLWRVTKDPKYREW 211
+ D L + Q Y + E+ L+ +T D +Y +
Sbjct: 154 -RLADWLYDVTSVLGDEQMQKHLYPEHGGINEALVELYELTGDKRYLDL 201
>gnl|CDD|151313 pfam10864, DUF2663, Protein of unknown function (DUF2663). Some
members in this family of proteins are annotated as YpbF
however currently no function is known.
Length = 131
Score = 28.1 bits (63), Expect = 3.1
Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 7/50 (14%)
Query: 177 KAYRSQDKYYILRPEVIESYFYLWRVTKDPKYREWG--WDYVQMMKHAWD 224
KA +++ +++ LR E+I+ LW PK W +MMK +D
Sbjct: 81 KAEKAEKEFHALRCEIIQKSKDLW-----PKEESWKKRHRVFEMMKKEYD 125
>gnl|CDD|226678 COG4225, COG4225, Predicted unsaturated glucuronyl hydrolase
involved in regulation of bacterial surface properties,
and related proteins [General function prediction only].
Length = 357
Score = 28.9 bits (65), Expect = 3.3
Identities = 7/26 (26%), Positives = 10/26 (38%)
Query: 196 YFYLWRVTKDPKYREWGWDYVQMMKH 221
L+ T DP+Y E + H
Sbjct: 88 LLPLYEQTGDPRYLEAAIKLASWLVH 113
>gnl|CDD|215932 pfam00465, Fe-ADH, Iron-containing alcohol dehydrogenase.
Length = 323
Score = 28.3 bits (64), Expect = 4.9
Identities = 15/57 (26%), Positives = 20/57 (35%), Gaps = 5/57 (8%)
Query: 55 HALINVYTGDSKNYAWASGSASILSELGTLHLEFVYLSDVTGNPIYREKVEKIRSVI 111
ALI V K L E G +E V V NP E+V++ +
Sbjct: 23 RALI-VTDPSLKKLGLLDKVLDSLEEAG---IEVVVFDGVEPNPTL-EEVDEAAAAA 74
>gnl|CDD|219421 pfam07470, Glyco_hydro_88, Glycosyl Hydrolase Family 88.
Unsaturated glucuronyl hydrolase catalyzes the
hydrolytic release of unsaturated glucuronic acids from
oligosaccharides (EC:3.2.1.-) produced by the reactions
of polysaccharide lyases.
Length = 342
Score = 28.1 bits (63), Expect = 6.0
Identities = 6/16 (37%), Positives = 10/16 (62%)
Query: 196 YFYLWRVTKDPKYREW 211
L+ +TKD +YR+
Sbjct: 80 LLDLYELTKDERYRKA 95
>gnl|CDD|239868 cd04403, RhoGAP_ARHGAP27_15_12_9, RhoGAP_ARHGAP27_15_12_9:
GTPase-activator protein (GAP) domain for Rho-like
GTPases found in ARHGAP27 (also called CAMGAP1),
ARHGAP15, 12 and 9-like proteins; This subgroup of
ARHGAPs are multidomain proteins that contain RhoGAP,
PH, SH3 and WW domains. Most members that are studied
show GAP activity towards Rac1, some additionally show
activity towards Cdc42. Small GTPases cluster into
distinct families, and all act as molecular switches,
active in their GTP-bound form but inactive when
GDP-bound. The Rho family of GTPases activates effectors
involved in a wide variety of developmental processes,
including regulation of cytoskeleton formation, cell
proliferation and the JNK signaling pathway. GTPases
generally have a low intrinsic GTPase hydrolytic
activity but there are family-specific groups of GAPs
that enhance the rate of GTP hydrolysis by several
orders of magnitude.
Length = 187
Score = 27.7 bits (62), Expect = 6.2
Identities = 7/22 (31%), Positives = 13/22 (59%)
Query: 97 NPIYREKVEKIRSVISSIEKPN 118
Y ++V ++ +I S+ KPN
Sbjct: 103 LSDYEQRVSAVKDLIKSLPKPN 124
>gnl|CDD|132513 TIGR03473, HpnK, hopanoid biosynthesis associated protein HpnK.
The sequences represented by this model are members of
the pfam04794 "YdjC-like" family of uncharacterized
proteins. The member of this clade from
Acidithiobacillus ferrooxidans ATCC 23270 (AFE_0976) is
found in the same locus as squalene-hopene cyclase (SHC,
TIGR01507) and other genes associated with the
biosynthesis of hopanoid natural products. Similarly, in
Ralstonia eutropha JMP134 (Reut_B4902) this gene is
adjacent to HpnAB, IspH and HpnH (TIGR03470), although
SHC itself is elsewhere in the genome. Notably, this
gene (here named HpnK) and three others form a conserved
set (HpnIJKL) which occur in a subset of all genomes
containing the SHC enzyme. This relationship was
discerned using the method of partial phylogenetic
profiling. This group includes Zymomonas mobilis, the
organism where the initial hopanoid biosynthesis locus
was described consisting of the genes HpnA-E and SHC
(HpnF). Continuing past SHC are found a phosphorylase
enzyme (ZMO0873, i.e. HpnG, TIGR03468) and a radical SAM
enzyme (ZMO0874), HpnH. Although discontinuous in Z.
mobilis, we continue the gene symbol sequence with
HpnIJKL.
Length = 283
Score = 27.8 bits (62), Expect = 7.1
Identities = 14/70 (20%), Positives = 26/70 (37%), Gaps = 6/70 (8%)
Query: 70 WASGSASILSELGTLHLEFVYLSDVTGNPIYREKVEKIRSVISSIEKPNGLYPNYLNPKT 129
W + L G H ++V+ TG ++ + + + P G+ Y +P T
Sbjct: 184 WLGRMRARLDRAGIAHNDYVFGLADTG----HMDEARLLAALERL--PEGVSEIYFHPAT 237
Query: 130 GHWGQSHISM 139
+ SM
Sbjct: 238 AQDAEITPSM 247
>gnl|CDD|167709 PRK04128, PRK04128,
1-(5-phosphoribosyl)-5-[(5-
phosphoribosylamino)methylideneamino]
imidazole-4-carboxamide isomerase; Provisional.
Length = 228
Score = 27.4 bits (61), Expect = 8.6
Identities = 12/41 (29%), Positives = 20/41 (48%), Gaps = 4/41 (9%)
Query: 216 VQMMKHAWDN-YVTYAWG---KNELKPLSRRGHSGSIFGSA 252
++ ++ W + YA G ++K L+ G SG I G A
Sbjct: 173 IEEIERFWGDEEFIYAGGVSSAEDVKKLAEIGFSGVIIGKA 213
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
0.317 0.135 0.416
Gapped
Lambda K H
0.267 0.0729 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,506,978
Number of extensions: 1474734
Number of successful extensions: 1341
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1327
Number of HSP's successfully gapped: 34
Length of query: 297
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 201
Effective length of database: 6,679,618
Effective search space: 1342603218
Effective search space used: 1342603218
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 59 (26.5 bits)