RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4440
(189 letters)
>gnl|CDD|119351 cd02872, GH18_chitolectin_chitotriosidase, This conserved domain
family includes a large number of catalytically inactive
chitinase-like lectins (chitolectins) including YKL-39,
YKL-40 (HCGP39), YM1, oviductin, and AMCase (acidic
mammalian chitinase), as well as catalytically active
chitotriosidases. The conserved domain is an
eight-stranded alpha/beta barrel fold belonging to the
family 18 glycosyl hydrolases. The fold has a
pronounced active-site cleft at the C-terminal end of
the beta-barrel. The chitolectins lack a key active
site glutamate (the proton donor required for hydrolytic
activity) but retain highly conserved residues involved
in oligosaccharide binding. Chitotriosidase is a
chitinolytic enzyme expressed in maturing macrophages,
which suggests that it plays a part in antimicrobial
defense. Chitotriosidase hydrolyzes chitotriose, as
well as colloidal chitin to yield chitobiose and is
therefore considered an exochitinase. Chitotriosidase
occurs in two major forms, the large form being
converted to the small form by either RNA or
post-translational processing. Although the small form,
containing the chitinase domain alone, is sufficient for
the chitinolytic activity, the additional C-terminal
chitin-binding domain of the large form plays a role in
processing colloidal chitin. The chitotriosidase gene is
nonessential in humans, as about 35% of the population
are heterozygous and 6% homozygous for an inactivated
form of the gene. HCGP39 is a 39-kDa human cartilage
glycoprotein thought to play a role in connective tissue
remodeling and defense against pathogens.
Length = 362
Score = 158 bits (401), Expect = 2e-47
Identities = 60/193 (31%), Positives = 95/193 (49%), Gaps = 46/193 (23%)
Query: 1 MKELSFAFKP--RQLSLSAVVSPSQTIIDQAYNVKSLAKYLDWVTVLLKSSAYSSYNVKS 58
+KEL AF+P +L L+A VS + ID ++Y++
Sbjct: 140 LKELREAFEPEAPRLLLTAAVSAGKETID------------------------AAYDIPE 175
Query: 59 LAKYLDWVTVLSFDYSGYWDGATGHVAPLYQSQDDQYHSVNTIVPVCRCSQSHIDNHHLL 118
++KYLD++ V+++D+ G W+G TGH +PLY D L
Sbjct: 176 ISKYLDFINVMTYDFHGSWEGVTGHNSPLYAGSADTGDQKY------------------L 217
Query: 119 NSN--INYWISKGMPARKVIMGMPLYAQTFILADSNSHGLNALTVGPGLPGPFTQSPGFM 176
N + I YW+SKG P K+++G+P Y ++F LA ++ G+ A GPG GP+T+ GF+
Sbjct: 218 NVDYAIKYWLSKGAPPEKLVLGIPTYGRSFTLASPSNTGVGAPASGPGTAGPYTREAGFL 277
Query: 177 AYYEVSHRQTTPA 189
AYYE+ +
Sbjct: 278 AYYEICEFLKSGW 290
>gnl|CDD|214753 smart00636, Glyco_18, Glyco_18 domain.
Length = 334
Score = 117 bits (295), Expect = 4e-32
Identities = 47/187 (25%), Positives = 80/187 (42%), Gaps = 49/187 (26%)
Query: 1 MKELSFAFK-----PRQLSLSAVVSPSQTIIDQAYNVKSLAKYLDWVTVLLKSSAYSSYN 55
+KEL A + L+ V ID+ Y +
Sbjct: 132 LKELREALDKEGAEGKGYLLTIAVPAGPDKIDKGY-----------------------GD 168
Query: 56 VKSLAKYLDWVTVLSFDYSGYWDGATGHVAPLYQ-SQDDQYHSVNTIVPVCRCSQSHIDN 114
+ ++AKYLD++ ++++D+ G W TGH APLY D + ++V+ V
Sbjct: 169 LPAIAKYLDFINLMTYDFHGAWSNPTGHNAPLYAGPGDPEKYNVDYAV------------ 216
Query: 115 HHLLNSNINYWISKGMPARKVIMGMPLYAQTFILADSNSHGLNALTVGPGLPGPFTQSPG 174
Y++ KG+P K+++G+P Y + + L D +++G A GP GP T G
Sbjct: 217 --------KYYLCKGVPPSKLVLGIPFYGRGWTLVDGSNNGPGAPFTGPATGGPGTWEGG 268
Query: 175 FMAYYEV 181
+ Y E+
Sbjct: 269 VVDYREI 275
>gnl|CDD|216071 pfam00704, Glyco_hydro_18, Glycosyl hydrolases family 18.
Length = 325
Score = 82.5 bits (204), Expect = 4e-19
Identities = 41/184 (22%), Positives = 69/184 (37%), Gaps = 57/184 (30%)
Query: 1 MKELSFAFKP---RQLSLSAVVSPSQTIIDQAYNVKSLAKYLDWVTVLLKSSAYSSYNVK 57
+KEL A K LSA V ++
Sbjct: 137 LKELRAALKKEAKAGYLLSAAVPAG-------------------------PDKIDGSDIA 171
Query: 58 SLAKYLDWVTVLSFDYSGYWDGATGHVAPLYQSQDDQYHSVNTIVPVCRCSQSHIDNHHL 117
+ KYLD++ ++++D+ G W TG APLY N
Sbjct: 172 KIGKYLDFINLMTYDFHG-WSNITGPNAPLYD-----GSWQNV----------------- 208
Query: 118 LNSNINYWISKGMPARKVIMGMPLYAQTFILADSNSHGLNALTVGPGLPGPFTQSPGFMA 177
+ + Y++ G+PA K+++G+P Y + + L + + +G A PGP T G ++
Sbjct: 209 -DYAVQYYLKAGVPASKLVLGIPFYGRGWTLVNGSGNGGGAPA-----PGPGTWEGGILS 262
Query: 178 YYEV 181
Y E+
Sbjct: 263 YKEI 266
>gnl|CDD|119352 cd02873, GH18_IDGF, The IDGF's (imaginal disc growth factors) are a
family of growth factors identified in insects that
include at least five members, some of which are encoded
by genes in a tight cluster. The IDGF's have an
eight-stranded alpha/beta barrel fold and are related to
the glycosyl hydrolase family 18 (GH18) chitinases, but
they have an amino acid substitution known to abolish
chitinase catalytic activity. IDGFs may have evolved
from chitinases to gain new functions as growth factors,
interacting with cell surface glycoproteins involved in
growth-promoting processes.
Length = 413
Score = 74.3 bits (183), Expect = 7e-16
Identities = 46/193 (23%), Positives = 85/193 (44%), Gaps = 49/193 (25%)
Query: 2 KELSFAFKPRQLSLSAVVSPSQTIIDQAYNVKSLAKYLDWVTVLLKSSAYSSYNVKSLAK 61
+EL A +P L L+ V P +V S + Y ++V ++A
Sbjct: 176 RELKNALRPDGLLLTLTVLP---------HVNS--------------TWY--FDVPAIAN 210
Query: 62 YLDWVTVLSFDY-SGYWDGATGH-VAPLYQSQDDQYHSVNTIVPVCRCSQSHIDNHHLLN 119
+D+V + +FD+ + + AP+Y+ + + HH ++
Sbjct: 211 NVDFVNLATFDFLTPERNPEEADYTAPIYELYER-------------------NPHHNVD 251
Query: 120 SNINYWISKGMPARKVIMGMPLYAQTFIL-ADSNSHGL--NALTVGPGLPGPFTQSPGFM 176
+ YW+++G PA K+ +G+ Y + + L DS G+ T GPG GP T++PG +
Sbjct: 252 YQVKYWLNQGTPASKLNLGIATYGRAWKLTKDSGITGVPPVLETDGPGPAGPQTKTPGLL 311
Query: 177 AYYEVSHRQTTPA 189
++ E+ + PA
Sbjct: 312 SWPEICSKLPNPA 324
>gnl|CDD|119365 cd06548, GH18_chitinase, The GH18 (glycosyl hydrolases, family 18)
type II chitinases hydrolyze chitin, an abundant polymer
of N-acetylglucosamine and have been identified in
bacteria, fungi, insects, plants, viruses, and protozoan
parasites. The structure of this domain is an
eight-stranded alpha/beta barrel with a pronounced
active-site cleft at the C-terminal end of the
beta-barrel.
Length = 322
Score = 65.3 bits (160), Expect = 6e-13
Identities = 28/90 (31%), Positives = 46/90 (51%), Gaps = 22/90 (24%)
Query: 55 NVKSLAKYLDWVTVLSFDYSGYWDGATGHVAPLYQSQDDQY--HSVNTIVPVCRCSQSHI 112
V +AKYLD++ ++++D+ G W TGH + LY S D +SV+ V
Sbjct: 193 EVAEIAKYLDFINLMTYDFHGAWSNTTGHHSNLYASPADPPGGYSVDAAV---------- 242
Query: 113 DNHHLLNSNINYWISKGMPARKVIMGMPLY 142
NY++S G+P K+++G+P Y
Sbjct: 243 ----------NYYLSAGVPPEKLVLGVPFY 262
>gnl|CDD|119358 cd02879, GH18_plant_chitinase_class_V, The class V plant chitinases
have a glycosyl hydrolase family 18 (GH18) domain, but
lack the chitin-binding domain present in other GH18
enzymes. The GH18 domain of the class V chitinases has
endochitinase activity in some cases and no catalytic
activity in others. Included in this family is a lectin
found in black locust (Robinia pseudoacacia) bark, which
binds chitin but lacks chitinase activity. Also
included is a chitinase-related receptor-like kinase
(CHRK1) from tobacco (Nicotiana tabacum), with an
N-terminal GH18 domain and a C-terminal kinase domain,
which is thought to be part of a plant signaling
pathway. The GH18 domain of CHRK1 is expressed
extracellularly where it binds chitin but lacks
chitinase activity.
Length = 299
Score = 65.1 bits (159), Expect = 8e-13
Identities = 35/109 (32%), Positives = 56/109 (51%), Gaps = 23/109 (21%)
Query: 44 VLLKSSAYSSYNVKSLAKYLDWVTVLSFDYSGYWDG-ATGHVAPLYQSQDDQYHSVNTIV 102
+L S SY ++++ K LDWV V+++DY G W+ TG A LY D +V+T
Sbjct: 162 ILFLSDDSVSYPIEAINKNLDWVNVMAYDYYGSWESNTTGPAAALY----DPNSNVST-- 215
Query: 103 PVCRCSQSHIDNHHLLNSNINYWISKGMPARKVIMGMPLYAQTFILADS 151
+ I WI G+PA+K+++G+PLY + + L D+
Sbjct: 216 ----------------DYGIKSWIKAGVPAKKLVLGLPLYGRAWTLYDT 248
>gnl|CDD|225862 COG3325, ChiA, Chitinase [Carbohydrate transport and metabolism].
Length = 441
Score = 46.3 bits (110), Expect = 3e-06
Identities = 21/92 (22%), Positives = 39/92 (42%), Gaps = 9/92 (9%)
Query: 55 NVKSLAKYLDWVTVLSFDYSGYWDGATGHVAPLYQSQDDQYHSVNTIVPVCRCSQSHIDN 114
N +A+Y+D++ ++++D+ G W+ GH A LY + D N V
Sbjct: 235 NHAEIAQYVDYINIMTYDFHGAWNETLGHHAALYGTPKD-PPLANGGFYVDAEVDGIDWL 293
Query: 115 HHLLNSNINYWISKGMPARKVIMGMPLYAQTF 146
+P K+++GMP Y + +
Sbjct: 294 EEGFAG--------DVPPSKLVLGMPFYGRGW 317
>gnl|CDD|119353 cd02874, GH18_CFLE_spore_hydrolase, Cortical fragment-lytic enzyme
(CFLE) is a peptidoglycan hydrolase involved in
bacterial endospore germination. CFLE is expressed as
an inactive preprotein (called SleB) in the forespore
compartment of sporulating cells. SleB translocates
across the forespore inner membrane and is deposited as
a mature enzyme in the cortex layer of the spore. As
part of a sensory mechanism capable of initiating
germination, CFLE degrades a spore-specific
peptidoglycan constituent called muramic-acid
delta-lactam that comprises the outer cortex. CFLE has
a C-terminal glycosyl hydrolase family 18 (GH18)
catalytic domain as well as two N-terminal LysM
peptidoglycan-binding domains. In addition to SleB,
this family includes YaaH, YdhD, and YvbX from Bacillus
subtilis.
Length = 313
Score = 43.0 bits (102), Expect = 3e-05
Identities = 28/143 (19%), Positives = 54/143 (37%), Gaps = 49/143 (34%)
Query: 1 MKELSFAFKPRQLSLSAVVSPSQTIIDQAYNVKSLAKYLDWVTVLLKSSAYSSYNVKSLA 60
++ELS P +LS V P + +W +Y+ ++
Sbjct: 126 LRELSDRLHPAGYTLSTAVVPKTSADQFG----------NW---------SGAYDYAAIG 166
Query: 61 KYLDWVTVLSFDYSGYWDGATGHVAPLYQSQDDQYHSVNTIVPVCRCSQSHIDNHHLLNS 120
K +D+V ++++D+ + G G VAP I V
Sbjct: 167 KIVDFVVLMTYDW-HWRGGPPGPVAP--------------IGWV--------------ER 197
Query: 121 NINYWISKGMPARKVIMGMPLYA 143
+ Y +++ +P K+++G+PLY
Sbjct: 198 VLQYAVTQ-IPREKILLGIPLYG 219
>gnl|CDD|119349 cd00598, GH18_chitinase-like, The GH18 (glycosyl hydrolase, family
18) type II chitinases hydrolyze chitin, an abundant
polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc)
which is a major component of the cell wall of fungi and
the exoskeleton of arthropods. Chitinases have been
identified in viruses, bacteria, fungi, protozoan
parasites, insects, and plants. The structure of the
GH18 domain is an eight-stranded beta/alpha barrel with
a pronounced active-site cleft at the C-terminal end of
the beta-barrel. The GH18 family includes
chitotriosidase, chitobiase, hevamine, zymocin-alpha,
narbonin, SI-CLP (stabilin-1 interacting chitinase-like
protein), IDGF (imaginal disc growth factor), CFLE
(cortical fragment-lytic enzyme) spore hydrolase, the
type III and type V plant chitinases, the
endo-beta-N-acetylglucosaminidases, and the
chitolectins. The GH85 (glycosyl hydrolase, family 85)
ENGases (endo-beta-N-acetylglucosaminidases) are closely
related to the GH18 chitinases and are included in this
alignment model.
Length = 210
Score = 42.0 bits (99), Expect = 4e-05
Identities = 13/44 (29%), Positives = 22/44 (50%)
Query: 1 MKELSFAFKPRQLSLSAVVSPSQTIIDQAYNVKSLAKYLDWVTV 44
++EL A L+ V S + AY+V ++ Y+D+V V
Sbjct: 130 LRELRSALGAANYLLTIAVPASYFDLGYAYDVPAIGDYVDFVNV 173
>gnl|CDD|119357 cd02878, GH18_zymocin_alpha, Zymocin, alpha subunit. Zymocin is a
heterotrimeric enzyme that inhibits yeast cell cycle
progression. The zymocin alpha subunit has a chitinase
activity that is essential for holoenzyme action from
the cell exterior while the gamma subunit contains the
intracellular toxin responsible for G1 phase cell cycle
arrest. The zymocin alpha and beta subunits are thought
to act from the cell's exterior by docking to the cell
wall-associated chitin, thus mediating gamma-toxin
translocation. The alpha subunit has an eight-stranded
TIM barrel fold similar to that of family 18 glycosyl
hydrolases such as hevamine, chitolectin, and
chitobiase.
Length = 345
Score = 40.0 bits (94), Expect = 3e-04
Identities = 35/131 (26%), Positives = 61/131 (46%), Gaps = 20/131 (15%)
Query: 54 YNVKSLAKYLDWVTVLSFDYSGYWDGATGHVAPLYQSQDDQYHSVNTIVPVCRCSQSHID 113
+ +K +AKY+D++ +++D G WD +P P C +SH++
Sbjct: 168 FPIKDMAKYVDYIVYMTYDLHGQWDYGNKWASPG--------------CPAGNCLRSHVN 213
Query: 114 NHHLLNSNINYWISK-GMPARKVIMGMPLYAQTFILADSNSHGLNALTVGPG---LPGPF 169
L++ I+K G+P+ KV++G+ Y ++F +AD G GPG G
Sbjct: 214 KTETLDALS--MITKAGVPSNKVVVGVASYGRSFKMADPGCTGPGCTFTGPGSGAEAGRC 271
Query: 170 TQSPGFMAYYE 180
T + G+ A E
Sbjct: 272 TCTAGYGAISE 282
>gnl|CDD|226376 COG3858, COG3858, Predicted glycosyl hydrolase [General function
prediction only].
Length = 423
Score = 36.3 bits (84), Expect = 0.006
Identities = 22/92 (23%), Positives = 38/92 (41%), Gaps = 30/92 (32%)
Query: 51 YSSYNVKSLAKYLDWVTVLSFDYSGYWDGATGHVAPLYQSQDDQYHSVNTIVPVCRCSQS 110
+ +Y+ +L K D+V ++++D+ G G VA + R
Sbjct: 261 HGAYDYVALGKIADFVILMTYDWHYSG-GPPGPVAS---------------IGWVRKV-- 302
Query: 111 HIDNHHLLNSNINYWISKGMPARKVIMGMPLY 142
I Y ++ +PA KV+MG+PLY
Sbjct: 303 -----------IEYALTV-IPAEKVMMGIPLY 322
>gnl|CDD|119362 cd06545, GH18_3CO4_chitinase, The Bacteroides thetaiotaomicron
protein represented by pdb structure 3CO4 is an
uncharacterized bacterial member of the family 18
glycosyl hydrolases with homologs found in
Flavobacterium, Stigmatella, and Pseudomonas.
Length = 253
Score = 31.3 bits (71), Expect = 0.23
Identities = 26/108 (24%), Positives = 44/108 (40%), Gaps = 34/108 (31%)
Query: 45 LLKSSAYSSYNV-----KSLAKYLDWVTVLSFDYSGYWDGATGHVAPLYQSQDDQYHSVN 99
L ++A SS+N +LA Y D++ ++S+D +G W G P S D +
Sbjct: 133 KLLTAAVSSWNGGAVSDSTLA-YFDFINIMSYDATGPWWG----DNPGQHSSYDDAVN-- 185
Query: 100 TIVPVCRCSQSHIDNHHLLNSNINYWISKG-MPARKVIMGMPLYAQTF 146
++NYW +G K+++G+P Y F
Sbjct: 186 ---------------------DLNYWNERGLASKDKLVLGLPFYGYGF 212
>gnl|CDD|217158 pfam02636, Methyltransf_28, Putative
S-adenosyl-L-methionine-dependent methyltransferase.
This family is a putative S-adenosyl-L-methionine
(SAM)-dependent methyltransferase. In eukaryotes it
plays a role in mitochondrial complex I activity.
Length = 241
Score = 27.6 bits (62), Expect = 4.0
Identities = 10/44 (22%), Positives = 16/44 (36%), Gaps = 5/44 (11%)
Query: 56 VKSLAKYLDWVTVLSFDYSGYWDGATGHVAPL--YQSQDDQYHS 97
++ LA+ L +L DY GY L Y+ +
Sbjct: 166 LEQLAERLPRGALLIIDY-GYPASEYRPGGTLRAYRRH--RVVD 206
>gnl|CDD|185328 PRK15430, PRK15430, putative chloramphenical resistance permease
RarD; Provisional.
Length = 296
Score = 27.2 bits (60), Expect = 5.2
Identities = 10/35 (28%), Positives = 22/35 (62%), Gaps = 3/35 (8%)
Query: 112 IDNHHLLNSNINYWISKGMPARKVIMGMPLYAQTF 146
++NHH+L +++ Y+I+ P +++GM + F
Sbjct: 94 VNNHHMLEASLGYFIN---PLVNIVLGMIFLGERF 125
>gnl|CDD|225318 COG2520, COG2520, Predicted methyltransferase [General function
prediction only].
Length = 341
Score = 27.3 bits (61), Expect = 5.5
Identities = 14/52 (26%), Positives = 19/52 (36%), Gaps = 16/52 (30%)
Query: 132 ARKVIMGMPLYAQTFILADSNSHGLNALTVGPGLPGPFTQSPGFMAYYEVSH 183
A ++IMG+P A F+ L L G G + YYE
Sbjct: 257 ADRIIMGLPKSAHEFL-----PLALELLKDG-----------GIIHYYEFVP 292
>gnl|CDD|180994 PRK07480, PRK07480, putative aminotransferase; Validated.
Length = 456
Score = 27.2 bits (61), Expect = 6.3
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 124 YWISKGMPARKVIMG 138
YW KG P +KVI+
Sbjct: 134 YWALKGKPQKKVIIS 148
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
0.318 0.131 0.404
Gapped
Lambda K H
0.267 0.0738 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,319,590
Number of extensions: 810486
Number of successful extensions: 587
Number of sequences better than 10.0: 1
Number of HSP's gapped: 569
Number of HSP's successfully gapped: 19
Length of query: 189
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 98
Effective length of database: 6,901,388
Effective search space: 676336024
Effective search space used: 676336024
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 (21.7 bits)
S2: 56 (25.3 bits)