RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12280
(758 letters)
>gnl|CDD|216423 pfam01301, Glyco_hydro_35, Glycosyl hydrolases family 35.
Length = 318
Score = 375 bits (965), Expect = e-125
Identities = 156/323 (48%), Positives = 202/323 (62%), Gaps = 21/323 (6%)
Query: 126 TFLLNGKEFRILSGSIHYFRVRPEYWRDRLRKLRAMGANTVETYIAWNLHEPLKDVYEFG 185
+FL++G+ FR++SGSIHYFR+ PE W DRL+K +A+G NT+ETY+ WNLHEP Y+F
Sbjct: 1 SFLIDGQRFRLISGSIHYFRIPPEMWPDRLQKAKALGLNTIETYVFWNLHEPEPGQYDFS 60
Query: 186 DNNKDIDFVKFIKIAQEEDLFVIIRPGPYICAEWDFGGMPSYLLREPGIKLRSMDPKYLN 245
D VKFIK+AQE L+VI+RPGPYICAEWDFGG+P++LLR PGI+LR+ DP +L
Sbjct: 61 GIL---DLVKFIKLAQEAGLYVILRPGPYICAEWDFGGLPAWLLRVPGIRLRTSDPPFLE 117
Query: 246 RVRQYFNNLIPLLEPLQFIDGQGPIIMLGVENELAVLGPNVADKNYMRELVAMLRSNGI- 304
V +Y L+P ++PLQ +G GPII++ +ENE G DK Y++ L + R G
Sbjct: 118 AVDRYLTALLPKMKPLQATNG-GPIILVQIENEYGSYGV---DKAYLQALRKLYREWGAD 173
Query: 305 RSPLFTADDPS--MGDSGSLIEDVLYAANILYAGEE----LRKLSYMQPNKPLMVMEWWT 358
+ LFT D P G L + V+Y N G L PN PLM E+WT
Sbjct: 174 MAVLFTTDGPWGMCLQCGDLPDPVIYTTNGFGCGANPTSIFGLLRPFSPNGPLMWSEFWT 233
Query: 359 GWFDTWAKNRHNTFPTNEYEMTLQSLLEYPVSLNLFMFHGGTSWGFYNGANIDKSLDKYT 418
GWFD W H+ P + +++ L S+NL+MFHGGT++GF NGAN Y
Sbjct: 234 GWFDHWGGPHHHR-PAEDLAFSVERFLARGSSVNLYMFHGGTNFGFTNGANF------YG 286
Query: 419 PDTTSYDYDAPLTEGGDYTAKYW 441
P TTSYDYDAPL E GD T KY
Sbjct: 287 PQTTSYDYDAPLDEAGDPTPKYG 309
>gnl|CDD|166698 PLN03059, PLN03059, beta-galactosidase; Provisional.
Length = 840
Score = 155 bits (393), Expect = 4e-39
Identities = 104/319 (32%), Positives = 153/319 (47%), Gaps = 39/319 (12%)
Query: 126 TFLLNGKEFRILSGSIHYFRVRPEYWRDRLRKLRAMGANTVETYIAWNLHEPLKDVYEFG 185
F++NG+ ++SGSIHY R PE W D ++K + G + ++TY+ WN HEP Y F
Sbjct: 36 AFIINGQRRILISGSIHYPRSTPEMWPDLIQKAKDGGLDVIQTYVFWNGHEPSPGNYYFE 95
Query: 186 DNNKDIDFVKFIKIAQEEDLFVIIRPGPYICAEWDFGGMPSYLLREPGIKLRSMDPKYLN 245
D D VKFIK+ Q L+V +R GPYICAEW+FGG P +L PGI+ R+ + +
Sbjct: 96 DR---YDLVKFIKVVQAAGLYVHLRIGPYICAEWNFGGFPVWLKYVPGIEFRTDNGPFKA 152
Query: 246 RVRQYFNNLIPLLEPLQFIDGQG-PIIMLGVENELAVLGP-----NVADKNYMRELVAML 299
++++ ++ +++ + + QG PII+ +ENE GP K Y + M
Sbjct: 153 AMQKFTEKIVDMMKSEKLFEPQGGPIILSQIENEY---GPVEWEIGAPGKAYTKWAADMA 209
Query: 300 RSNGIRSPLFTADDPSMGDSGSLIEDVLYAANILYAGEELRKLSYMQPNK---PLMVMEW 356
G P D V+ N Y +PNK P M E
Sbjct: 210 VKLGTGVPWVMCKQEDAPDP------VIDTCNGFYC-------ENFKPNKDYKPKMWTEA 256
Query: 357 WTGWFDTWAKNRHNTFPTNEYEMTLQSLLEYPVS-LNLFMFHGGTSWGFYNGANIDKSLD 415
WTGW+ + N P + ++ ++ S +N +M+HGGT++G G
Sbjct: 257 WTGWYTEFGGAVPNR-PAEDLAFSVARFIQNGGSFINYYMYHGGTNFGRTAGGPFI---- 311
Query: 416 KYTPDTTSYDYDAPLTEGG 434
TSYDYDAPL E G
Sbjct: 312 -----ATSYDYDAPLDEYG 325
>gnl|CDD|224786 COG1874, LacA, Beta-galactosidase [Carbohydrate transport and
metabolism].
Length = 673
Score = 109 bits (274), Expect = 1e-24
Identities = 81/443 (18%), Positives = 146/443 (32%), Gaps = 62/443 (13%)
Query: 126 TFLLNGKEFRILSGSIHYFRVRPEYWRDRLRKLRAMGANTVET-YIAWNLHEPLKDVYEF 184
+F+ +G+ + G + R E W D LRK++A+G NTV Y AWNLHEP + ++F
Sbjct: 7 SFIRDGRRILLYGGDYYPERWPRETWMDDLRKMKALGLNTVRIGYFAWNLHEPEEGKFDF 66
Query: 185 GDNNKDIDFVKFIKIAQEEDLFVIIRPGP-YICAEWDFGGMPSYLLREPGIKLRSMDPK- 242
++ F++ A + L+VI+R GP W P L + ++RS +
Sbjct: 67 TWLDEI-----FLERAYKAGLYVILRTGPTGAPPAWLAKKYPEILAVDENGRVRSDGARE 121
Query: 243 ---YLNRV-RQYFNNLIPLLEPLQFIDGQGPIIMLGVENELAVLGPNVADKNYMRELVA- 297
++ V R+Y + ++ + + +G +I +NE G + +Y +
Sbjct: 122 NICPVSPVYREYLDRILQQIRERLYGNG-PAVITWQNDNE---YGGHPCYCDYCQAAFRL 177
Query: 298 MLRSNGIRSPLFTADDPSMGDSGSLIEDVLYAANILYAGEE-LRKLSYM-------QPNK 349
L+ + S + D + GE L L Q +
Sbjct: 178 WLKKGYGSLDNLNEAWGTSFWSHTYK-DFDEIMSPNPFGELPLPGLYLDYRRFESEQILE 236
Query: 350 -PLMVMEWWTGWF-DTWAKNRHNTFPTNEYEMTLQSLLEYPVSLNLFMFHGGTSWG---- 403
E +F + + +L++ N +H G +
Sbjct: 237 FVREEGEAIKAYFPNRPVTPNLLAAFKKFDAYKWEKVLDFASWDNYPAWHRGRDFTKFIH 296
Query: 404 --FYNGANIDK-SLDKYTPDTTSYDYDAPLTEGGDYTAKYWI-------TRKYFLQVAQN 453
F NG L + P ++ L G YF
Sbjct: 297 DLFRNGKQGQPFWLMEQLPSVVNWALYNKLKRPGALRLPSLQAVAHGADNVIYFQWRQSP 356
Query: 454 --LNISHPTPPEVLPKMAYDNVELGQQLTWHNLVSQIPLEKIVVSPSLIPMEDLAVNNGT 511
SH + P ++ + L +++ V L + D V
Sbjct: 357 SPREKSHDGV--ISPVLSENTR-LFREVAA-------------VGEELKSLPD--VMEAR 398
Query: 512 GQSFGYTLYRQPDWHIPTDQDAI 534
Q++ L+ D+D
Sbjct: 399 VQAYVAILFDYESRWAFEDEDGG 421
>gnl|CDD|217042 pfam02449, Glyco_hydro_42, Beta-galactosidase. This group of
beta-galactosidase enzymes belong to the glycosyl
hydrolase 42 family. The enzyme catalyzes the hydrolysis
of terminal, non-reducing terminal beta-D-galactosidase
residues.
Length = 376
Score = 41.9 bits (99), Expect = 9e-04
Identities = 16/70 (22%), Positives = 28/70 (40%), Gaps = 7/70 (10%)
Query: 144 FRVRPEYWRDRLRKLRAMGANTVE-TYIAWNLHEPLKDVYEFGDNNKDIDFVKFIKIAQE 202
+ E W + +R ++ G N V AW EP + Y+FG + I + +
Sbjct: 5 EQWPEETWEEDIRLMKEAGVNVVRLGIFAWAKLEPEEGKYDFG------WLDEIIDLLAK 58
Query: 203 EDLFVIIRPG 212
+ VI+
Sbjct: 59 AGIKVILATP 68
>gnl|CDD|215751 pfam00150, Cellulase, Cellulase (glycosyl hydrolase family 5).
Length = 269
Score = 34.2 bits (79), Expect = 0.19
Identities = 17/82 (20%), Positives = 34/82 (41%), Gaps = 6/82 (7%)
Query: 130 NGKEFRILSGSIHYFRVRPEYWRDR--LRKLRAMGANTVETYIAWNLHEPLKDVYEFGDN 187
NGK + S H+ Y+ + + ++ G N V ++W + P Y +N
Sbjct: 4 NGKPVNLFGMSTHWG---NPYYTTKAMIDLVKDWGFNVVRLPVSWGGYVPNNPDYLIDEN 60
Query: 188 NKDIDFVKFIKIAQEEDLFVII 209
+ + + A + ++VII
Sbjct: 61 WLNR-VDEVVDYAIDNGMYVII 81
>gnl|CDD|190768 pfam03834, Rad10, Binding domain of DNA repair protein Ercc1
(rad10/Swi10). Ercc1 and XPF (xeroderma pigmentosum
group F-complementing protein) are two
structure-specific endonucleases of a class of seven
containing an ERCC4 domain. Together they form an
obligate complex that functions primarily in nucleotide
excision repair (NER), a versatile pathway able to
detect and remove a variety of DNA lesions induced by UV
light and environmental carcinogens, and secondarily in
DNA interstrand cross-link repair and telomere
maintenance. This domain in fact binds simultaneously to
both XPF and single-stranded DNA; this ternary complex
explains the important role of Ercc1 in targeting its
catalytic XPF partner to the NER pre-incision complex.
Length = 68
Score = 29.9 bits (68), Expect = 0.77
Identities = 16/44 (36%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 115 NTGLQYDDNPNTFLLNGKEFRILSGSIHYFRVRPEYWRDRLRKL 158
N +Y D +++ GK +L S+ Y R+ PEY RL+KL
Sbjct: 20 NVPWEYSDIVPDYVV-GKTRCVLFLSLKYHRLHPEYIYTRLKKL 62
>gnl|CDD|234452 TIGR04063, stp3, PEP-CTERM/exosortase A-associated
glycosyltransferase, Daro_2409 family.
PEP-CTERM/exosortase is a protein-sorting system
associated with exopolysaccharide production. Members of
this protein family are group 1 glycosyltransferases
(see pfam00534) in which the overwhelming majority occur
in species with the EpsH1 form of exosortase (see
TIGR03109), and usually co-clustered with the
exosortase. A typical member is Daro_2409 from
Dechloromonas aromatica RCB.
Length = 397
Score = 32.2 bits (74), Expect = 0.91
Identities = 25/78 (32%), Positives = 37/78 (47%), Gaps = 4/78 (5%)
Query: 503 EDLAVNNGTGQ--SFGYTLYRQPDWHIPTDQDAIMRI-EGRVADIAIVMVNQERQTVPLS 559
ED AV++GT + S Y L R + + DA+ I EG D+ + E+ TV +
Sbjct: 128 EDAAVDHGTTREGSLRYRLTRALETYALRRADAVTTICEGLRGDLVARGIPAEKITVIPN 187
Query: 560 DVQDLNEFGFWKTENAEL 577
V DL+ FG + L
Sbjct: 188 AV-DLDLFGLPAPRDPAL 204
>gnl|CDD|241319 cd13165, PTB_DOK7, Downstream of tyrosine kinase 7
phosphotyrosine-binding domain (PTBi). The Dok family
adapters are phosphorylated by different protein
tyrosine kinases. Dok proteins are involved in
processes such as modulation of cell differentiation and
proliferation, as well as in control of the cell
spreading and migration The Dok protein contains an
N-terminal pleckstrin homology (PH) domain followed by a
central phosphotyrosine binding (PTB) domain, which has
a PH-like fold, and a proline- and tyrosine-rich
C-terminal tail. The PH domain is binds to acidic
phospholids and localizes proteins to the plasma
membrane, while the PTB domain mediates protein-protein
interactions by binding to phosphotyrosine-containing
motifs. The C-terminal part of Dok contains multiple
tyrosine phosphorylation sites that serve as potential
docking sites for Src homology 2-containing proteins
such as ras GTPase-activating protein and Nck, leading
to inhibition of ras signaling pathway activation and
the c-Jun N-terminal kinase (JNK) and c-Jun activation,
respectively. There are 7 mammalian Dok members: Dok-1
to Dok-7. Dok-1 and Dok-2 act as negative regulators of
the Ras-Erk pathway downstream of many
immunoreceptor-mediated signaling systems, and it is
believed that recruitment of p120 rasGAP by Dok-1 and
Dok-2 is critical to their negative regulation. Dok-3 is
a negative regulator of the activation of JNK and
mobilization of Ca2+ in B-cell receptor-mediated
signaling, interacting with SHIP-1 and Grb2. Dok-4- 6
play roles in protein tyrosine kinase(PTK)-mediated
signaling in neural cells and Dok-7 is the key
cytoplasmic activator of MuSK (Muscle-Specific Protein
Tyrosine Kinase). PTB domains have a common PH-like fold
and are found in various eukaryotic signaling molecules.
This domain was initially shown to binds peptides with a
NPXY motif with differing requirements for
phosphorylation of the tyrosine, although more recent
studies have found that some types of PTB domains can
bind to peptides lack tyrosine residues altogether. In
contrast to SH2 domains, which recognize phosphotyrosine
and adjacent carboxy-terminal residues, PTB-domain
binding specificity is conferred by residues
amino-terminal to the phosphotyrosine. PTB domains are
classified into three groups: phosphotyrosine-dependent
Shc-like, phosphotyrosine-dependent IRS-like, and
phosphotyrosine-independent Dab-like PTB domains. This
cd is part of the IRS-like subgroup.
Length = 101
Score = 29.7 bits (67), Expect = 1.6
Identities = 11/27 (40%), Positives = 13/27 (48%)
Query: 381 LQSLLEYPVSLNLFMFHGGTSWGFYNG 407
L L Y N F F GGT G++ G
Sbjct: 47 LSDLRRYGAVPNGFSFEGGTRCGYWAG 73
>gnl|CDD|223238 COG0160, GabT, 4-aminobutyrate aminotransferase and related
aminotransferases [Amino acid transport and metabolism].
Length = 447
Score = 31.4 bits (72), Expect = 1.9
Identities = 12/42 (28%), Positives = 20/42 (47%), Gaps = 5/42 (11%)
Query: 283 GPNVADKNYMRELVAMLRSNGIRSPLFTADD--PSMGDSGSL 322
G V K +++ L + R +GI L AD+ G +G +
Sbjct: 236 GIIVPPKGFLKALRKLCREHGI---LLIADEVQTGFGRTGKM 274
>gnl|CDD|222076 pfam13364, BetaGal_dom4_5, Beta-galactosidase jelly roll domain.
This domain is found in beta galactosidase enzymes. It
has a jelly roll fold.
Length = 109
Score = 29.1 bits (66), Expect = 2.9
Identities = 11/37 (29%), Positives = 19/37 (51%), Gaps = 1/37 (2%)
Query: 694 VFVNGFNLGRY-SRLSPYQTLYLPAPLLHLGQNKISV 729
++VNG+ LG Y + P T +P +L+ +V
Sbjct: 65 LWVNGYQLGSYVGHIGPQTTFPVPEGILNYRNTVATV 101
>gnl|CDD|107037 PHA01514, PHA01514, O-antigen conversion protein C.
Length = 485
Score = 29.9 bits (67), Expect = 5.5
Identities = 23/87 (26%), Positives = 41/87 (47%), Gaps = 1/87 (1%)
Query: 401 SWGFYNGANIDKSLDKYTPDTTSYDYDAPLTEGGDYTAKYWITRKYFLQVAQNLNISHPT 460
S+G YN N L++ + S D D L G D +I + + + +N+ I HP
Sbjct: 363 SYGAYNAINAQFQLEESIVNRISQDIDH-LGFGRDKKNIKFIGTEPYASINENIVIKHPL 421
Query: 461 PPEVLPKMAYDNVELGQQLTWHNLVSQ 487
E++P++ +N + L N+ S+
Sbjct: 422 MRELIPRIINNNWMWSEVLMQRNVFSR 448
>gnl|CDD|240389 PTZ00374, PTZ00374, dihydroxyacetone phosphate acyltransferase;
Provisional.
Length = 1108
Score = 30.2 bits (68), Expect = 5.6
Identities = 27/83 (32%), Positives = 40/83 (48%), Gaps = 12/83 (14%)
Query: 191 IDFVKFIKIAQEEDLFVIIRPGPYICAEWDF--GGMPSYLLREPGIKL--RSM--DPKYL 244
IDF+ + L V+ P P++CA DF G + L+R G RS DP Y
Sbjct: 641 IDFIIMTYL-----LAVMGLPLPHVCAGDDFLRMGPIATLMRGSGAFFMRRSFRDDPLYA 695
Query: 245 NRVRQYFNNLIPLLEPLQ-FIDG 266
++Y +L+ PL+ FI+G
Sbjct: 696 ALFKEYVRHLVLRRRPLEFFIEG 718
>gnl|CDD|130387 TIGR01320, mal_quin_oxido, malate:quinone-oxidoreductase. This
membrane-associated enzyme is an alternative to the
better-known NAD-dependent malate dehydrogenase as part
of the TCA cycle. The reduction of a quinone rather than
NAD+ makes the reaction essentially irreversible in the
direction of malate oxidation to oxaloacetate. Both
forms of malate dehydrogenase are active in E. coli;
disruption of this form causes less phenotypic change.
In some bacteria, this form is the only or the more
important malate dehydrogenase [Energy metabolism, TCA
cycle].
Length = 483
Score = 29.8 bits (67), Expect = 6.4
Identities = 14/65 (21%), Positives = 28/65 (43%), Gaps = 7/65 (10%)
Query: 195 KFIKIAQEEDLFVIIRPG---PYICAEWDFGGMPSYLLREPGIKLRSMDPKYLNRVRQYF 251
KF+K DL + IRP + + YL+ + LR + + ++ +R+++
Sbjct: 318 KFLKHGSILDLPLSIRPDNLLSMLGVGLTEMDLTKYLIGQ----LRKSEEERVSALREFY 373
Query: 252 NNLIP 256
I
Sbjct: 374 PEAID 378
>gnl|CDD|215465 PLN02863, PLN02863, UDP-glucoronosyl/UDP-glucosyl transferase
family protein.
Length = 477
Score = 29.5 bits (66), Expect = 8.3
Identities = 23/82 (28%), Positives = 34/82 (41%), Gaps = 20/82 (24%)
Query: 456 ISHPTPPEVLPKMAYDNVELGQQLTW-HNLVSQIPLEKIVVSPSLIPMEDLAVNNGTGQS 514
SHP+PP + + L W NL Q+ + + V SPS S
Sbjct: 109 RSHPSPPVAIISDMF--------LGWTQNLACQLGIRRFVFSPS----------GAMALS 150
Query: 515 FGYTLYRQ-PDWHIPTDQDAIM 535
Y+L+R+ P P DQ+ I+
Sbjct: 151 IMYSLWREMPTKINPDDQNEIL 172
>gnl|CDD|131014 TIGR01959, nuoF_fam, NADH-quinone oxidoreductase, F subunit. This
model describes the F chain of complexes that resemble
NADH-quinone oxidoreductases. The electron acceptor is a
quinone, ubiquinone, in mitochondria and most bacteria,
including Escherichia coli, where the recommended gene
symbol is nuoF. This family does not have any members in
chloroplast or cyanobacteria, where the quinone may be
plastoquinone and NADH may be replaced by NADPH, nor in
Methanosarcina, where NADH is replaced by F420H2 [Energy
metabolism, Electron transport].
Length = 411
Score = 29.2 bits (66), Expect = 9.0
Identities = 22/72 (30%), Positives = 28/72 (38%), Gaps = 22/72 (30%)
Query: 159 RAMGANTVETYI-------AWNLHEPLKDVYEFGDNNKDI-----DFVKFIKIAQEEDLF 206
A+GA+ YI A NL + + Y G K+I DF +LF
Sbjct: 109 YAIGAHRGYIYIRGEFIKEAENLEAAIAEAYAAGLLGKNILGSGFDF----------ELF 158
Query: 207 VIIRPGPYICAE 218
V G YIC E
Sbjct: 159 VHRGAGAYICGE 170
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 0.137 0.418
Gapped
Lambda K H
0.267 0.0762 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 40,069,721
Number of extensions: 4029927
Number of successful extensions: 3333
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3317
Number of HSP's successfully gapped: 21
Length of query: 758
Length of database: 10,937,602
Length adjustment: 104
Effective length of query: 654
Effective length of database: 6,324,786
Effective search space: 4136410044
Effective search space used: 4136410044
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 (21.7 bits)
S2: 63 (28.0 bits)