RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 026345
(240 letters)
>gnl|CDD|215868 pfam00343, Phosphorylase, Carbohydrate phosphorylase. The members
of this family catalyze the formation of glucose
1-phosphate from one of the following polyglucoses;
glycogen, starch, glucan or maltodextrin.
Length = 712
Score = 219 bits (560), Expect = 3e-67
Identities = 102/239 (42%), Positives = 132/239 (55%), Gaps = 40/239 (16%)
Query: 36 LLLTELDAALGNGGLERLASCFLDSLATLNYPAWDMDLDTNMACLN-------------- 81
LL E DA LGNGGL RLA+CFLDSLATL PA+ +
Sbjct: 12 LLEEENDAGLGNGGLGRLAACFLDSLATLGLPAYGYGIRYEYGMFEQKIVDGWQVELPDD 71
Query: 82 ----NSSLKMVR------------------KKLQKVGGENVMDVAYDVPIPGYKTKTTLN 119
+ ++ R +K + E V+ VAYD PIPGY+T T
Sbjct: 72 WLEYGNPWEIERPDVRYPVRFYGKVEEKEGRKTKWDDTEVVLAVAYDTPIPGYRTNNTNT 131
Query: 120 LRLWSTKVAAEDFDLHAFNTGDHAKAYAAITNVEKICYVLYPGDEYIARKTLRLKQQYTL 179
LRLWS K A+E+F+L FN GD+ A E I VLYP D K LRLKQQY L
Sbjct: 132 LRLWSAK-ASEEFNLADFNDGDYLAAVEDKNRAENISRVLYPNDNTFEGKELRLKQQYFL 190
Query: 180 CSASVQDIIVRYEGRLGEPVNWENFPEKVAVQMNDTHPTLCIPDLIRILMDVKGLSWND 238
SA++QDII R++ + + + FP+KVA+Q+NDTHPTL IP+L+RIL+D +GLSW++
Sbjct: 191 VSATLQDIIRRFK-KSHK--SLSEFPDKVAIQLNDTHPTLAIPELMRILIDEEGLSWDE 246
>gnl|CDD|99996 cd04300, GT1_Glycogen_Phosphorylase, This is a family of
oligosaccharide phosphorylases. It includes yeast and
mammalian glycogen phosphorylases, plant starch/glucan
phosphorylase, as well as the maltodextrin
phosphorylases of bacteria. The members of this family
catalyze the breakdown of oligosaccharides into
glucose-1-phosphate units. They are important allosteric
enzymes in carbohydrate metabolism. The allosteric
control mechanisms of yeast and mammalian members of
this family are different from that of bacterial
members. The members of this family belong to the GT-B
structural superfamily of glycoslytransferases, which
have characteristic N- and C-terminal domains each
containing a typical Rossmann fold. The two domains have
high structural homology despite minimal sequence
homology. The large cleft that separates the two
domains includes the catalytic center and permits a high
degree of flexibility.
Length = 797
Score = 207 bits (530), Expect = 3e-62
Identities = 77/150 (51%), Positives = 98/150 (65%), Gaps = 4/150 (2%)
Query: 89 RKKLQKVGGENVMDVAYDVPIPGYKTKTTLNLRLWSTKVAAEDFDLHAFNTGDHAKAYAA 148
R +++ V GE V+ V YD PIPGY T T LRLWS + A+E+FDL AFN GD+ +A
Sbjct: 187 RLRVRWVDGETVLAVPYDTPIPGYGTNTVNTLRLWSAE-ASEEFDLDAFNRGDYIRAVEE 245
Query: 149 ITNVEKICYVLYPGDEYIARKTLRLKQQYTLCSASVQDIIVRYEGRLGEPVNWENFPEKV 208
E I VLYP D K LRLKQQY SAS+QDII R++ G FP+KV
Sbjct: 246 KNRAENISKVLYPNDSTEEGKELRLKQQYFFVSASLQDIIRRFKKTHG---PLSEFPDKV 302
Query: 209 AVQMNDTHPTLCIPDLIRILMDVKGLSWND 238
A+Q+NDTHP L IP+L+RIL+D +GL W++
Sbjct: 303 AIQLNDTHPALAIPELMRILVDEEGLDWDE 332
Score = 72.1 bits (178), Expect = 2e-14
Identities = 22/30 (73%), Positives = 24/30 (80%)
Query: 40 ELDAALGNGGLERLASCFLDSLATLNYPAW 69
E DA LGNGGL RLA+CFLDSLATL P +
Sbjct: 99 EPDAGLGNGGLGRLAACFLDSLATLGLPGY 128
>gnl|CDD|233722 TIGR02093, P_ylase, glycogen/starch/alpha-glucan phosphorylases.
This family consists of phosphorylases. Members use
phosphate to break alpha 1,4 linkages between pairs of
glucose residues at the end of long glucose polymers,
releasing alpha-D-glucose 1-phosphate. The nomenclature
convention is to preface the name according to the
natural substrate, as in glycogen phosphorylase, starch
phosphorylase, maltodextrin phosphorylase, etc. Name
differences among these substrates reflect differences
in patterns of branching with alpha 1,6 linkages.
Members include allosterically regulated and unregulated
forms. A related family, TIGR02094, contains examples
known to act well on particularly small alpha 1,4
glucans, as may be found after import from exogenous
sources [Energy metabolism, Biosynthesis and degradation
of polysaccharides].
Length = 794
Score = 181 bits (462), Expect = 7e-53
Identities = 72/150 (48%), Positives = 97/150 (64%), Gaps = 4/150 (2%)
Query: 89 RKKLQKVGGENVMDVAYDVPIPGYKTKTTLNLRLWSTKVAAEDFDLHAFNTGDHAKAYAA 148
R + + V E V+ + YDVP+PGY+T T LRLWS + A E+FDL AFN GD+ +A
Sbjct: 184 RLRPRWVPAETVLAIPYDVPVPGYRTDTVNTLRLWSAE-APEEFDLDAFNAGDYYEAVEE 242
Query: 149 ITNVEKICYVLYPGDEYIARKTLRLKQQYTLCSASVQDIIVRYEGRLGEPVNWENFPEKV 208
E I VLYP D K LRLKQQY SAS+QDII R+ + +FP+KV
Sbjct: 243 KNRAENISRVLYPNDSTYEGKELRLKQQYFFVSASLQDIIRRHLETHP---DLSDFPKKV 299
Query: 209 AVQMNDTHPTLCIPDLIRILMDVKGLSWND 238
A+Q+NDTHP L IP+L+R+L+D +G+ W++
Sbjct: 300 AIQLNDTHPALAIPELMRLLIDEEGMDWDE 329
Score = 66.9 bits (164), Expect = 8e-13
Identities = 23/30 (76%), Positives = 24/30 (80%)
Query: 40 ELDAALGNGGLERLASCFLDSLATLNYPAW 69
E DA LGNGGL RLA+CFLDSLATL PA
Sbjct: 96 ENDAGLGNGGLGRLAACFLDSLATLGLPAT 125
>gnl|CDD|223136 COG0058, GlgP, Glucan phosphorylase [Carbohydrate transport and
metabolism].
Length = 750
Score = 152 bits (385), Expect = 3e-42
Identities = 76/222 (34%), Positives = 100/222 (45%), Gaps = 48/222 (21%)
Query: 36 LLLTELDAALGNGGLERLASCFLDSLATLNYPA-------------------WDMDLDTN 76
E D LG GGL RLA CFLDS A L P W ++L
Sbjct: 104 FGEHESDPGLG-GGLGRLAGCFLDSAADLGLPLTGYGLRYRYGYFRQSDVDGWQVELPDE 162
Query: 77 MACLNNSSLKMVRKKLQKVGGENVMDVAYDVPIPGYKTKTTLNLRLWSTKVAAEDFDLHA 136
+ + +R V YDVP+PGY + LRLW +V L
Sbjct: 163 -WLKYGNPWEFLRDAEG---------VPYDVPVPGYDN-RVVTLRLWQAQVGRVPLYLLD 211
Query: 137 FNTGDHAKAYAAITNVEKICYVLYPGDEYIARKTLRLKQQYTLCSASVQDIIVRYEGRLG 196
FN G++ + I VLYPGD K LRLKQ+Y L SA VQDI+ R
Sbjct: 212 FNVGEN------KNDARNITRVLYPGDS----KELRLKQEYFLGSAGVQDILARGHLEHH 261
Query: 197 EPVNWENFPEKVAVQMNDTHPTLCIPDLIRILMDVKGLSWND 238
+ + + +NDTHP L IP+L+R+L+D +GLSW++
Sbjct: 262 ---DLDVLADH----LNDTHPALAIPELMRLLIDEEGLSWDE 296
>gnl|CDD|184948 PRK14986, PRK14986, glycogen phosphorylase; Provisional.
Length = 815
Score = 149 bits (378), Expect = 2e-41
Identities = 91/239 (38%), Positives = 125/239 (52%), Gaps = 41/239 (17%)
Query: 36 LLLTELDAALGNGGLERLASCFLDSLATLNYPA--WDMDLDTNMACLN------------ 81
L+ E D LGNGGL RLA+CFLDSLATL P + + D M N
Sbjct: 112 LIDEENDPGLGNGGLGRLAACFLDSLATLGLPGRGYGIRYDYGMFKQNIVNGRQKESPDY 171
Query: 82 -------------NSSLKMVR---------KKLQKVGGENVMDVAYDVPIPGYKTKTTLN 119
N+ K VR KK + + E ++ VAYD IPGY T T
Sbjct: 172 WLEYGNPWEFKRHNTRYK-VRFGGRIQQEGKKTRWIETEEILAVAYDQIIPGYDTDATNT 230
Query: 120 LRLWSTKVAAEDFDLHAFNTGDHAKAYAAITNVEKICYVLYPGDEYIARKTLRLKQQYTL 179
LRLWS + A+ + +L FN GD+ A + E + VLYP D + + LRL+Q+Y L
Sbjct: 231 LRLWSAQ-ASSEINLGKFNQGDYFAAVEDKNHSENVSRVLYPDDSTYSGRELRLRQEYFL 289
Query: 180 CSASVQDIIVRYEGRLGEPVNWENFPEKVAVQMNDTHPTLCIPDLIRILMDVKGLSWND 238
SA+VQDI+ R+ ++N +K+A+ +NDTHP L IP+L+R+L+D SW+D
Sbjct: 290 VSATVQDILSRH---YQLHKTYDNLADKIAIHLNDTHPVLSIPELMRLLIDEHKFSWDD 345
>gnl|CDD|237881 PRK14985, PRK14985, maltodextrin phosphorylase; Provisional.
Length = 798
Score = 148 bits (375), Expect = 7e-41
Identities = 89/247 (36%), Positives = 122/247 (49%), Gaps = 41/247 (16%)
Query: 27 HGKALFPSLLLLTELDAALGNGGLERLASCFLDSLATLNYPAW----------------- 69
+ L + LL E D ALGNGGL RLA+CFLDS+AT+ PA
Sbjct: 94 YDINL--TDLLEEETDPALGNGGLGRLAACFLDSMATVGQPATGYGLNYQYGLFRQSFVD 151
Query: 70 --------DMDLDTNMACLNNSSLKM---VRKKLQKVGGEN-------VMDVAYDVPIPG 111
D D+ +N +L + + K+ K G + A+D+P+ G
Sbjct: 152 GKQVEAPDDWHRDSYPWFRHNEALDVQVGIGGKVTKQDGRERWEPAFTITGEAWDLPVVG 211
Query: 112 YKTKTTLNLRLWSTKVAAEDFDLHAFNTGDHAKAYAAITNVEKICYVLYPGDEYIARKTL 171
Y+ LRLW A FDL FN GD +A + EK+ VLYP D + A K L
Sbjct: 212 YRNGVAQPLRLWQAT-HAHPFDLTKFNDGDFLRAEQQGIDAEKLTKVLYPNDNHTAGKKL 270
Query: 172 RLKQQYTLCSASVQDIIVRYEGRLGEPVNWENFPEKVAVQMNDTHPTLCIPDLIRILMDV 231
RL QQY C+ SV DI+ R+ G + P+ +Q+NDTHPT+ IP+L+R+L+D
Sbjct: 271 RLMQQYFQCACSVADILRRHH-LAGRKL--HELPDYEVIQLNDTHPTIAIPELLRVLLDE 327
Query: 232 KGLSWND 238
LSW+D
Sbjct: 328 HQLSWDD 334
>gnl|CDD|219422 pfam07474, G2F, G2F domain. Nidogen, an invariant component of
basement membranes, is a multifunctional protein that
interacts with most other major basement membrane
proteins. The G2 fragment or (G"F domain) contains
binding sites for collagen IV and perlecan. The
structure is composed of an 11-stranded beta-barrel with
a central helix. This domain is structurally related to
that of green fluorescent protein pfam01353. A large
surface patch on the beta-barrel is conserved in all
metazoan nidogens.
Length = 193
Score = 34.4 bits (79), Expect = 0.025
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 127 VAAEDFDLHAFNTGDHAKAYAAITNV 152
VA + DLH + + +AY AI+N+
Sbjct: 23 VAFLNTDLHDYVVSNDGRAYTAISNI 48
>gnl|CDD|233723 TIGR02094, more_P_ylases, alpha-glucan phosphorylases. This family
consists of known phosphorylases, and homologs believed
to share the function of using inorganic phosphate to
cleave an alpha 1,4 linkage between the terminal glucose
residue and the rest of the polymer (maltodextrin,
glycogen, etc.). The name of the glucose storage polymer
substrate, and therefore the name of this enzyme,
depends on the chain lengths and branching patterns. A
number of the members of this family have been shown to
operate on small maltodextrins, as may be obtained by
utilization of exogenous sources. This family represents
a distinct clade from the related family modeled by
TIGR02093/pfam00343.
Length = 601
Score = 34.2 bits (79), Expect = 0.058
Identities = 32/167 (19%), Positives = 54/167 (32%), Gaps = 46/167 (27%)
Query: 81 NNSSLKMVRKKLQKVGGENVMDVAYDVPIPGYKTKTTLNLRLWSTKVAAEDFDLHAFNTG 140
NN + +K+ G+ + V I G ++W +V
Sbjct: 67 NNDFESLPIEKVLDTDGK---WLKISVRIRGRDVY----AKVWRVQV------------- 106
Query: 141 DHAKAYAAITNVE-------KICYVLYPGDEYIARKTLRLKQQYTLCSASVQDIIVRYEG 193
Y TN+ I LY GD K +R+ Q+ L V+ +
Sbjct: 107 GRVPLYLLDTNIPENSEDDRWITGRLYGGD-----KEMRIAQEIVLGIGGVRAL-----R 156
Query: 194 RLGEPVNWENFPEKVAVQMNDTHPTLCIPDLIRILMDVKGLSWNDII 240
LG + +N+ H + IR L+ +GLS+ +
Sbjct: 157 ALGIDPD--------VYHLNEGHAAFVTLERIRELIA-QGLSFEEAW 194
>gnl|CDD|214774 smart00682, G2F, G2 nidogen domain and fibulin.
Length = 227
Score = 32.4 bits (74), Expect = 0.15
Identities = 11/26 (42%), Positives = 17/26 (65%)
Query: 127 VAAEDFDLHAFNTGDHAKAYAAITNV 152
VA E+ DLH++ +AY AI+N+
Sbjct: 23 VAFENADLHSYVVSSEGRAYTAISNI 48
>gnl|CDD|185583 PTZ00375, PTZ00375, dihydroxyacetone kinase-like protein;
Provisional.
Length = 584
Score = 30.6 bits (69), Expect = 0.84
Identities = 23/62 (37%), Positives = 28/62 (45%), Gaps = 5/62 (8%)
Query: 9 AKLPHPLLSPHRKALILVHGKALFPSLLLLTELDAALGNG----GLERLASCFLDSLATL 64
K P S R L V + L S L ELDA +G+G GLER + L+SL L
Sbjct: 368 RKAATPTNSLLRSVLERVF-ETLIESENYLNELDAEVGDGDLGSGLERSSKAVLESLPYL 426
Query: 65 NY 66
Sbjct: 427 PL 428
>gnl|CDD|214488 smart00047, LYZ2, Lysozyme subfamily 2. Eubacterial enzymes
distantly related to eukaryotic lysozymes.
Length = 147
Score = 28.6 bits (64), Expect = 2.0
Identities = 21/81 (25%), Positives = 27/81 (33%), Gaps = 9/81 (11%)
Query: 104 AYDVPIPGYKTKTTLNLRLWSTKVAA------EDFDLHA-FNTGDHAKAYAAITNVEKIC 156
AYD T LN W T AA E F +A G + Y +
Sbjct: 61 AYDGRPVRMGTLEYLNGG-WVTVKAAFRGYFGEKFIDYAYVLRGQN-PLYKKRWGSNALQ 118
Query: 157 YVLYPGDEYIARKTLRLKQQY 177
Y D A+K +R+ Y
Sbjct: 119 TAGYATDPDYAKKLIRIIALY 139
>gnl|CDD|215264 PLN02475, PLN02475,
5-methyltetrahydropteroyltriglutamate--homocysteine
methyltransferase.
Length = 766
Score = 29.4 bits (66), Expect = 2.2
Identities = 24/74 (32%), Positives = 33/74 (44%), Gaps = 13/74 (17%)
Query: 64 LNYPAWDMDLDTNMACLNNSSLKMVRKKL-QKVGGENVMDVAY--DVPIPGYKTKTTLNL 120
+ PA MDL+++ + K +L + G NV+ Y DVP YKT T+L
Sbjct: 205 FDEPALVMDLESHKL----QAFKTAYAELESTLSGLNVLVETYFADVPAEAYKTLTSLK- 259
Query: 121 RLWSTKVAAEDFDL 134
V A FDL
Sbjct: 260 -----GVTAFGFDL 268
>gnl|CDD|221279 pfam11867, DUF3387, Domain of unknown function (DUF3387). This
domain is functionally uncharacterized. This domain is
found in bacteria and archaea. This presumed domain is
typically between 255 to 340 amino acids in length. This
domain is found associated with pfam04851, pfam04313.
Length = 333
Score = 27.9 bits (63), Expect = 5.2
Identities = 16/65 (24%), Positives = 27/65 (41%), Gaps = 8/65 (12%)
Query: 132 FDLHAFNTGDHAKAYAAITNVEKICYVLYPGDEYIARK----TLRLKQQYTLCSASVQDI 187
FD F TGD A+ + ++L G + ++ L L + + LCS +
Sbjct: 34 FDYSDFFTGDPAERLKLLLGAAN--HIL--GLDDGKKRFLDAVLALSKAFALCSPHDEAQ 89
Query: 188 IVRYE 192
+R E
Sbjct: 90 AIRDE 94
>gnl|CDD|238158 cd00255, nidG2, Nidogen, G2 domain; Nidogen is an important
component of the basement membrane, an extracellular
sheet-like matrix. Nidogen is a multifunctional protein
that interacts with many other basement membrane
proteins, like collagen, perlecan, lamin, and has a
potential role in the assembly and connection of
networks. Nidogen consists of 3 globular domains
(G1-G3), G3 is the lamin-binding domain, while G2 binds
collagen IV and perlecan. Also found in hemicentin, a
protein which functions at various cell-cell and
cell-matrix junctions and might assist in refining broad
regions of cell contact into oriented, line-shaped
junctions. Nidogen G2 consists of an N-terminal EGF-like
domain (excluded from this alignment model) and an
11-stranded beta-barrel with a central helix, a topology
that exhibits high structural similarity to the green
flourescent proteins of Cnidaria.
Length = 224
Score = 27.3 bits (61), Expect = 6.0
Identities = 12/38 (31%), Positives = 21/38 (55%)
Query: 115 KTTLNLRLWSTKVAAEDFDLHAFNTGDHAKAYAAITNV 152
K + N+ + + V D DLH++ +AY AI+N+
Sbjct: 9 KVSGNINVGQSPVEFGDADLHSYVVTSDGRAYTAISNI 46
>gnl|CDD|227174 COG4837, COG4837, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 106
Score = 26.3 bits (58), Expect = 8.0
Identities = 13/46 (28%), Positives = 18/46 (39%), Gaps = 1/46 (2%)
Query: 133 DLHAFNTGDHAKAYA-AITNVEKICYVLYPGDEYIARKTLRLKQQY 177
D+ DH +A I E ++ DE +A RLK Y
Sbjct: 51 DITNPPLEDHDLQFAEKIEQDEYFYPLIVVEDEIVAEGNPRLKDIY 96
>gnl|CDD|223572 COG0498, ThrC, Threonine synthase [Amino acid transport and
metabolism].
Length = 411
Score = 27.3 bits (61), Expect = 9.3
Identities = 18/57 (31%), Positives = 25/57 (43%), Gaps = 10/57 (17%)
Query: 138 NTGDHAKAYAAITNVEKICYVLYPGDEYIARKTLRLKQQYTLCSASVQDIIVRYEGR 194
NTG A AYAA ++ +VLYP + K L Q TL ++ +G
Sbjct: 136 NTGASAAAYAARAGLK--VFVLYPKGKVSPGK---LAQMLTL-----GAHVIAVDGN 182
>gnl|CDD|215718 pfam00103, Hormone_1, Somatotropin hormone family.
Length = 198
Score = 26.6 bits (59), Expect = 9.3
Identities = 19/76 (25%), Positives = 28/76 (36%), Gaps = 22/76 (28%)
Query: 31 LFPSLLLLTELDAALGNG-------------------GLERLASCFLDSLATLN--YPAW 69
P L+TEL + G+ER+ S +DS T+N YPAW
Sbjct: 90 NEPLYHLVTELSSMPEVPETILSKAKELEEKNKSLLEGIERIFSKVIDSERTINEYYPAW 149
Query: 70 DMDLDTNMACLNNSSL 85
L + + + L
Sbjct: 150 S-GLGSLKSSDEDRRL 164
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 0.137 0.415
Gapped
Lambda K H
0.267 0.0665 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,190,495
Number of extensions: 1127954
Number of successful extensions: 862
Number of sequences better than 10.0: 1
Number of HSP's gapped: 848
Number of HSP's successfully gapped: 28
Length of query: 240
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 146
Effective length of database: 6,768,326
Effective search space: 988175596
Effective search space used: 988175596
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: 57 (25.9 bits)