RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7259
(412 letters)
>gnl|CDD|238363 cd00707, Pancreat_lipase_like, Pancreatic lipase-like enzymes.
Lipases are esterases that can hydrolyze long-chain
acyl-triglycerides into di- and monoglycerides,
glycerol, and free fatty acids at a water/lipid
interface. A typical feature of lipases is "interfacial
activation," the process of becoming active at the
lipid/water interface, although several examples of
lipases have been identified that do not undergo
interfacial activation . The active site of a lipase
contains a catalytic triad consisting of Ser - His -
Asp/Glu, but unlike most serine proteases, the active
site is buried inside the structure. A "lid" or "flap"
covers the active site, making it inaccessible to
solvent and substrates. The lid opens during the process
of interfacial activation, allowing the lipid substrate
access to the active site.
Length = 275
Score = 230 bits (590), Expect = 1e-73
Identities = 88/215 (40%), Positives = 115/215 (53%), Gaps = 11/215 (5%)
Query: 189 ITAYLSKTDFNVITLDWSYTASTKNYPVPAVMTHQVGILAAEMVNKLVELNFTQYDRIHM 248
AYLS+ D+NVI +DW A+ NYP T VG A+ ++ LV+ + +H+
Sbjct: 58 RKAYLSRGDYNVIVVDWGRGANP-NYPQAVNNTRVVGAELAKFLDFLVDNTGLSLENVHL 116
Query: 249 IGHSLGAHVSGATGTYCKEKMARITGLDPAGPGFMVLMGNDMRLDMSDAQFVDVIHTAAG 308
IGHSLGAHV+G G K+ RITGLDPAGP F + RLD SDAQFVDVIHT G
Sbjct: 117 IGHSLGAHVAGFAGKRLNGKLGRITGLDPAGPLFS-GADPEDRLDPSDAQFVDVIHTDGG 175
Query: 309 VAGYYGVLGHADFYPNSGKPPQPGCVELSLNVYKVVSSGFGCSHMRSYELYTESIVNPKA 368
+ G+ +GHADFYPN G+ QPGC + S CSH R+ + ESI++P
Sbjct: 176 LLGFSQPIGHADFYPNGGR-DQPGC-----PKDILSSDFVACSHQRAVHYFAESILSPCG 229
Query: 369 FKSIKCDSWYDYESKTYCNESDIQY--MGDPVQPT 401
F + C S+ ++ C MG
Sbjct: 230 FVAYPCSSYDEFL-AGKCFPCGSGCVRMGYHADRF 263
Score = 117 bits (296), Expect = 2e-30
Identities = 42/106 (39%), Positives = 61/106 (57%), Gaps = 1/106 (0%)
Query: 86 LKIITHGWISSDASLAVANIKNAYLSKTDFNVITLDWSYTASTKNYPVPAVMTHQVGKLA 145
+ I HGW SS +++++ AYLS+ D+NVI +DW A+ NYP T VG
Sbjct: 38 TRFIIHGWTSSGEESWISDLRKAYLSRGDYNVIVVDWGRGANP-NYPQAVNNTRVVGAEL 96
Query: 146 AEMVNKLVELNFTQYDRIHMIGHSLGAHVSGATGTYCKEKMARITA 191
A+ ++ LV+ + +H+IGHSLGAHV+G G K+ RIT
Sbjct: 97 AKFLDFLVDNTGLSLENVHLIGHSLGAHVAGFAGKRLNGKLGRITG 142
Score = 60.3 bits (147), Expect = 3e-10
Identities = 16/64 (25%), Positives = 26/64 (40%), Gaps = 3/64 (4%)
Query: 3 VGCSHMRSYELYTESIVNPKAFKSIKCDSWYDYESKTYCNESDIQY--MGDPVQPTGNKE 60
V CSH R+ + ESI++P F + C S+ ++ C MG +
Sbjct: 209 VACSHQRAVHYFAESILSPCGFVAYPCSSYDEFL-AGKCFPCGSGCVRMGYHADRFRREG 267
Query: 61 SEFL 64
+L
Sbjct: 268 KFYL 271
>gnl|CDD|215752 pfam00151, Lipase, Lipase.
Length = 329
Score = 163 bits (414), Expect = 6e-47
Identities = 81/215 (37%), Positives = 112/215 (52%), Gaps = 18/215 (8%)
Query: 191 AYLSKTDFNVITLDWSYTASTKNYPVPAVMTHQVGILAAEMVNKLV-ELNFTQYDRIHMI 249
NVI +DW ++T Y + VG A+++ +L ELN + + +H+I
Sbjct: 96 NLFQVEGVNVIVVDWGSGSTT-FYRQATLNVRVVGAEVAKLLVELEEELNVSP-ENVHLI 153
Query: 250 GHSLGAHVSGATGTYC--KEKMARITGLDPAGPGFMVLMGNDMRLDMSDAQFVDVIHTAA 307
GHSLGAHV+G G K K+ RITGLDPAGP F RLD DA FVD IHT
Sbjct: 154 GHSLGAHVAGEAGRRTKGKTKLGRITGLDPAGPYFKGTPELT-RLDPGDADFVDAIHTDT 212
Query: 308 GVAGYYGV-----LGHADFYPNSGKPPQPGCVELSLNVYKVVSSGFGCSHMRSYELYTES 362
G+ +GH DF+PN G QPGC L + V+ C+HMRS + ES
Sbjct: 213 RPIPGLGMGTSQRVGHVDFFPNGGSE-QPGCQNNVLEGTQFVA----CAHMRSVRYFAES 267
Query: 363 IVNPKAFKSIKCDSWYDYE-SKTY-CNESDIQYMG 395
++NP+ F + C S+ ++ +K + C + YMG
Sbjct: 268 LLNPRNFPAYPCSSYDEFSNNKCFGCPKGRCPYMG 302
Score = 69.0 bits (169), Expect = 6e-13
Identities = 38/131 (29%), Positives = 61/131 (46%), Gaps = 18/131 (13%)
Query: 67 ITDVNFADELRKIWNYEVDLKIITHGWISSDASLA---VANIKNAYLSKTDFNVITLDWS 123
I + NF + + I HG+ +D ++++ NVI +DW
Sbjct: 62 IENSNFNTSKK--------TRAIIHGF--TDKGQEESWLSDMCKNLFQVEGVNVIVVDWG 111
Query: 124 YTASTKNYPVPAVMTHQVGKLAAEMVNKLV-ELNFTQYDRIHMIGHSLGAHVSGATGTYC 182
++T Y + VG A+++ +L ELN + + +H+IGHSLGAHV+G G
Sbjct: 112 SGSTT-FYRQATLNVRVVGAEVAKLLVELEEELNVSP-ENVHLIGHSLGAHVAGEAGRRT 169
Query: 183 --KEKMARITA 191
K K+ RIT
Sbjct: 170 KGKTKLGRITG 180
Score = 49.7 bits (119), Expect = 1e-06
Identities = 18/50 (36%), Positives = 30/50 (60%), Gaps = 2/50 (4%)
Query: 3 VGCSHMRSYELYTESIVNPKAFKSIKCDSWYDYE-SKTY-CNESDIQYMG 50
V C+HMRS + ES++NP+ F + C S+ ++ +K + C + YMG
Sbjct: 253 VACAHMRSVRYFAESLLNPRNFPAYPCSSYDEFSNNKCFGCPKGRCPYMG 302
>gnl|CDD|132274 TIGR03230, lipo_lipase, lipoprotein lipase. Members of this
protein family are lipoprotein lipase (EC 3.1.1.34), a
eukaryotic triacylglycerol lipase active in plasma and
similar to pancreatic and hepatic triacylglycerol
lipases (EC 3.1.1.3). It is also called clearing factor.
It cleaves chylomicron and VLDL triacylglycerols; it
also has phospholipase A-1 activity.
Length = 442
Score = 123 bits (311), Expect = 3e-31
Identities = 73/198 (36%), Positives = 102/198 (51%), Gaps = 17/198 (8%)
Query: 192 YLSKTDFNVITLDWSYTASTKNYPVPAVMTHQVGILAAEMVNKLVELNFTQYDRIHMIGH 251
Y + NVI +DW + + ++YP A T VG A+ VN + E +D +H++G+
Sbjct: 68 YEREPSANVIVVDW-LSRAQQHYPTSAAYTKLVGKDVAKFVNWMQEEFNYPWDNVHLLGY 126
Query: 252 SLGAHVSGATGTYCKEKMARITGLDPAGPGFMVLMGNDMRLDMSDAQFVDVIHTAAGVA- 310
SLGAHV+G G+ K K+ RITGLDPAGP F L DA FVDV+HT +
Sbjct: 127 SLGAHVAGIAGSLTKHKVNRITGLDPAGPTFE-YADAPSTLSPDDADFVDVLHTNTRGSP 185
Query: 311 ----GYYGVLGHADFYPNSGKPPQPGCVELSLNVYKVVSSGFG-------CSHMRSYELY 359
G +GH D YPN G QPGC ++ + + G G CSH RS L+
Sbjct: 186 DRSIGIQRPVGHIDIYPNGGT-FQPGC-DIQETLLVIAEKGLGNMDQLVKCSHERSIHLF 243
Query: 360 TESIVNP-KAFKSIKCDS 376
+S++N + +C S
Sbjct: 244 IDSLLNEENPSMAYRCSS 261
Score = 69.2 bits (169), Expect = 1e-12
Identities = 40/113 (35%), Positives = 61/113 (53%), Gaps = 3/113 (2%)
Query: 80 WNYEVDLKIITHGWISSD--ASLAVANIKNAYLSKTDFNVITLDWSYTASTKNYPVPAVM 137
+N+E I+ HGW + S + Y + NVI +DW + + ++YP A
Sbjct: 37 FNHETKTFIVIHGWTVTGMFESWVPKLVAALYEREPSANVIVVDW-LSRAQQHYPTSAAY 95
Query: 138 THQVGKLAAEMVNKLVELNFTQYDRIHMIGHSLGAHVSGATGTYCKEKMARIT 190
T VGK A+ VN + E +D +H++G+SLGAHV+G G+ K K+ RIT
Sbjct: 96 TKLVGKDVAKFVNWMQEEFNYPWDNVHLLGYSLGAHVAGIAGSLTKHKVNRIT 148
>gnl|CDD|238382 cd00741, Lipase, Lipase. Lipases are esterases that can hydrolyze
long-chain acyl-triglycerides into di- and
monoglycerides, glycerol, and free fatty acids at a
water/lipid interface. A typical feature of lipases is
"interfacial activation", the process of becoming active
at the lipid/water interface, although several examples
of lipases have been identified that do not undergo
interfacial activation . The active site of a lipase
contains a catalytic triad consisting of Ser - His -
Asp/Glu, but unlike most serine proteases, the active
site is buried inside the structure. A "lid" or "flap"
covers the active site, making it inaccessible to
solvent and substrates. The lid opens during the process
of interfacial activation, allowing the lipid substrate
access to the active site.
Length = 153
Score = 93.3 bits (232), Expect = 9e-23
Identities = 40/153 (26%), Positives = 60/153 (39%), Gaps = 19/153 (12%)
Query: 221 THQVGILAAEMVNKLVELNFTQYD--RIHMIGHSLGAHVSGATGTYCKE----KMARITG 274
++ A +V L++ QY +IH+ GHSLG ++G G + ++ R+
Sbjct: 3 FYKAARSLANLVLPLLKSALAQYPDYKIHVTGHSLGGALAGLAGLDLRGRGLGRLVRVYT 62
Query: 275 LDPAGPGFMVLMGNDMRLDMSDAQFVDVIHTAAGVAGYYGVL------GHADFYPNSGKP 328
P G + RLD SDA FVD I + G A+FY N GK
Sbjct: 63 FGPPRVGNAAF--AEDRLDPSDALFVDRIVNDNDIVPRLPPGGEGYPHGGAEFYINGGKS 120
Query: 329 PQPGCVELSLNVYKV-----VSSGFGCSHMRSY 356
C + V +S C H+R +
Sbjct: 121 QPGCCKNVLEAVDIDFGNIGLSGNGLCDHLRYF 153
Score = 47.1 bits (112), Expect = 2e-06
Identities = 15/61 (24%), Positives = 30/61 (49%), Gaps = 6/61 (9%)
Query: 138 THQVGKLAAEMVNKLVELNFTQYD--RIHMIGHSLGAHVSGATGTYCKE----KMARITA 191
++ + A +V L++ QY +IH+ GHSLG ++G G + ++ R+
Sbjct: 3 FYKAARSLANLVLPLLKSALAQYPDYKIHVTGHSLGGALAGLAGLDLRGRGLGRLVRVYT 62
Query: 192 Y 192
+
Sbjct: 63 F 63
>gnl|CDD|221720 pfam12697, Abhydrolase_6, Alpha/beta hydrolase family. This family
contains alpha/beta hydrolase enzymes of diverse
specificity.
Length = 187
Score = 43.6 bits (103), Expect = 5e-05
Identities = 25/119 (21%), Positives = 45/119 (37%), Gaps = 11/119 (9%)
Query: 174 VSGATGTYCKEKMARITAYLSKTDFNVITLDW-SYTASTKNYPVPAVMTHQVGILAAEMV 232
+ GA G+ E + L+ + V+ D + S P + LAA ++
Sbjct: 4 LHGAGGS--AESWRPLAEALAA-GYRVLAPDLPGHGDSDGPPRTPYSLEDDAADLAA-LL 59
Query: 233 NKLVELNFTQYDRIHMIGHSLGAHVSGATGTYCKEKMARITGLDPAGPGFMVLMGNDMR 291
+ L + ++GHSLG V+ A E++A + + P L+ D
Sbjct: 60 DAL------GLGPVVLVGHSLGGAVALAAAARRPERVAGLVLISPPLRDLEELLAADAA 112
Score = 33.9 bits (78), Expect = 0.086
Identities = 16/89 (17%), Positives = 33/89 (37%), Gaps = 12/89 (13%)
Query: 88 IITHG-WISSDASLAVANIKNAYLSKTDFNVITLDWSYTASTKNYPVPAVMTHQVGKLAA 146
++ HG S+++ +A L+ + V+ D + P A
Sbjct: 2 VLLHGAGGSAESWRPLA----EALAA-GYRVLAPDLPGHGDSDGPPRTPYSLEDDAADLA 56
Query: 147 EMVNKLVELNFTQYDRIHMIGHSLGAHVS 175
+++ L + ++GHSLG V+
Sbjct: 57 ALLDAL------GLGPVVLVGHSLGGAVA 79
>gnl|CDD|221718 pfam12695, Abhydrolase_5, Alpha/beta hydrolase family. This family
contains a diverse range of alpha/beta hydrolase
enzymes.
Length = 145
Score = 37.4 bits (87), Expect = 0.004
Identities = 18/83 (21%), Positives = 32/83 (38%), Gaps = 17/83 (20%)
Query: 176 GATGTYCKEKMARITAYLSKTDFNVITLDWSYTASTKNYPVPAVMTHQVGILAAEMVNKL 235
GA G E A + L+ +NV+ +D+ ++ P +
Sbjct: 7 GAGGD--PEAYAPLARALASRGYNVVAVDYPGHGASLGAP---------------DAEAV 49
Query: 236 VELNFTQYDRIHMIGHSLGAHVS 258
+ +RI ++GHSLG V+
Sbjct: 50 LADAPLDPERIVLVGHSLGGGVA 72
Score = 35.8 bits (83), Expect = 0.012
Identities = 17/89 (19%), Positives = 34/89 (38%), Gaps = 20/89 (22%)
Query: 88 IITHGWISSDASLA-VANIKNAYLSKTDFNVITLDWSYTASTKNYPVPAVMTHQVGKLAA 146
++ HG + A +A L+ +NV+ +D+ ++ P
Sbjct: 3 VLLHGAGGDPEAYAPLA----RALASRGYNVVAVDYPGHGASLGAP-------------- 44
Query: 147 EMVNKLVELNFTQYDRIHMIGHSLGAHVS 175
++ +RI ++GHSLG V+
Sbjct: 45 -DAEAVLADAPLDPERIVLVGHSLGGGVA 72
>gnl|CDD|184875 PRK14875, PRK14875, acetoin dehydrogenase E2 subunit
dihydrolipoyllysine-residue acetyltransferase;
Provisional.
Length = 371
Score = 36.8 bits (86), Expect = 0.016
Identities = 13/38 (34%), Positives = 23/38 (60%)
Query: 244 DRIHMIGHSLGAHVSGATGTYCKEKMARITGLDPAGPG 281
+R H++GHS+G V+ +++A +T + PAG G
Sbjct: 197 ERAHLVGHSMGGAVALRLAARAPQRVASLTLIAPAGLG 234
Score = 31.1 bits (71), Expect = 1.2
Identities = 7/18 (38%), Positives = 12/18 (66%)
Query: 161 DRIHMIGHSLGAHVSGAT 178
+R H++GHS+G V+
Sbjct: 197 ERAHLVGHSMGGAVALRL 214
>gnl|CDD|201306 pfam00561, Abhydrolase_1, alpha/beta hydrolase fold. This
catalytic domain is found in a very wide range of
enzymes.
Length = 226
Score = 32.1 bits (73), Expect = 0.42
Identities = 18/95 (18%), Positives = 34/95 (35%), Gaps = 10/95 (10%)
Query: 198 FNVITLDWSYTASTKNYPVPAVMTHQVGILAAEMVNKLVELNFTQYDRIHMIGHSLGAHV 257
F+VI D + A AE + L++ D+++++GHS+G
Sbjct: 1 FDVIAFDLRGFGRSSPPKDFADYRFDD---LAEDLEALLDA--LGLDKVNLVGHSMG--- 52
Query: 258 SGATGT-YCKEKMARITGLDPAGPGFMVLMGNDMR 291
G Y + R+ L G + + +
Sbjct: 53 -GLIALAYAAKYPDRVKALVLVGTVHPAGLSSPLT 86
Score = 31.0 bits (70), Expect = 1.0
Identities = 14/67 (20%), Positives = 25/67 (37%), Gaps = 9/67 (13%)
Query: 115 FNVITLDWSYTASTKNYPVPAVMTHQVGKLAAEMVNKLVELNFTQYDRIHMIGHSLGAHV 174
F+VI D + A AE + L++ D+++++GHS+G
Sbjct: 1 FDVIAFDLRGFGRSSPPKDFADYRFDD---LAEDLEALLDA--LGLDKVNLVGHSMG--- 52
Query: 175 SGATGTY 181
G
Sbjct: 53 -GLIALA 58
>gnl|CDD|223669 COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta
hydrolase superfamily) [General function prediction
only].
Length = 282
Score = 32.3 bits (72), Expect = 0.44
Identities = 12/85 (14%), Positives = 32/85 (37%)
Query: 238 LNFTQYDRIHMIGHSLGAHVSGATGTYCKEKMARITGLDPAGPGFMVLMGNDMRLDMSDA 297
L+ +++ ++GHS+G V+ A +++ + + PA P ++ +
Sbjct: 82 LDALGLEKVVLVGHSMGGAVALALALRHPDRVRGLVLIGPAPPPGLLEAALRQPAGAAPL 141
Query: 298 QFVDVIHTAAGVAGYYGVLGHADFY 322
+ + A + +L
Sbjct: 142 AALADLLLGLDAAAFAALLAALGLL 166
Score = 29.2 bits (64), Expect = 4.0
Identities = 15/88 (17%), Positives = 30/88 (34%), Gaps = 12/88 (13%)
Query: 88 IITHGWISSDASLAVANIKNAYLSKTDFNVITLDW-SYTASTKNYPVPAVMTHQVGKLAA 146
++ HG+ S + K + VI D + S + + L
Sbjct: 25 VLLHGFPGSSSVWR-PVFKVLPALAARYRVIAPDLRGHGRSDPAGYSLSAYADDLAAL-- 81
Query: 147 EMVNKLVELNFTQYDRIHMIGHSLGAHV 174
L+ +++ ++GHS+G V
Sbjct: 82 --------LDALGLEKVVLVGHSMGGAV 101
>gnl|CDD|225176 COG2267, PldB, Lysophospholipase [Lipid metabolism].
Length = 298
Score = 31.6 bits (72), Expect = 0.62
Identities = 31/128 (24%), Positives = 47/128 (36%), Gaps = 20/128 (15%)
Query: 168 HSLGAHVSGATGTYCKEKMARITAYLSKTDFNVITLDW---SYTASTKNYPVPAVMTHQV 224
H LG H +G Y + L+ F+V LD + + V + V
Sbjct: 41 HGLGEH----SGRY-----EELADDLAARGFDVYALDLRGHGRSPRGQRGHVDS-FADYV 90
Query: 225 GILAAEMVNKLVELNFTQYDRIHMIGHSLGAHVSGATGTYCKEKMARITGLDPAGPGFMV 284
L A V + E + + ++GHS+G Y RI GL + P +
Sbjct: 91 DDLDA-FVETIAEPD--PGLPVFLLGHSMGG---LIALLYLARYPPRIDGLVLSSP-ALG 143
Query: 285 LMGNDMRL 292
L G +RL
Sbjct: 144 LGGAILRL 151
>gnl|CDD|100092 cd05799, PGM2, This CD includes PGM2 (phosphoglucomutase 2) and
PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2
is thought to be a phosphopentomutase that catalyzes the
conversion of the nucleoside breakdown products,
ribose-1-phosphate and deoxyribose-1-phosphate to the
corresponding 5-phosphopentoses. PGM2L1 is thought to
catalyze the 1,3-bisphosphoglycerate-dependent synthesis
of glucose 1,6-bisphosphate and other
aldose-bisphosphates that serve as cofactors for several
sugar phosphomutases and possibly also as regulators of
glycolytic enzymes. PGM2 and PGM2L1 belong to the
alpha-D-phosphohexomutase superfamily which includes
several related enzymes that catalyze a reversible
intramolecular phosphoryl transfer on their sugar
substrates. Other members of this superfamily include
phosphoglucosamine mutase (PNGM),
phosphoacetylglucosamine mutase (PAGM), the bacterial
phosphomannomutase ManB, the bacterial
phosphoglucosamine mutase GlmM, and the bifunctional
phosphomannomutase/phosphoglucomutase (PMM/PGM). Each of
these enzymes has four domains with a centrally located
active site formed by four loops, one from each domain.
All four domains are included in this alignment model.
Length = 487
Score = 30.9 bits (71), Expect = 1.1
Identities = 17/65 (26%), Positives = 24/65 (36%), Gaps = 6/65 (9%)
Query: 144 LAAEMVNKLVELNFTQYDRIHMIGHSLGAHVSGAT-----GTYCKEKMARITAYLSKTDF 198
L AEM L T DR+ + G + G EK+ I L + +
Sbjct: 381 LLAEMAAYLKAQGKTLLDRLDELYEKYGYYKEKTISITFEGKEGPEKIKAIMDRL-RNNP 439
Query: 199 NVITL 203
NV+T
Sbjct: 440 NVLTF 444
>gnl|CDD|211851 TIGR03611, RutD, pyrimidine utilization protein D. This protein is
observed in operons extremely similar to that
characterized in E. coli K-12 responsible for the import
and catabolism of pyrimidines, primarily uracil. This
protein is a member of the hydrolase, alpha/beta fold
family defined by pfam00067.
Length = 248
Score = 30.5 bits (69), Expect = 1.2
Identities = 14/61 (22%), Positives = 27/61 (44%), Gaps = 6/61 (9%)
Query: 114 DFNVITLDWSYTASTKNYPVPAVMTHQVGKLAAEMVNKLVELNFTQYDRIHMIGHSLGAH 173
F+V+T D T P + + +A +++ L L ++ H +GH+LG
Sbjct: 38 RFHVVTYD---HRGTGRSPGELPPDYSIAHMADDVLQLLDALGIERF---HFVGHALGGL 91
Query: 174 V 174
+
Sbjct: 92 I 92
Score = 30.5 bits (69), Expect = 1.2
Identities = 19/82 (23%), Positives = 37/82 (45%), Gaps = 11/82 (13%)
Query: 176 GATGTYCKEKMARITAYLSKTDFNVITLDWSYTASTKNYPVPAVMTHQVGILAAEMVNKL 235
G +G+Y ++A +T F+V+T D T P + + +A +++ L
Sbjct: 22 GGSGSYWAPQLAVLTQR-----FHVVTYD---HRGTGRSPGELPPDYSIAHMADDVLQLL 73
Query: 236 VELNFTQYDRIHMIGHSLGAHV 257
L ++ H +GH+LG +
Sbjct: 74 DALGIERF---HFVGHALGGLI 92
>gnl|CDD|211993 TIGR04270, Rama_corrin_act, methylamine methyltransferase corrinoid
protein reductive activase. Members of this family
occur as paralogs in species capable of generating
methane from mono-, di-, and tri-methylamine. Members
include RamA (Reductive Activation of Methyltransfer,
Amines) from Methanosarcina barkeri MS (DSM 800). Member
proteins have two C-terminal motifs with four Cys each,
likely to bind one 4Fe-4S cluster per motif.
Length = 535
Score = 30.9 bits (70), Expect = 1.4
Identities = 14/34 (41%), Positives = 21/34 (61%)
Query: 255 AHVSGATGTYCKEKMARITGLDPAGPGFMVLMGN 288
++SGA+GTY + A+ GL PA +V +GN
Sbjct: 335 VYMSGASGTYVDAEKAQKLGLIPARVKKIVQVGN 368
>gnl|CDD|221359 pfam11987, IF-2, Translation-initiation factor 2. IF-2 is a
translation initiator in each of the three main
phylogenetic domains (Eukaryotes, Bacteria and Archaea).
IF2 interacts with formylmethionine-tRNA, GTP, IF1, IF3
and both ribosomal subunits. Through these interactions,
IF2 promotes the binding of the initiator tRNA to the A
site in the smaller ribosomal subunit and catalyzes the
hydrolysis of GTP following initiation-complex
formation.
Length = 109
Score = 27.8 bits (63), Expect = 3.9
Identities = 15/35 (42%), Positives = 18/35 (51%), Gaps = 5/35 (14%)
Query: 73 ADELRKIWNYEVDLKIITH---GWIS-SDASLAVA 103
D L K+ EV + II H G I+ SD LA A
Sbjct: 34 KDSLEKLSTDEVKVNII-HAGVGAITESDVMLASA 67
>gnl|CDD|226410 COG3894, COG3894, Uncharacterized metal-binding protein [General
function prediction only].
Length = 614
Score = 29.3 bits (66), Expect = 3.9
Identities = 12/34 (35%), Positives = 18/34 (52%)
Query: 255 AHVSGATGTYCKEKMARITGLDPAGPGFMVLMGN 288
+++GA GTY K A + GL P + +GN
Sbjct: 497 IYMAGAFGTYIDAKKAMVIGLIPDCDLKVKQIGN 530
>gnl|CDD|235459 PRK05428, PRK05428, HPr kinase/phosphorylase; Provisional.
Length = 308
Score = 28.6 bits (65), Expect = 5.3
Identities = 11/40 (27%), Positives = 21/40 (52%)
Query: 53 VQPTGNKESEFLINITDVNFADELRKIWNYEVDLKIITHG 92
VQ G E +L +++ + L+K+++ E I+T G
Sbjct: 52 VQVLGKTEISYLNQLSEEERKERLKKLFSLEPPCIIVTRG 91
>gnl|CDD|181381 PRK08316, PRK08316, acyl-CoA synthetase; Validated.
Length = 523
Score = 28.7 bits (65), Expect = 5.6
Identities = 19/67 (28%), Positives = 31/67 (46%), Gaps = 12/67 (17%)
Query: 124 YTASTKNYPVPAVMTHQVGKLAAEMVNKLVELNFTQYDR-IHM--IGHSLGAHV------ 174
YT+ T++ P A++TH+ L AE V+ +V + + D +H + H V
Sbjct: 178 YTSGTESLPKGAMLTHR--ALIAEYVSCIVAGDMSADDIPLHALPLYHCAQLDVFLGPYL 235
Query: 175 -SGATGT 180
GAT
Sbjct: 236 YVGATNV 242
Score = 28.7 bits (65), Expect = 5.6
Identities = 19/67 (28%), Positives = 31/67 (46%), Gaps = 12/67 (17%)
Query: 207 YTASTKNYPVPAVMTHQVGILAAEMVNKLVELNFTQYDR-IHM--IGHSLGAHV------ 257
YT+ T++ P A++TH+ L AE V+ +V + + D +H + H V
Sbjct: 178 YTSGTESLPKGAMLTHRA--LIAEYVSCIVAGDMSADDIPLHALPLYHCAQLDVFLGPYL 235
Query: 258 -SGATGT 263
GAT
Sbjct: 236 YVGATNV 242
>gnl|CDD|238124 cd00203, ZnMc, Zinc-dependent metalloprotease. This super-family of
metalloproteases contains two major branches, the
astacin-like proteases and the
adamalysin/reprolysin-like proteases. Both branches have
wide phylogenetic distribution, and contain
sub-families, which are involved in vertebrate
development and disease.
Length = 167
Score = 28.3 bits (63), Expect = 6.0
Identities = 19/116 (16%), Positives = 39/116 (33%), Gaps = 16/116 (13%)
Query: 58 NKESEFLINITDVNFADELRKIWNYEVDLKIITHGWISSDASLAVANIKNAYLSKTDFNV 117
E ++ + +IW ++++ + G A +A+ + DF+
Sbjct: 12 RDVEEENLSAQIQSLILIAMQIWRDYLNIRFVLVGVEIDKADIAILVTR------QDFDG 65
Query: 118 ITLDWSYTASTKNYPVPAVMTHQVGKLAAEMVNKLVELNFTQYDRIHMIGHSLGAH 173
T W+Y + + V Q + K H +GH+LG +
Sbjct: 66 GTGGWAYLGRVCD-SLRGVGVLQD----NQSGTKEGAQTIA-----HELGHALGFY 111
>gnl|CDD|188996 cd06457, M3A_MIP, Peptidase M3 mitochondrial intermediate peptidase
(MIP). Peptidase M3 mitochondrial intermediate
peptidase (MIP; EC 3.4.24.59) belongs to the widespread
subfamily M3A, that show similarity to the Thimet
oligopeptidase (TOP). It is one of three peptidases
responsible for the proteolytic processing of both,
nuclear and mitochondrial encoded precursor polypeptides
targeted to the various subcompartments of the
mitochondria. It cleaves intermediate-size proteins
initially processed by mitochondrial processing
peptidase (MPP) to yield a processing intermediate with
a typical N-terminal octapeptide that is sequentially
cleaved by MIP to mature-size protein. MIP cleaves
precursor proteins of respiratory components, including
subunits of the electron transport chain and
tri-carboxylic acid cycle enzymes, and components of the
mitochondrial genetic machinery, including ribosomal
proteins, translation factors, and proteins required for
mitochondrial DNA metabolism. It has been suggested that
the human MIP (HMIP polypeptide; gene symbol MIPEP) may
be one of the loci predicted to influence the clinical
manifestations of Friedreich's ataxia (FRDA), an
autosomal recessive neurodegenerative disease caused by
lack of human frataxin. These proteins are enriched in
cysteine residues, two of which are highly conserved,
suggesting their importance to stability as well as in
formation of metal binding sites, thus playing a role in
MIP activity.
Length = 606
Score = 28.7 bits (65), Expect = 6.2
Identities = 13/38 (34%), Positives = 18/38 (47%), Gaps = 6/38 (15%)
Query: 295 SDAQFVDVIHTAAGVAGY-YGVLGHADFYPNSGKPPQP 331
D + + V+H G+ GY Y D + GKPPQ
Sbjct: 322 PDVRKLAVVHETEGLLGYIY-----CDLFERPGKPPQA 354
>gnl|CDD|233088 TIGR00679, hpr-ser, Hpr(Ser) kinase/phosphatase. Members of this
family are the bifunctional enzyme, HPr
kinase/phosphatase. All members of the seed alignment
(n=57) have a gene tightly clustered with a gene for the
phospocarrier protein HPr, its target [Regulatory
functions, Protein interactions, Signal transduction,
PTS].
Length = 300
Score = 28.6 bits (65), Expect = 6.6
Identities = 16/65 (24%), Positives = 27/65 (41%)
Query: 51 DPVQPTGNKESEFLINITDVNFADELRKIWNYEVDLKIITHGWISSDASLAVANIKNAYL 110
VQ GN E +L ++ + + L K+ + I+T G + L +A N L
Sbjct: 47 KRVQIIGNTELSYLESLDEEERKERLEKLLKLKPPCIIVTRGLEPPEELLELAEEYNVPL 106
Query: 111 SKTDF 115
+T
Sbjct: 107 LRTSL 111
>gnl|CDD|214838 smart00827, PKS_AT, Acyl transferase domain in polyketide synthase
(PKS) enzymes.
Length = 298
Score = 28.5 bits (65), Expect = 6.7
Identities = 7/17 (41%), Positives = 11/17 (64%), Gaps = 4/17 (23%)
Query: 165 MIGHSLG----AHVSGA 177
++GHS G A+V+G
Sbjct: 86 VVGHSSGEIAAAYVAGV 102
Score = 28.5 bits (65), Expect = 6.7
Identities = 7/17 (41%), Positives = 11/17 (64%), Gaps = 4/17 (23%)
Query: 248 MIGHSLG----AHVSGA 260
++GHS G A+V+G
Sbjct: 86 VVGHSSGEIAAAYVAGV 102
>gnl|CDD|216940 pfam02230, Abhydrolase_2, Phospholipase/Carboxylesterase. This
family consists of both phospholipases and
carboxylesterases with broad substrate specificity, and
is structurally related to alpha/beta hydrolases
pfam00561.
Length = 213
Score = 27.7 bits (62), Expect = 9.6
Identities = 14/64 (21%), Positives = 24/64 (37%), Gaps = 3/64 (4%)
Query: 228 AAEMVNKLVELNFTQ---YDRIHMIGHSLGAHVSGATGTYCKEKMARITGLDPAGPGFMV 284
+AE + +L++ RI + G S GA V+ T + + I A P
Sbjct: 83 SAETIEELIDAELKTGIPASRIIIGGFSQGAAVALYTALTSPQPLGGIIAFSGALPLPQK 142
Query: 285 LMGN 288
+
Sbjct: 143 FPQH 146
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 0.133 0.410
Gapped
Lambda K H
0.267 0.0893 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 20,378,300
Number of extensions: 1905114
Number of successful extensions: 1601
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1582
Number of HSP's successfully gapped: 45
Length of query: 412
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 313
Effective length of database: 6,546,556
Effective search space: 2049072028
Effective search space used: 2049072028
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: 60 (26.6 bits)