RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4854
(555 letters)
>gnl|CDD|177953 PLN02319, PLN02319, aminomethyltransferase.
Length = 404
Score = 267 bits (684), Expect = 3e-84
Identities = 115/235 (48%), Positives = 150/235 (63%), Gaps = 5/235 (2%)
Query: 198 RTPLYDLHLSHGGKMVPFAGFSMPVQYGAVSITASHLHTRSKVSVFDVSHMLQTVVTGKH 257
+T LYD H+++GGKMVPFAG+SMP+QY SI S L+ R S+FDVSHM + GK
Sbjct: 34 KTALYDFHVANGGKMVPFAGWSMPIQYKD-SIMDSTLNCRQNGSLFDVSHMCGLSLKGKD 92
Query: 258 REEWLESICVADVHELDPGKGTLSLFTNEQGGIQDDLIVTKTLEDSLFLVSNASRRKVDM 317
+LE++ VAD+ L G GTLS+FTNE+GGI DD ++TK +D ++LV NA R D+
Sbjct: 93 AIPFLETLVVADIAGLKDGTGTLSVFTNEKGGIIDDTVITKVTDDHIYLVVNAGCRDKDL 152
Query: 318 DLMVAAQDRFKSLGKDIHLQFLSAEERGLIAVQGPLSSTILQRHTDLDLSSLYFMTSRPC 377
+ FK+ G D+ + +ER L+A+QGPL++ +LQ T DLS +YF R
Sbjct: 153 AHIEEHMKAFKAKGGDV--SWHVHDERSLLALQGPLAAPVLQHLTKEDLSKMYFGDFRIT 210
Query: 378 TIAGIPCTLTRAGYTGEDGVEISVPGEQCTHIVEALLSDE--DVKLAGLGARDSL 430
I G C LTR GYTGEDG EISVP E + +ALL V+L GLGARDSL
Sbjct: 211 DINGADCFLTRTGYTGEDGFEISVPSEHAVDLAKALLEKSEGKVRLTGLGARDSL 265
Score = 147 bits (373), Expect = 4e-39
Identities = 60/111 (54%), Positives = 75/111 (67%)
Query: 12 GKRRRETGGFPGASIIQSQIKSGVSRKRTGFTSTGVPIRPGYEIFNANDQRVGAITSGCP 71
GKRRR GGF GA +I Q+K GVSR+R GF S+G P R EI + + +++G +TSG
Sbjct: 294 GKRRRAEGGFLGADVILKQLKEGVSRRRVGFISSGAPARSHSEILDESGEKIGEVTSGGF 353
Query: 72 SPSLKKNIAMGYIEPAYSKVGVELWVRVRDKRVDVKVTKMPFVKSNYYTPP 122
SP LKKNIAMGY++ + K G E+ V VR K D VTKMPFV + YY PP
Sbjct: 354 SPCLKKNIAMGYVKSGFHKAGTEVKVEVRGKMYDAVVTKMPFVPTKYYKPP 404
Score = 122 bits (308), Expect = 2e-30
Identities = 54/108 (50%), Positives = 67/108 (62%), Gaps = 8/108 (7%)
Query: 452 FKSLGKDI--HLQFLSPEERGLIAVQGPLSSTILQRHTDLDLSSLYFMTSRPCTIAGIPC 509
FK+ G D+ H+ +ER L+A+QGPL++ +LQ T DLS +YF R I G C
Sbjct: 162 FKAKGGDVSWHVH----DERSLLALQGPLAAPVLQHLTKEDLSKMYFGDFRITDINGADC 217
Query: 510 TLTRAGYTGEDGVEISVPGEQCTHIVEALLSDE--DVKLAGLGARDSL 555
LTR GYTGEDG EISVP E + +ALL V+L GLGARDSL
Sbjct: 218 FLTRTGYTGEDGFEISVPSEHAVDLAKALLEKSEGKVRLTGLGARDSL 265
>gnl|CDD|237435 PRK13579, gcvT, glycine cleavage system aminomethyltransferase T;
Provisional.
Length = 370
Score = 256 bits (655), Expect = 3e-80
Identities = 102/237 (43%), Positives = 140/237 (59%), Gaps = 11/237 (4%)
Query: 194 SAEQRTPLYDLHLSHGGKMVPFAGFSMPVQYGAVSITASHLHTRSKVSVFDVSHMLQTVV 253
S + PL+ LHL+ G +MVPFAG+ MPVQY A + HLHTR+ +FDVSHM Q V
Sbjct: 7 SPLKTLPLHALHLAAGARMVPFAGYDMPVQYPA-GVLKEHLHTRAHAGLFDVSHMGQIEV 65
Query: 254 TGKHREEWLESICVADVHELDPGKGTLSLFTNEQGGIQDDLIVTKTLEDSLFLVSNASRR 313
+GK LE + D+ L G+ + FTNEQGGI DDL+VT L D LFLV NA+ +
Sbjct: 66 SGKDAAAALERLVPVDILALKEGRQRYTFFTNEQGGILDDLMVTN-LGDHLFLVVNAACK 124
Query: 314 KVDMDLMVAAQDRFKSLGKDIHLQFLSAEERGLIAVQGPLSSTILQRHTDLDLSSLYFMT 373
D+ + L + + L ++R L+A+QGP + +L +++L FM
Sbjct: 125 DADIAHLREH------LSDECEVNPL--DDRALLALQGPEAEAVLAD-LGPPVAALRFMD 175
Query: 374 SRPCTIAGIPCTLTRAGYTGEDGVEISVPGEQCTHIVEALLSDEDVKLAGLGARDSL 430
+ G+ C ++R+GYTGEDG EISVP + + EALL+D V+ GLGARDSL
Sbjct: 176 GFEPRLHGVDCFVSRSGYTGEDGFEISVPADAAEALAEALLADPRVEPIGLGARDSL 232
Score = 116 bits (293), Expect = 2e-28
Identities = 42/108 (38%), Positives = 59/108 (54%), Gaps = 1/108 (0%)
Query: 13 KRRRETGGFPGASIIQSQIKSGVSRKRTGFTSTG-VPIRPGYEIFNANDQRVGAITSGCP 71
K RRE GGFPGA I + + G SR+R G G P+R G +F+ +G +TSG
Sbjct: 262 KARREAGGFPGAKAILAALAKGASRRRVGLKPEGRAPVREGAPLFDDAGTEIGTVTSGGF 321
Query: 72 SPSLKKNIAMGYIEPAYSKVGVELWVRVRDKRVDVKVTKMPFVKSNYY 119
PS+ +AMGY+ + + G ++ VR KR+ V V +PFV Y
Sbjct: 322 GPSVGGPVAMGYVPASLAAPGTAVFAEVRGKRLPVTVHALPFVPHRYK 369
Score = 114 bits (287), Expect = 1e-27
Identities = 41/101 (40%), Positives = 61/101 (60%), Gaps = 3/101 (2%)
Query: 455 LGKDIHLQFLSPEERGLIAVQGPLSSTILQRHTDLDLSSLYFMTSRPCTIAGIPCTLTRA 514
L + + L ++R L+A+QGP + +L +++L FM + G+ C ++R+
Sbjct: 135 LSDECEVNPL--DDRALLALQGPEAEAVLAD-LGPPVAALRFMDGFEPRLHGVDCFVSRS 191
Query: 515 GYTGEDGVEISVPGEQCTHIVEALLSDEDVKLAGLGARDSL 555
GYTGEDG EISVP + + EALL+D V+ GLGARDSL
Sbjct: 192 GYTGEDGFEISVPADAAEALAEALLADPRVEPIGLGARDSL 232
>gnl|CDD|234742 PRK00389, gcvT, glycine cleavage system aminomethyltransferase T;
Reviewed.
Length = 359
Score = 236 bits (605), Expect = 6e-73
Identities = 100/235 (42%), Positives = 134/235 (57%), Gaps = 10/235 (4%)
Query: 197 QRTPLYDLHLSHGGKMVPFAGFSMPVQYGAVSITASHLHTRSKVSVFDVSHMLQTVVTGK 256
+RTPLYDLH++ G KMV F G+ MPVQYG SI H R+ +FDVSHM + VTG
Sbjct: 3 KRTPLYDLHVALGAKMVDFGGWEMPVQYG--SIIEEHHAVRTDAGLFDVSHMGEVDVTGP 60
Query: 257 HREEWLESICVADVHELDPGKGTLSLFTNEQGGIQDDLIVTKTLEDSLFLVSNASRRKVD 316
+L+ + DV +L PGK + NE GG+ DDLIV K ED LV NA+ R+ D
Sbjct: 61 DALAFLQYLLANDVSKLKPGKAQYTCMLNEDGGVIDDLIVYKLSEDEYLLVVNAANREKD 120
Query: 317 MDLMVAAQDRFKSLGKDIHLQFLSAEERGLIAVQGPLSSTILQRHTDLDLSSL-YFMTSR 375
+ + + F + + S ++ +IAVQGP + LQ+ TD DLS L F ++
Sbjct: 121 LAWIKSHAAGF-----GVEVTDRS-DDLAMIAVQGPKAREKLQKLTDADLSELKPFFGAQ 174
Query: 376 PCTIAGIPCTLTRAGYTGEDGVEISVPGEQCTHIVEALLSDEDVKLAGLGARDSL 430
+ G + R GYTGEDG EI +P E + +ALL + VK GLGARD+L
Sbjct: 175 GAEVGGGDVLVARTGYTGEDGFEIYLPAEDAEALWDALL-EAGVKPCGLGARDTL 228
Score = 100 bits (251), Expect = 5e-23
Identities = 38/105 (36%), Positives = 57/105 (54%), Gaps = 7/105 (6%)
Query: 17 ETGGFPGASIIQSQIKSGVSRKRTGFTST--GVPIRPGYEIFNANDQRVGAITSGCPSPS 74
E F G +++Q ++GV RK G G+P R GY + A+ + +G +TSG SP+
Sbjct: 260 EKRDFIGREALEAQKEAGVERKLVGLELEERGIP-RHGYPVL-ADGEEIGEVTSGTFSPT 317
Query: 75 LKKNIAMGYIEPAYSKVGVELWVRVRDKRVDVKVTKMPFVKSNYY 119
L K+IA+ Y+ G E+ V +R K+V KV K PFV+
Sbjct: 318 LGKSIALAYVPAGV---GDEVEVEIRGKQVPAKVVKPPFVRRGKR 359
Score = 96.7 bits (242), Expect = 7e-22
Identities = 40/91 (43%), Positives = 54/91 (59%), Gaps = 2/91 (2%)
Query: 466 PEERGLIAVQGPLSSTILQRHTDLDLSSL-YFMTSRPCTIAGIPCTLTRAGYTGEDGVEI 524
++ +IAVQGP + LQ+ TD DLS L F ++ + G + R GYTGEDG EI
Sbjct: 139 SDDLAMIAVQGPKAREKLQKLTDADLSELKPFFGAQGAEVGGGDVLVARTGYTGEDGFEI 198
Query: 525 SVPGEQCTHIVEALLSDEDVKLAGLGARDSL 555
+P E + +ALL + VK GLGARD+L
Sbjct: 199 YLPAEDAEALWDALL-EAGVKPCGLGARDTL 228
>gnl|CDD|223481 COG0404, GcvT, Glycine cleavage system T protein
(aminomethyltransferase) [Amino acid transport and
metabolism].
Length = 379
Score = 227 bits (580), Expect = 3e-69
Identities = 94/240 (39%), Positives = 130/240 (54%), Gaps = 12/240 (5%)
Query: 197 QRTPLYDLHLSHGGKMVPFAGFSMPVQYGAVSITASHLHTRSKVSVFDVSHMLQTVVTGK 256
+RTPLYD H + G F G+ MPV Y S+ HL R +FDVSHM + V+G
Sbjct: 6 KRTPLYDRHKALGAVFGEFGGWEMPVWYAK-SVMEEHLAVREAAGLFDVSHMGKVEVSGP 64
Query: 257 HREEWLESICVADVHELDPGKGTLSLFTNEQGGIQDDLIVTKTLEDSLFLVSNASRRKVD 316
+L+ + DV +L PG+ +L NE GGI DDLIV + ED FLV+NA+ + D
Sbjct: 65 DAAAFLQRLLTNDVSKLKPGRARYTLMLNEDGGIIDDLIVYRLGEDRFFLVTNAATAEKD 124
Query: 317 MDLMVAAQDRFKSLGKDIHLQFLSA-EERGLIAVQGPLSSTILQRHTDLDL-SSLYFMTS 374
+ + Q G D+ + S E+ ++A+QGP + +L + D DL +L F
Sbjct: 125 LAWLERHQA-----GPDLDVTLTSVTEDLAVLALQGPKAREVLAKLVDGDLVEALPFFAF 179
Query: 375 RPCTIAG-IPCTLTRAGYTGEDGVEISVPGEQCTHIVEALLS---DEDVKLAGLGARDSL 430
+ TI G +P ++R GYTGE G EI VP E + +ALL VK GLGARD+L
Sbjct: 180 KEVTIGGGVPVRISRTGYTGELGFEIYVPAEDAAAVWDALLEAGEKFGVKPCGLGARDTL 239
Score = 103 bits (260), Expect = 4e-24
Identities = 37/106 (34%), Positives = 55/106 (51%), Gaps = 3/106 (2%)
Query: 17 ETGGFPGASIIQSQIKSGVSRKRTGFT--STGVPIRPGYEIFNAN-DQRVGAITSGCPSP 73
+ F G + + + GV RK G G +R G + +A+ + VG +TSG SP
Sbjct: 270 DKDDFIGKAALLREKAKGVRRKLVGLKLDDKGPVLRGGEPVLDADGEVEVGEVTSGTFSP 329
Query: 74 SLKKNIAMGYIEPAYSKVGVELWVRVRDKRVDVKVTKMPFVKSNYY 119
+L K+IA+ Y++ Y+K G EL V +R KRV +V K PF
Sbjct: 330 TLGKSIALAYVDSDYAKPGTELEVEIRGKRVPARVVKPPFYDPEGE 375
Score = 89.2 bits (222), Expect = 4e-19
Identities = 39/94 (41%), Positives = 54/94 (57%), Gaps = 5/94 (5%)
Query: 467 EERGLIAVQGPLSSTILQRHTDLDL-SSLYFMTSRPCTIAG-IPCTLTRAGYTGEDGVEI 524
E+ ++A+QGP + +L + D DL +L F + TI G +P ++R GYTGE G EI
Sbjct: 146 EDLAVLALQGPKAREVLAKLVDGDLVEALPFFAFKEVTIGGGVPVRISRTGYTGELGFEI 205
Query: 525 SVPGEQCTHIVEALLS---DEDVKLAGLGARDSL 555
VP E + +ALL VK GLGARD+L
Sbjct: 206 YVPAEDAAAVWDALLEAGEKFGVKPCGLGARDTL 239
>gnl|CDD|233010 TIGR00528, gcvT, glycine cleavage system T protein. The glycine
cleavage system T protein (GcvT) is also known as
aminomethyltransferase (EC 2.1.2.10). It works with the
H protein (GcvH), the P protein (GcvP), and lipoamide
dehydrogenase. The reported sequence of the member from
Aquifex aeolicus starts about 50 residues downstream of
the start of other members of the family (perhaps in
error); it scores below the trusted cutoff. Eukaryotic
forms are mitochondrial and have an N-terminal transit
peptide [Energy metabolism, Amino acids and amines].
Length = 362
Score = 192 bits (489), Expect = 3e-56
Identities = 95/236 (40%), Positives = 127/236 (53%), Gaps = 11/236 (4%)
Query: 197 QRTPLYDLHLSHGGKMVPFAGFSMPVQYGAVSITASHLHTRSKVSVFDVSHMLQTVVTGK 256
+RTPLYDLH GGKMV F G+ MPVQY H R+ +FDVSHM Q ++G
Sbjct: 2 KRTPLYDLHTELGGKMVDFGGWEMPVQYK--GQIEEHNAVRTNAGLFDVSHMGQVKLSGP 59
Query: 257 HREEWLESICVADVHELDPGKGTLSLFTNEQGGIQDDLIVTKTLEDSLF-LVSNASRRKV 315
H ++L+ + DV+ L PGK S+ N QGG+ DDLI+ K ED+ F LV NA+ +
Sbjct: 60 HSLKFLQRLTPNDVNALTPGKAQYSVLLNPQGGVVDDLIIYKEGEDNRFYLVVNAATAEK 119
Query: 316 DMDLMVAAQDRFKSLGKDIHLQFLSAEERGLIAVQGPLSSTILQRHTDLDLSSLY-FMTS 374
D++ + L L S + L+A+QGP + TIL+ D + L F
Sbjct: 120 DLEWFH------EHLQNGSTLDCQS-DIISLLALQGPKAKTILEPLLDQTVPGLKPFFFG 172
Query: 375 RPCTIAGIPCTLTRAGYTGEDGVEISVPGEQCTHIVEALLSDEDVKLAGLGARDSL 430
+ A + R GYTGEDG EIS+ E+ E LL+ VK GLGARD+L
Sbjct: 173 QEAEFALKKAFIARTGYTGEDGFEISIANEKAVEFWEQLLAAPGVKPCGLGARDTL 228
Score = 90.3 bits (224), Expect = 1e-19
Identities = 41/107 (38%), Positives = 62/107 (57%), Gaps = 4/107 (3%)
Query: 13 KRRRETGGFPGASIIQSQIKSGVSRKRTGF--TSTGVPIRPGYEIFNAN-DQRVGAITSG 69
+ R+ F G +++ Q ++G +K G G+ R GY IF N + VG +TSG
Sbjct: 257 SKSRQKYDFIGRAVLMEQKENGTEKKLVGLEMLEKGIA-RNGYPIFLPNGETEVGIVTSG 315
Query: 70 CPSPSLKKNIAMGYIEPAYSKVGVELWVRVRDKRVDVKVTKMPFVKS 116
SP+L KNI + Y+ Y K+G +L V+VR+K +KV KMPFV++
Sbjct: 316 TASPTLGKNIGLAYVPKEYHKIGTKLLVQVRNKFYPIKVVKMPFVRT 362
Score = 73.3 bits (180), Expect = 5e-14
Identities = 36/90 (40%), Positives = 48/90 (53%), Gaps = 1/90 (1%)
Query: 467 EERGLIAVQGPLSSTILQRHTDLDLSSLY-FMTSRPCTIAGIPCTLTRAGYTGEDGVEIS 525
+ L+A+QGP + TIL+ D + L F + A + R GYTGEDG EIS
Sbjct: 139 DIISLLALQGPKAKTILEPLLDQTVPGLKPFFFGQEAEFALKKAFIARTGYTGEDGFEIS 198
Query: 526 VPGEQCTHIVEALLSDEDVKLAGLGARDSL 555
+ E+ E LL+ VK GLGARD+L
Sbjct: 199 IANEKAVEFWEQLLAAPGVKPCGLGARDTL 228
>gnl|CDD|216578 pfam01571, GCV_T, Aminomethyltransferase folate-binding domain.
This is a family of glycine cleavage T-proteins, part of
the glycine cleavage multienzyme complex (GCV) found in
bacteria and the mitochondria of eukaryotes. GCV
catalyzes the catabolism of glycine in eukaryotes. The
T-protein is an aminomethyl transferase.
Length = 212
Score = 178 bits (453), Expect = 1e-52
Identities = 75/192 (39%), Positives = 109/192 (56%), Gaps = 10/192 (5%)
Query: 242 VFDVSHMLQTVVTGKHREEWLESICVADVHELDPGKGTLSLFTNEQGGIQDDLIVTKTLE 301
+FDVSHM + V+G +L+ + DV +L PG+ T +L NE+GGI DDL V + E
Sbjct: 1 LFDVSHMGKIEVSGPDAAAFLQRLLTNDVSKLKPGQATYTLLLNEKGGILDDLTVYRLGE 60
Query: 302 DSLFLVSNASRRKVDMDLMVAAQDRFKSLGKDIHLQFLSAEERGLIAVQGPLSSTILQRH 361
D LV NA+ + D+ + R ++ + + ++ +E ++A+QGP + +LQ
Sbjct: 61 DEFLLVVNAANAEKDLAWL-----RKYAVFSKVTVADVT-DELAVLALQGPKARELLQEL 114
Query: 362 TDLDLSSLYFMTSRPCTIAGIPCTLTRAGYTGEDGVEISVPGEQCTHIVEALLS---DED 418
TDL L +L F + G P ++R GYTGEDG EI VP E + EALL +
Sbjct: 115 TDLSLEALPFFSFAEIE-GGGPVRVSRTGYTGEDGYEIYVPAEDAVALWEALLEAGKEAG 173
Query: 419 VKLAGLGARDSL 430
+K AGLGARDSL
Sbjct: 174 LKPAGLGARDSL 185
Score = 97.3 bits (243), Expect = 4e-23
Identities = 42/92 (45%), Positives = 55/92 (59%), Gaps = 4/92 (4%)
Query: 467 EERGLIAVQGPLSSTILQRHTDLDLSSLYFMTSRPCTIAGIPCTLTRAGYTGEDGVEISV 526
+E ++A+QGP + +LQ TDL L +L F + G P ++R GYTGEDG EI V
Sbjct: 95 DELAVLALQGPKARELLQELTDLSLEALPFFSFAEIE-GGGPVRVSRTGYTGEDGYEIYV 153
Query: 527 PGEQCTHIVEALLS---DEDVKLAGLGARDSL 555
P E + EALL + +K AGLGARDSL
Sbjct: 154 PAEDAVALWEALLEAGKEAGLKPAGLGARDSL 185
>gnl|CDD|219963 pfam08669, GCV_T_C, Glycine cleavage T-protein C-terminal barrel
domain. This is a family of glycine cleavage
T-proteins, part of the glycine cleavage multienzyme
complex (GCV) found in bacteria and the mitochondria of
eukaryotes. GCV catalyzes the catabolism of glycine in
eukaryotes. The T-protein is an aminomethyl transferase.
Length = 95
Score = 105 bits (264), Expect = 2e-27
Identities = 36/95 (37%), Positives = 51/95 (53%), Gaps = 2/95 (2%)
Query: 19 GGFPGASIIQSQIKSGVSRKR-TGFTSTG-VPIRPGYEIFNANDQRVGAITSGCPSPSLK 76
G F G + Q GV R+R G G P R G + A+ + VG +TSG SP+L
Sbjct: 1 GDFIGKEALARQKAEGVVRRRLVGLLLDGDGPPREGEPVLAADGEVVGEVTSGTYSPTLG 60
Query: 77 KNIAMGYIEPAYSKVGVELWVRVRDKRVDVKVTKM 111
KNIA+ Y+ +++ G E+ V +R KRV V K+
Sbjct: 61 KNIALAYVRTEHAEPGTEVEVEIRGKRVPATVVKL 95
>gnl|CDD|233382 TIGR01372, soxA, sarcosine oxidase, alpha subunit family,
heterotetrameric form. This model describes the alpha
subunit of a family of known and putative
heterotetrameric sarcosine oxidases. Five operons of
such oxidases are found in Mesorhizobium loti and three
in Agrobacterium tumefaciens, a high enough copy number
to suggest that not all members are share the same
function. The model is designated as subfamily rather
than equivalog for this reason.Sarcosine oxidase
catalyzes the oxidative demethylation of sarcosine to
glycine. The reaction converts tetrahydrofolate to
5,10-methylene-tetrahydrofolate. The enzyme is known in
monomeric and heterotetrameric (alpha,beta,gamma,delta)
forms [Energy metabolism, Amino acids and amines].
Length = 985
Score = 84.4 bits (209), Expect = 5e-17
Identities = 60/230 (26%), Positives = 98/230 (42%), Gaps = 15/230 (6%)
Query: 195 AEQRTPLYDLHLSHGGKMVPFAGFSMPVQYGA------VSITASHLHTRSKVSVFDVSHM 248
++TPL+ HL+HG + P Y ++ R V +FD S +
Sbjct: 595 PARKTPLHSWHLAHGAVFEDVGQWKRPWYYPRRGEDMDEAVARECKAVRESVGLFDASTL 654
Query: 249 LQTVVTGKHREEWLESICVADVHELDPGKGTLSLFTNEQGGIQDDLIVTKTLEDSLFLV- 307
+ V G E+L + +L GK L E G + DD VT L + FL+
Sbjct: 655 GKIEVQGPDAAEFLNRVYTNAFTKLKVGKARYGLMLREDGMVFDDG-VTSRLAEDRFLMT 713
Query: 308 -SNASRRKVDMDLMVAAQDRFKSLGKDIHLQFLSAEERGLIAVQGPLSSTILQR---HTD 363
+ +V L Q + L D++L ++ ++ +AV GP + +L D
Sbjct: 714 TTTGGAARVLQHLEEWLQTEWPEL--DVYLTSVT-DQWATLAVSGPKARDLLAELVDGLD 770
Query: 364 LDLSSLYFMTSRPCTIAGIPCTLTRAGYTGEDGVEISVPGEQCTHIVEAL 413
L + FM + T+AG+P L R ++GE E++VP + + EAL
Sbjct: 771 LSNEAFPFMAIKEGTLAGVPARLFRISFSGELAFEVNVPADYGEAVWEAL 820
Score = 53.2 bits (128), Expect = 3e-07
Identities = 23/70 (32%), Positives = 36/70 (51%), Gaps = 3/70 (4%)
Query: 472 IAVQGPLSSTILQR---HTDLDLSSLYFMTSRPCTIAGIPCTLTRAGYTGEDGVEISVPG 528
+AV GP + +L DL + FM + T+AG+P L R ++GE E++VP
Sbjct: 751 LAVSGPKARDLLAELVDGLDLSNEAFPFMAIKEGTLAGVPARLFRISFSGELAFEVNVPA 810
Query: 529 EQCTHIVEAL 538
+ + EAL
Sbjct: 811 DYGEAVWEAL 820
Score = 38.6 bits (90), Expect = 0.008
Identities = 14/77 (18%), Positives = 31/77 (40%), Gaps = 5/77 (6%)
Query: 43 TSTGVPIRPGYEIFNANDQR-----VGAITSGCPSPSLKKNIAMGYIEPAYSKVGVELWV 97
+ G I + + G +TS SP+L + IA+ ++ ++ G ++V
Sbjct: 900 LDPQRRLPEGAHIVADDAEAIPMNMQGHVTSSYFSPALGRTIALALVKGGRARHGETVYV 959
Query: 98 RVRDKRVDVKVTKMPFV 114
+ + V++ F
Sbjct: 960 PDLGRFIAVEICDPVFF 976
>gnl|CDD|237113 PRK12486, dmdA, putative dimethyl sulfoniopropionate demethylase;
Reviewed.
Length = 368
Score = 46.3 bits (110), Expect = 3e-05
Identities = 45/179 (25%), Positives = 75/179 (41%), Gaps = 11/179 (6%)
Query: 228 SITASHLHTRSKVSVFDVSHMLQTVVTGKHREEWLESICVADVHELDPGKGTLSLFTNEQ 287
S+ + H + V V+DV+ Q + G ++ + D+ + PG+ +E
Sbjct: 42 SVEDDYAHLKEHVQVWDVAVERQVEIRGPDAARLVQMLTPRDLRGMKPGQCYYVPIVDET 101
Query: 288 GGIQDDLIVTKTLEDSLFLVSNASRRKVDMDLMVAAQDRFKSLGKDIHLQFLSAE-ERGL 346
GG+ +D + K ED + +S A D DL++ K L L L E +
Sbjct: 102 GGMLNDPVALKLAEDR-WWISIA-----DSDLLLWV----KGLANGRKLDVLVVEPDVSP 151
Query: 347 IAVQGPLSSTILQRHTDLDLSSLYFMTSRPCTIAGIPCTLTRAGYTGEDGVEISVPGEQ 405
+AVQGP + ++ R + L F G + R+GY+ + G EI V G
Sbjct: 152 LAVQGPKADALMARVFGEAIRDLRFFRFGYFDFEGTDLVIARSGYSKQGGFEIYVEGSD 210
Score = 43.6 bits (103), Expect = 2e-04
Identities = 17/60 (28%), Positives = 26/60 (43%)
Query: 55 IFNANDQRVGAITSGCPSPSLKKNIAMGYIEPAYSKVGVELWVRVRDKRVDVKVTKMPFV 114
A D RVG +TS SP + N+A+G + + G L V D V + ++
Sbjct: 309 PLLAGDNRVGQVTSAAYSPDFQTNVAIGMVRMTHWDPGTGLEVETPDGMRPATVREGFWI 368
Score = 29.3 bits (66), Expect = 6.0
Identities = 31/109 (28%), Positives = 44/109 (40%), Gaps = 17/109 (15%)
Query: 436 LNTPVPHGSLKLSNDRF-------------KSLGKDIHLQFLSPE-ERGLIAVQGPLSST 481
LN PV +LKL+ DR+ K L L L E + +AVQGP +
Sbjct: 105 LNDPV---ALKLAEDRWWISIADSDLLLWVKGLANGRKLDVLVVEPDVSPLAVQGPKADA 161
Query: 482 ILQRHTDLDLSSLYFMTSRPCTIAGIPCTLTRAGYTGEDGVEISVPGEQ 530
++ R + L F G + R+GY+ + G EI V G
Sbjct: 162 LMARVFGEAIRDLRFFRFGYFDFEGTDLVIARSGYSKQGGFEIYVEGSD 210
>gnl|CDD|223431 COG0354, COG0354, Predicted aminomethyltransferase related to GcvT
[General function prediction only].
Length = 305
Score = 35.4 bits (82), Expect = 0.060
Identities = 17/61 (27%), Positives = 29/61 (47%), Gaps = 1/61 (1%)
Query: 253 VTGKHREEWLESICVADVHELDPGKGTLSLFTNEQGGIQDDLIVTKTLEDSLFLVSNASR 312
V+G E++L+ DV L G+ TL+ QG + D + + D L+L ++ S
Sbjct: 27 VSGADAEKFLQGQLTNDVSALAEGQSTLAALLTPQGRVLFDFRLYR-RGDGLYLDTDKSV 85
Query: 313 R 313
Sbjct: 86 L 86
>gnl|CDD|222483 pfam13971, MEI4-Rec24, Microtubule-binding domain of katanin. This
is the C-terminal domain of katanin - a heterodimeric
micro-tubule severing ATPase. Katanin is found localised
at mitotic spindle bodies. This domain binds
microtubules by interacting specifically with the
N-terminal domain of p60 katanin.
Length = 375
Score = 31.8 bits (72), Expect = 0.90
Identities = 22/94 (23%), Positives = 34/94 (36%), Gaps = 20/94 (21%)
Query: 232 SHLHTRSKVSVFDVSHMLQTVVTGKHREEWLESICVADVHELDPGKGTLS---------L 282
L + K + L+ +V H ++I +H D S L
Sbjct: 268 ELLLSEIK----SFADQLRRLVY-SHCINQEQAIYFPCLHSFDVVLYENSFYLFWVLEQL 322
Query: 283 FTNEQGGIQDDLIVT------KTLEDSLFLVSNA 310
NE+ G + L + + LED LFL+S A
Sbjct: 323 LQNEELGDRTILDLPLLEEFLQKLEDKLFLLSEA 356
>gnl|CDD|225463 COG2911, COG2911, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 1278
Score = 31.6 bits (72), Expect = 1.5
Identities = 18/70 (25%), Positives = 30/70 (42%), Gaps = 10/70 (14%)
Query: 418 DVKLAGLGARDSLSGDITLNTPV----PHGSLKLSNDRFKSLGKDIHLQFLSPEERGLIA 473
D+ + G G L GD+ + P +G + L R+++ G+D L +G +
Sbjct: 1059 DIFVRGFGLDAELGGDLHVRQPKGNLGLNGQINLRRGRYRAYGQD--LTI----RKGTLL 1112
Query: 474 VQGPLSSTIL 483
GPL L
Sbjct: 1113 FSGPLDQPYL 1122
>gnl|CDD|224140 COG1219, ClpX, ATP-dependent protease Clp, ATPase subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 408
Score = 31.0 bits (71), Expect = 1.5
Identities = 19/43 (44%), Positives = 23/43 (53%), Gaps = 12/43 (27%)
Query: 385 TLTRAGYTGEDGVEISVPGEQCTHIVEALL--SDEDVKLAGLG 425
TLT AGY GED VE +I+ LL +D DV+ A G
Sbjct: 132 TLTEAGYVGED-VE---------NILLKLLQAADYDVERAERG 164
Score = 31.0 bits (71), Expect = 1.5
Identities = 19/43 (44%), Positives = 23/43 (53%), Gaps = 12/43 (27%)
Query: 510 TLTRAGYTGEDGVEISVPGEQCTHIVEALL--SDEDVKLAGLG 550
TLT AGY GED VE +I+ LL +D DV+ A G
Sbjct: 132 TLTEAGYVGED-VE---------NILLKLLQAADYDVERAERG 164
>gnl|CDD|132903 cd06927, RNAP_L, L subunit of Archaeal RNA polymerase. The
archaeal L subunit of RNA polymerase (RNAP) is involved
in the assembly of RNAP subunits. RNAP is a large
multi-subunit complex responsible for the synthesis of
RNA. It is the principal enzyme of the transcription
process, and is a final target in many regulatory
pathways that control gene expression in all living
cells. A single distinct RNAP complex is found in
archaea, which may be responsible for the synthesis of
all RNAs. The archaeal RNAP harbors homologues of all
eukaryotic RNAP II subunits with two exceptions (RPB8
and RPB9). The 12 archaeal subunits are designated by
letters and can be divided into three functional groups
that are engaged in: (I) catalysis (A'/A", B'/B" or B);
(II) assembly (L, N, D and P); and (III) auxiliary
functions (F, E, H and K). The assembly of the two
largest archaeal RNAP subunits that provide most of the
enzyme's catalytic functions depends on the presence of
the archaeal D/L heterodimer.
Length = 83
Score = 28.7 bits (65), Expect = 1.9
Identities = 11/34 (32%), Positives = 18/34 (52%), Gaps = 7/34 (20%)
Query: 394 EDGVEISVPGEQCTH-----IVEALLSDEDVKLA 422
++ +E+ + GE H + E LL D VK+A
Sbjct: 8 DNELELEIEGE--DHTLLNLLKEELLRDPGVKVA 39
Score = 28.7 bits (65), Expect = 1.9
Identities = 11/34 (32%), Positives = 18/34 (52%), Gaps = 7/34 (20%)
Query: 519 EDGVEISVPGEQCTH-----IVEALLSDEDVKLA 547
++ +E+ + GE H + E LL D VK+A
Sbjct: 8 DNELELEIEGE--DHTLLNLLKEELLRDPGVKVA 39
>gnl|CDD|224675 COG1761, RPB11, DNA-directed RNA polymerase, subunit L
[Transcription].
Length = 99
Score = 28.1 bits (63), Expect = 3.6
Identities = 12/36 (33%), Positives = 19/36 (52%), Gaps = 7/36 (19%)
Query: 393 GEDGVEISVPGEQCTH-----IVEALLSDEDVKLAG 423
++ +E+ + GE H + E LL DEDV+ A
Sbjct: 13 DDNSLELEIEGE--DHTLGNLLREELLKDEDVEFAA 46
Score = 28.1 bits (63), Expect = 3.6
Identities = 12/36 (33%), Positives = 19/36 (52%), Gaps = 7/36 (19%)
Query: 518 GEDGVEISVPGEQCTH-----IVEALLSDEDVKLAG 548
++ +E+ + GE H + E LL DEDV+ A
Sbjct: 13 DDNSLELEIEGE--DHTLGNLLREELLKDEDVEFAA 46
>gnl|CDD|130188 TIGR01118, lacA, galactose-6-phosphate isomerase, LacA subunit.
This family contains members from low GC gram-positive
bacteria. Galactose-6-phosphate isomerase is involved in
lactose catabolism by the tagatose-6-phosphate pathway
[Energy metabolism, Biosynthesis and degradation of
polysaccharides].
Length = 141
Score = 28.4 bits (63), Expect = 4.9
Identities = 17/71 (23%), Positives = 30/71 (42%), Gaps = 11/71 (15%)
Query: 18 TGGFPGASIIQSQIKSGVSRKRTGFTSTGVPIRPGYEIFNANDQRVGAITSGCPSPSLKK 77
G F A+ I+ I + VS +R+ + + G N+ R+ + + L K
Sbjct: 67 AGSFMVATKIKGMIAAEVSDERSAYMTRG-----------HNNARMITVGAEIVGDELAK 115
Query: 78 NIAMGYIEPAY 88
NI ++E Y
Sbjct: 116 NIVKAFVEGKY 126
>gnl|CDD|218042 pfam04357, DUF490, Family of unknown function (DUF490).
Length = 365
Score = 28.9 bits (65), Expect = 7.1
Identities = 19/70 (27%), Positives = 28/70 (40%), Gaps = 11/70 (15%)
Query: 413 LLSDEDVKLAGLGARDSLSGDITLN-----TPVPHGSLKLSNDRFKSLGKDIHLQFLSPE 467
L DV++ G G L GD+TLN G+++L R+ G+ L
Sbjct: 125 LNLGPDVRVRGRGLDAELGGDLTLNGTPAGPLRLSGTIRLVRGRYNLYGRRFDLD----- 179
Query: 468 ERGLIAVQGP 477
RG + G
Sbjct: 180 -RGRVTFSGD 188
>gnl|CDD|234175 TIGR03348, VI_IcmF, type VI secretion protein IcmF. Members of
this protein family are IcmF homologs and tend to be
associated with type VI secretion systems [Cellular
processes, Pathogenesis].
Length = 1169
Score = 28.8 bits (65), Expect = 9.8
Identities = 48/203 (23%), Positives = 69/203 (33%), Gaps = 53/203 (26%)
Query: 306 LVSNASRRKVDMDLMVAAQDRFKSLGKDIHLQFLSAEERGLIAVQGPLSSTILQRHTDLD 365
LV A + L R K D L LS L GP + + +R +
Sbjct: 629 LVEQARAELRAIPLAQRVYQRLKLQPLDAALPDLS-----LADALGPQADLVFERRSGKP 683
Query: 366 LSSLYFMTSRPCTIAGIPCTLTRAGYTGEDGVEISVPGEQCTHIVEALLSD-----EDVK 420
LS GIP TRAGY V Q ++VE L D
Sbjct: 684 LS------------LGIPGLYTRAGYH-------DVFLPQIANLVERALEDAWVLGGASG 724
Query: 421 LAGL--GARDSLSGDITLNTPVPHGSLKL-SND---RFKSLGKDIHLQ-FLSPEE----- 468
+ L R +L+ ++ KL D ++ +L D+ L+ F S +
Sbjct: 725 NSQLSEADRQALAREV----------RKLYFADYINQWDALLNDLRLKPFESLAQAAALA 774
Query: 469 RGLIAVQGPLSS--TILQRHTDL 489
R L + PL+ + R T L
Sbjct: 775 RALASPDSPLARLLRAVARETRL 797
>gnl|CDD|233384 TIGR01375, soxG, sarcosine oxidase, gamma subunit family,
heterotetrameric form. This model describes the gamma
subunit of a family of known and putative
heterotetrameric sarcosine oxidases. Five operons of
such oxidases are found in Mesorhizobium loti and three
in Agrobacterium tumefaciens, a high enough copy number
to suggest that not all members are share the same
function. The model is designated as subfamily rather
than equivalog for this reason. The gamma subunit is the
most divergent between operons of the four subunits.
Sarcosine oxidase catalyzes the oxidative demethylation
of sarcosine to glycine. The reaction converts
tetrahydrofolate to 5,10-methylene-tetrahydrofolate. The
enzyme is known in monomeric and heterotetrameric
(alpha,beta,gamma,delta) forms [Energy metabolism, Amino
acids and amines].
Length = 152
Score = 27.9 bits (62), Expect = 9.9
Identities = 18/60 (30%), Positives = 26/60 (43%), Gaps = 5/60 (8%)
Query: 344 RGLIAVQGPLSSTILQRHTDLDLSSLYFMT--SRPCTIAGIPCTLTRAGYTGEDGVEISV 401
R + + GP++ +L + +DLS F R I + R TGED EI V
Sbjct: 78 RTALRISGPMAEEVLAKGCAVDLSLSAFPVGAGRRTIFGKIAAVIWR---TGEDTFEIIV 134
Score = 27.9 bits (62), Expect = 9.9
Identities = 18/60 (30%), Positives = 26/60 (43%), Gaps = 5/60 (8%)
Query: 469 RGLIAVQGPLSSTILQRHTDLDLSSLYFMT--SRPCTIAGIPCTLTRAGYTGEDGVEISV 526
R + + GP++ +L + +DLS F R I + R TGED EI V
Sbjct: 78 RTALRISGPMAEEVLAKGCAVDLSLSAFPVGAGRRTIFGKIAAVIWR---TGEDTFEIIV 134
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 0.136 0.398
Gapped
Lambda K H
0.267 0.0617 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 28,255,497
Number of extensions: 2758551
Number of successful extensions: 2055
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2011
Number of HSP's successfully gapped: 50
Length of query: 555
Length of database: 10,937,602
Length adjustment: 102
Effective length of query: 453
Effective length of database: 6,413,494
Effective search space: 2905312782
Effective search space used: 2905312782
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: 62 (27.9 bits)