RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780591|ref|YP_003065004.1| aminomethyltransferase protein
(glycine cleavage) [Candidatus Liberibacter asiaticus str. psy62]
(273 letters)
>gnl|CDD|30703 COG0354, COG0354, Predicted aminomethyltransferase related to GcvT
[General function prediction only].
Length = 305
Score = 173 bits (439), Expect = 5e-44
Identities = 76/287 (26%), Positives = 123/287 (42%), Gaps = 20/287 (6%)
Query: 1 MSSVYLSNQSFIKVCGKSAIPFLQAIITADVLTLPYKIARGSAILTPQGKILLYFLISKI 60
++ V LS+++ I+V G A FLQ +T DV L + +A+LTPQG++L F + +
Sbjct: 14 LTLVLLSDRALIRVSGADAEKFLQGQLTNDVSALAEGQSTLAALLTPQGRVLFDFRLYRR 73
Query: 61 EEDTFILEIDRSKRDSLIDKLLFYKLRSNVIIEIQPI--------NGVVLSWNQEHTFSN 112
D L+ D+S ++L+ +L Y LRS V I +
Sbjct: 74 G-DGLYLDTDKSVLEALLKRLKKYALRSKVTIAPSDLVLIGVAGEEAAEALAVDFPALPK 132
Query: 113 SSFIDERFSIADVLLHR-------TWGHNEKIASDIKTYHELRINHGIVDPNTDFLPSTI 165
RF + + + + D + LRI GI D
Sbjct: 133 QWRAAGRFLLDLPVPRLLQLVPKLALPQALEASLDQ--WLALRIRAGIPGI-DDATSEDF 189
Query: 166 FPHDALMDLLNGISLTKGCYIGQEVVSRIQHRNIIRKRPMIITGTDDLPPSGSPILTDDI 225
P + +D L GIS KGCY+GQE V+R ++R ++R +++ LP +G IL
Sbjct: 190 IPQEVNLDALGGISFKKGCYVGQETVARAKYRGTNKRRLVLLALDASLPEAGEEILAGGE 249
Query: 226 EIGTLGVVVGKKALAIARIDKVDHAIKKGMALTVHGVRVKASFPHWY 272
E+G G V+ L + ++ + G+A+ V G + P W
Sbjct: 250 EVGL-GTVLSAVGLGPVALIRLKVVLDNGLAIDVGGRIANLALPPWV 295
>gnl|CDD|38140 KOG2929, KOG2929, KOG2929, Transcription factor, component of CCR4
transcriptional complex [Transcription].
Length = 348
Score = 134 bits (338), Expect = 3e-32
Identities = 80/307 (26%), Positives = 132/307 (42%), Gaps = 44/307 (14%)
Query: 6 LSNQSFIKVCGKSAIPFLQAIITADVLTLPYKIARG---------SAILTPQGKIL---- 52
L ++S I+V G + FLQ ++T DV T + +G +A L QG++L
Sbjct: 35 LESRSLIRVRGPDTVKFLQGLLTNDV-TRHFPGIQGAPITRNGLYAAFLNTQGRLLYDTI 93
Query: 53 LYFLISKIEEDTFILEIDRSKRDSLIDKLLFYKLRSNVIIEIQPINGVVLSWNQEHTFSN 112
LY + E +LE D S + L Y+LR V E++ I+ + +W E N
Sbjct: 94 LYPTPVPVSEPELLLECDGSVVGDFLKHLQKYRLRRKV--EVEKIDHELKTWKVEVLPKN 151
Query: 113 S--SFIDERFSIADVLLHR-----------------TWGHNEKIASDIKTYHELRINHGI 153
S + + E +VL +R + D Y LR G+
Sbjct: 152 SIDANVFEENV-LNVLYNRDPRFSGMGWRLLPQDFAVPTSEQVSEGDESDYRLLRYQQGV 210
Query: 154 VDPNTDFLPSTIFPHDALMDLLNGISLTKGCYIGQEVVSRIQHRNIIRKR--PMIITGTD 211
+ + + +P T+ P ++ D LNGIS KGCY+GQE+ +R H +IRKR P + +
Sbjct: 211 AEGSQELIPGTLLPLESNFDFLNGISFDKGCYVGQELTARTHHTGVIRKRLFPFRLDLAE 270
Query: 212 DLP-PSGSPILTDDIEIGT---LGVVVGKKALAIARIDKVDHAIKKGMALTVHGVR--VK 265
+ P G ++E +G V+ + L + +++ + LT G +K
Sbjct: 271 NEPLLVGFTNAPPEVEKKKGRKVGRVISGEGLRGLGLLRLEKFKAQFYKLTTKGENIKIK 330
Query: 266 ASFPHWY 272
P W+
Sbjct: 331 PQKPEWW 337
>gnl|CDD|144970 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
catalyses the catabolism of glycine in eukaryotes. The
T-protein is an aminomethyl transferase.
Length = 212
Score = 58.4 bits (142), Expect = 2e-09
Identities = 24/88 (27%), Positives = 44/88 (50%)
Query: 6 LSNQSFIKVCGKSAIPFLQAIITADVLTLPYKIARGSAILTPQGKILLYFLISKIEEDTF 65
+S+ I+V G A FLQ ++T DV L A + +L +G I+ + ++ ED F
Sbjct: 4 VSHMGKIEVSGPDAAAFLQRLLTNDVSKLKPGQATYTLLLNEKGGIIDDLTVYRLGEDEF 63
Query: 66 ILEIDRSKRDSLIDKLLFYKLRSNVIIE 93
+L ++ + + + L Y + S V +
Sbjct: 64 LLVVNAANAEKDLAWLRKYAVFSKVTVA 91
>gnl|CDD|30753 COG0404, GcvT, Glycine cleavage system T protein
(aminomethyltransferase) [Amino acid transport and
metabolism].
Length = 379
Score = 51.4 bits (123), Expect = 3e-07
Identities = 67/317 (21%), Positives = 120/317 (37%), Gaps = 63/317 (19%)
Query: 6 LSNQSFIKVCGKSAIPFLQAIITADVLTLPYKIARGSAILTPQGKILLYFLISKIEEDTF 65
+S+ ++V G A FLQ ++T DV L AR + +L G I+ ++ ++ ED F
Sbjct: 53 VSHMGKVEVSGPDAAAFLQRLLTNDVSKLKPGRARYTLMLNEDGGIIDDLIVYRLGEDRF 112
Query: 66 ILEIDRSKRDSLIDKLLFYKLRSNVIIEIQP---------ING---------VVLSW-NQ 106
L + + + + L ++ ++ + + + G +V +
Sbjct: 113 FLVTNAATAEKDLAWLERHQAGPDLDVTLTSVTEDLAVLALQGPKAREVLAKLVDGDLVE 172
Query: 107 EHTFSNSSFIDERFSIADVLLHRT----------WGHNEKIAS------------DIKTY 144
F + V + RT + E A+ +K
Sbjct: 173 ALPFFAFKEVTI-GGGVPVRISRTGYTGELGFEIYVPAEDAAAVWDALLEAGEKFGVKPC 231
Query: 145 -----HELRINHGIVDPNTDFLPSTIFPHDALMDLLNGISLTKGCYIGQEVVSRIQHRNI 199
LR+ G+ D TI P +A + + L K +IG+ + R + + +
Sbjct: 232 GLGARDTLRLEAGLRLYGQDLDE-TITPLEAGLGWA--VKLDKDDFIGKAALLREKAKGV 288
Query: 200 IRKR-PMIITGTDDLPPSGSPILTDDIEI-------GTLGVVVGKKALAIARIDKVDHAI 251
RK + + + G P+L D E+ GT +G K++A+A +D D+A
Sbjct: 289 RRKLVGLKLDDKGPVLRGGEPVLDADGEVEVGEVTSGTFSPTLG-KSIALAYVDS-DYA- 345
Query: 252 KKGMALTVH--GVRVKA 266
K G L V G RV A
Sbjct: 346 KPGTELEVEIRGKRVPA 362
>gnl|CDD|37981 KOG2770, KOG2770, KOG2770, Aminomethyl transferase [Amino acid
transport and metabolism].
Length = 401
Score = 39.2 bits (91), Expect = 0.001
Identities = 54/305 (17%), Positives = 99/305 (32%), Gaps = 54/305 (17%)
Query: 12 IKVCGKSAIPFLQAIITADVLTLPYKIARGSAILTPQGKILLYFLISKIEEDTFILEID- 70
+V GK + FL+++ TAD LP S G I+ +I+K++E+ + +
Sbjct: 80 SRVSGKDRVAFLESLTTADFEGLPEGSGTLSVFTNETGGIIDDLIITKVDENELYIVSNA 139
Query: 71 --RSKRDSLIDKLLFYKLRSNVIIEIQPINGVVLSWNQEHT------------------F 110
+ K ++L+ F + + ++G L Q
Sbjct: 140 GCQEKDEALLKDHFFAWKSKGKDVSWETLDGRSLLALQGPEAAKVLQKLLSKLGDLSKLP 199
Query: 111 SNSSFIDERFSIADVLLHRTW-------------GHNEKIASDI-----------KTYHE 146
S + + + R +A +
Sbjct: 200 FGQSQVYDFKGGPGCRVTRGGYTGEDGFEISVPPEGAVDLAETLLANPVVKPAGLGARDS 259
Query: 147 LRINHGIVDPNTDFLPSTIFPHDALMDLLNGISLTKGCYIGQEVVSR-IQHRNIIRKRPM 205
LR+ G+ +D T L ++ + G EV+ + ++ I R+R
Sbjct: 260 LRLEAGLCLYGSDIDEETTPVEAGLSWVIGKRRRGTYDFPGAEVILKQLKDGGISRRRVG 319
Query: 206 IITGTDDLPPSGSPILTDD-IEIGTL----GVVVGKKALAIARIDKVDHAIKKGMALTVH 260
+ SGS I DD ++G + K +A+ + K H K G + V
Sbjct: 320 LNLSAKPPARSGSAIFVDDGTKVGQVTSGCPSPTLGKNIAMGYVKKGYH--KIGTKVLV- 376
Query: 261 GVRVK 265
VR K
Sbjct: 377 KVRNK 381
>gnl|CDD|143599 cd07575, Xc-1258_like, Xanthomonas campestris XC1258 and related
proteins, members of the nitrilase superfamily (putative
class 13 nitrilases). Uncharacterized subgroup
belonging to a larger nitrilase superfamily comprised of
nitrile- or amide-hydrolyzing enzymes and
amide-condensing enzymes, which depend on a Glu-Lys-Cys
catalytic triad. This superfamily has been classified in
the literature based on global and structure based
sequence analysis into thirteen different enzyme classes
(referred to as 1-13), class 13 represents proteins that
at the time were difficult to place in a distinct
similarity group; this subgroup either represents a new
class or one that was included previously in class 13.
Members of this superfamily generally form homomeric
complexes, the basic building block of which is a
homodimer. XC1258 is a homotetramer.
Length = 252
Score = 28.7 bits (65), Expect = 1.9
Identities = 10/45 (22%), Positives = 19/45 (42%), Gaps = 3/45 (6%)
Query: 41 GSAILTPQGKILLYFLISKIEEDTFILEIDRSKRDSLIDKLLFYK 85
SA++ P G+ L ++ +E +D+ +K F K
Sbjct: 205 DSAVIDPLGEPLAE---AEEDEGVLTATLDKEALQEFREKFPFLK 246
>gnl|CDD|33284 COG3481, COG3481, Predicted HD-superfamily hydrolase [General
function prediction only].
Length = 287
Score = 27.6 bits (61), Expect = 4.1
Identities = 20/62 (32%), Positives = 30/62 (48%), Gaps = 7/62 (11%)
Query: 192 SRIQHRNIIRKRPMIITGTDDLPPSGSPILTDDIEIGTLGVVVGKKALAIARIDKVDHAI 251
R QH IIR R + TD P + +P+ D++E G + + I RI V H +
Sbjct: 66 GRKQH-KIIRIRLI----TDSDPVTKAPLSMDEMEEEITGYIFSIENAVIQRI--VRHDL 118
Query: 252 KK 253
+K
Sbjct: 119 EK 120
>gnl|CDD|145541 pfam02455, Hex_IIIa, Hexon-associated protein (IIIa). The major
capsid protein of the adenovirus strain is also known as
a hexon. This is a family of hexon-associated proteins
(protein IIIa).
Length = 491
Score = 27.4 bits (61), Expect = 4.3
Identities = 14/46 (30%), Positives = 23/46 (50%), Gaps = 8/46 (17%)
Query: 42 SAILTPQGKILLYFLISKIEEDTFILEIDRSKRDSLIDKLL-FYKL 86
S++LTP ++LL + + +TF RDS + LL Y+
Sbjct: 154 SSLLTPNTRLLLLLVAPFTDSNTF-------SRDSYLGHLLTLYRE 192
>gnl|CDD|37224 KOG2013, KOG2013, KOG2013, SMT3/SUMO-activating complex, catalytic
component UBA2 [Posttranslational modification, protein
turnover, chaperones].
Length = 603
Score = 26.9 bits (59), Expect = 6.0
Identities = 24/135 (17%), Positives = 48/135 (35%), Gaps = 22/135 (16%)
Query: 95 QPINGVVLSWNQEHTFS---NSSFIDERFSIADVLLHRTWGHNEKIAS---DIKTYHELR 148
+PI+ +V W + + F+ D+ + E+ A + + E R
Sbjct: 176 EPIHCIV--WAKHYLFNQLFGEDDDDQYGRHDNADPDNCEDMTEEEAEAFRETEDLKERR 233
Query: 149 INHGIVDPNTDFLPSTIFPHDALMDLLNGISLTKGCYIGQEVVSRIQHRNIIRKRPMIIT 208
+ +D N DF P IF + D+ E + ++ R RP+ ++
Sbjct: 234 ESIVEIDKNLDFGPFKIFNKLFIYDI--------------EYLLGMEALWKPRSRPVPLS 279
Query: 209 GTDDLPPSGSPILTD 223
+ + S I +
Sbjct: 280 IAEVISTSLETINSI 294
>gnl|CDD|144519 pfam00949, Peptidase_S7, Peptidase S7, Flavivirus NS3 serine
protease. The viral genome is a positive strand RNA
that encodes a single polyprotein precursor. Processing
of the polyprotein precursor into mature proteins is
carried out by the host signal peptidase and by NS3
serine protease, which requires NS2B (pfam01002) as a
cofactor.
Length = 150
Score = 26.9 bits (60), Expect = 6.5
Identities = 18/77 (23%), Positives = 28/77 (36%), Gaps = 18/77 (23%)
Query: 185 YIGQEVVSRIQHRNIIRKRP--MIITG------TDDLPP--SGSPILTDDIEI-----GT 229
+ G+EV Q+ ++ +P G D P SGSPI + +I
Sbjct: 77 WHGEEVQ---QYVENVQTKPGVFKTDGYGLGLIDLDFPGGSSGSPIFNQNGQIVGLYGNG 133
Query: 230 LGVVVGKKALAIARIDK 246
L G IA+ +
Sbjct: 134 LVTGNGTYVSGIAQGLR 150
>gnl|CDD|36110 KOG0892, KOG0892, KOG0892, Protein kinase ATM/Tel1, involved in
telomere length regulation and DNA repair [Signal
transduction mechanisms, Chromatin structure and
dynamics, Replication, recombination and repair, Cell
cycle control, cell division, chromosome partitioning].
Length = 2806
Score = 26.5 bits (58), Expect = 8.2
Identities = 21/126 (16%), Positives = 41/126 (32%), Gaps = 8/126 (6%)
Query: 34 LPYKIARGSAILTPQGKILLYFLISKIEEDTFILEIDRSKRDSLIDKLLFYKLRSNV--- 90
L IAR ++ K+L F +++ I ++ + +K S
Sbjct: 2041 LLQNIARAFPVIMLSIKLLCKFSLAQENLKHDIDKLSEAILWQRDEKNEAIISLSESLAK 2100
Query: 91 ----IIEIQPINGVVLSWNQEHTFSNSSFIDERFSI-ADVLLHRTWGHNEKIASDIKTYH 145
I V+ W E NS+ I E++ A L + K +++
Sbjct: 2101 NNSLKEFPSDIYAVLGKWLAETKSENSALISEKYLEKAVSLAEHYDNESCKALIYCQSFA 2160
Query: 146 ELRINH 151
+ +
Sbjct: 2161 QFCLAK 2166
>gnl|CDD|33244 COG3439, COG3439, Uncharacterized conserved protein [Function
unknown].
Length = 137
Score = 26.4 bits (58), Expect = 8.6
Identities = 13/51 (25%), Positives = 23/51 (45%), Gaps = 7/51 (13%)
Query: 186 IGQEVVSRIQHRNIIRKR------PMIITGTDDLPPSGSPILTDDIEIGTL 230
G +V + I H ++ P I + P +G+P+L+ + E G L
Sbjct: 35 NGFKVFTEIDHAEALKNAGVLDIPPYTILVFCN-PKAGTPLLSKNPEFGLL 84
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.323 0.140 0.410
Gapped
Lambda K H
0.267 0.0748 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,376,283
Number of extensions: 183526
Number of successful extensions: 385
Number of sequences better than 10.0: 1
Number of HSP's gapped: 381
Number of HSP's successfully gapped: 15
Length of query: 273
Length of database: 6,263,737
Length adjustment: 92
Effective length of query: 181
Effective length of database: 4,275,709
Effective search space: 773903329
Effective search space used: 773903329
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 (21.9 bits)
S2: 57 (25.7 bits)