RPS-BLAST 2.2.22 [Sep-27-2009]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= gi|254780591|ref|YP_003065004.1| aminomethyltransferase protein
(glycine cleavage) [Candidatus Liberibacter asiaticus str. psy62]
(273 letters)
>d1vlya2 d.250.1.1 (A:3-243) Hypothetical protein YgfZ, N-terminal
domain {Escherichia coli [TaxId: 562]}
Length = 241
Score = 95.8 bits (237), Expect = 3e-21
Identities = 33/224 (14%), Positives = 68/224 (30%), Gaps = 28/224 (12%)
Query: 1 MSSVYLSNQSFIKVCGKSAIPFLQAIITADVLTLPYKIARGSAILTPQGKILLYFLISKI 60
++ + L + + + G + ++Q +TADV + +A +GK+ + +
Sbjct: 17 LTLMTLDDWALATITGADSEKYMQGQVTADVSQMAEDQHLLAAHCDAKGKMWSNLRLFRD 76
Query: 61 EEDTFILEIDRSKRDSLIDKLLFYKLRSNVIIEIQ---------PINGVVLSWNQEHTFS 111
+ +E + L + + I L+ S
Sbjct: 77 GDGFAWIERRSVREPQLTELKKYAVFSKVTIAPDDERVLLGVAGFQARAALANLFSELPS 136
Query: 112 NSSFIDERFSIADVLLHRTWGHNEKIAS------------------DIKTYHELRINHGI 153
+ + + + + + + + L I G
Sbjct: 137 KEKQVVKEGATTLLWFEHPAERFLIVTDEATANMLTDKLRGEAELNNSQQWLALNIEAGF 196
Query: 154 VDPNTDFLPSTIFPHDALMDLLNGISLTKGCYIGQEVVSRIQHR 197
+ P + L GIS KGCY GQE+V+R + R
Sbjct: 197 PVIDAA-NSGQFIPQATNLQALGGISFKKGCYTGQEMVARAKFR 239
>d1pj5a4 d.250.1.1 (A:428-742) N,N-dimethylglycine oxidase domain 3
{Arthrobacter globiformis [TaxId: 1665]}
Length = 315
Score = 38.4 bits (88), Expect = 7e-04
Identities = 24/121 (19%), Positives = 41/121 (33%), Gaps = 4/121 (3%)
Query: 75 DSLIDKLLFYKLRSNVIIEIQPINGVVLSWNQEHTFSNSSFIDERFSIADVLLHRTWGHN 134
D + L Y NV+I P+ + LS+ E + + D + D L
Sbjct: 195 DDFTNDGLKYFRAKNVVIGGIPVTAMRLSYVGELGWELYTSADNGQRLWDALWQAGQPFG 254
Query: 135 EKIASDIKTYHELRINHGIVDPNTDFLPSTIFPHDALMDLLNGISLTKGCYIGQEVVSRI 194
A + LR+ G TD P +A + + + K +IG+ +
Sbjct: 255 VIAAG-RAAFSSLRLEKGYRSWGTDMTTEHD-PFEAGLGFA--VKMAKESFIGKGALEGR 310
Query: 195 Q 195
Sbjct: 311 T 311
>d1vloa2 d.250.1.1 (A:4-277) Glycine cleavage system T protein, GcvT
{Escherichia coli [TaxId: 562]}
Length = 274
Score = 34.5 bits (78), Expect = 0.009
Identities = 29/227 (12%), Positives = 71/227 (31%), Gaps = 38/227 (16%)
Query: 6 LSNQSFIKVCGKSAIPFLQAIITADVLTLPYKI-ARGSAILTPQGKILLYFLISKIEEDT 64
+S+ + + + G FL+ ++ DV L A S +L G ++ ++ ED
Sbjct: 46 VSHMTIVDLRGSRTREFLRYLLANDVAKLTKSGKALYSGMLNASGGVIDDLIVYYFTEDF 105
Query: 65 FILEIDRSKRDSLIDKLLFYKLRSNVIIEIQPINGVVLSWNQEHTFSNSSFIDERFSIAD 124
F L ++ + R+ + + + + I ++ ++ ++ ++ A
Sbjct: 106 FRLVVNSATREKDLSWITQHAEPFGIEITVRDDLSMIAVQGPNAQAKAATLFNDAQRQAV 165
Query: 125 VLLHRTWGHNEK-------------------------------IASDIK-----TYHELR 148
+ +G + + +K LR
Sbjct: 166 EGMKPFFGVQAGDLFIATTGYTGEAGYEIALPNEKAADFWRALVEAGVKPCGLGARDTLR 225
Query: 149 INHGIVDPNTDFLPSTIFPHDALMDLLNGISLTKGCYIGQEVVSRIQ 195
+ G+ + + P A M +IG+E + +
Sbjct: 226 LEAGMNLYGQEMDETIS-PLAANMGWTIAWEPADRDFIGREALEVQR 271
>d2vgla_ a.118.1.10 (A:) Adaptin alpha C subunit N-terminal fragment
{Mouse (Mus musculus) [TaxId: 10090]}
Length = 584
Score = 27.4 bits (60), Expect = 1.2
Identities = 9/36 (25%), Positives = 17/36 (47%), Gaps = 6/36 (16%)
Query: 169 DALMDLLNGISLTKGCYIGQEVVSRIQHRNIIRKRP 204
D +++L+ G Y+ +EV R+ I+ R
Sbjct: 436 DTILNLIR----IAGDYVSEEVWYRV--IQIVINRD 465
>d1ulza1 b.84.2.1 (A:329-451) Biotin carboxylase (BC), C-domain
{Aquifex aeolicus [TaxId: 63363]}
Length = 123
Score = 27.4 bits (60), Expect = 1.2
Identities = 17/57 (29%), Positives = 23/57 (40%), Gaps = 4/57 (7%)
Query: 146 ELRINHGIVDPNTDFLPSTIFPHDALMDLLNGISLTKGCYIGQEVVSRIQHRNIIRK 202
E RIN DP +F PST + GI + G EV + ++I K
Sbjct: 7 ECRIN--AEDPKKNFAPSTRVIERYYVPGGFGIRVEHAAARGFEVTP--YYDSMIAK 59
>d1teda_ c.95.1.2 (A:) Polyketide synthase PKS18 {Mycobacterium
tuberculosis [TaxId: 1773]}
Length = 372
Score = 27.1 bits (59), Expect = 1.5
Identities = 18/102 (17%), Positives = 34/102 (33%), Gaps = 13/102 (12%)
Query: 160 FLPSTIFPHDALMDLLNGISLTKGCYIGQEVVSRIQHRNIIRKRPMIITGTDDLPP---S 216
P + D + + L G +E + R+ ++ I R M + D
Sbjct: 20 GTPRRVVNQSDAADRVAELFLDPG---QRERIPRVYQKSRITTRRMAVDPLDAKFDVFRR 76
Query: 217 GSPILTDDIEIG-----TLGVVVGKKALAIARI--DKVDHAI 251
+ D + + L V V K+ALA ++ +
Sbjct: 77 EPATIRDRMHLFYEHAVPLAVDVSKRALAGLPYRAAEIGLLV 118
>d1wosa1 b.44.2.1 (A:279-361) Glycine cleavage system T protein,
GcvT {Thermotoga maritima [TaxId: 2336]}
Length = 83
Score = 26.7 bits (59), Expect = 2.3
Identities = 12/70 (17%), Positives = 25/70 (35%), Gaps = 4/70 (5%)
Query: 201 RKRPMIITGTDDLPPSGSPILTDDIEIGTLGVVV----GKKALAIARIDKVDHAIKKGMA 256
RK + + G +L + +G + K++A+A + K +
Sbjct: 1 RKLVALELSGKRIARKGYEVLKNGERVGEITSGNFSPTLGKSIALALVSKSVKIGDQLGV 60
Query: 257 LTVHGVRVKA 266
+ G V+A
Sbjct: 61 VFPGGKLVEA 70
>d1wa3a1 c.1.10.1 (A:2-203) KDPG aldolase {Thermotoga maritima
[TaxId: 2336]}
Length = 202
Score = 26.1 bits (57), Expect = 3.2
Identities = 9/28 (32%), Positives = 17/28 (60%)
Query: 237 KALAIARIDKVDHAIKKGMALTVHGVRV 264
K +A+ R + V+ A +K +A+ GV +
Sbjct: 10 KIVAVLRANSVEEAKEKALAVFEGGVHL 37
>d1x74a1 c.123.1.1 (A:2-360) 2-methylacyl-CoA racemase Mcr
{Mycobacterium tuberculosis [TaxId: 1773]}
Length = 359
Score = 25.9 bits (56), Expect = 3.3
Identities = 14/61 (22%), Positives = 23/61 (37%), Gaps = 5/61 (8%)
Query: 205 MIITGTDDLPPSGSPILTDDIEIGTLGVVVGKKALAIAR-----IDKVDHAIKKGMALTV 259
+ G D P L D G++ ++VG A R VD A+ G ++ +
Sbjct: 136 LHAIGRGDERPVPPLNLVGDFGGGSMFLLVGILAALWERQSSGKGQVVDAAMVDGSSVLI 195
Query: 260 H 260
Sbjct: 196 Q 196
>d1mxsa_ c.1.10.1 (A:) KDPG aldolase {Pseudomonas putida [TaxId:
303]}
Length = 216
Score = 25.7 bits (56), Expect = 4.4
Identities = 6/28 (21%), Positives = 12/28 (42%)
Query: 237 KALAIARIDKVDHAIKKGMALTVHGVRV 264
+ L + I + + + AL G+R
Sbjct: 18 RILPVITIAREEDILPLADALAAGGIRT 45
>d1vhca_ c.1.10.1 (A:) Hypothetical protein HI0047 {Haemophilus
influenzae [TaxId: 727]}
Length = 212
Score = 25.3 bits (55), Expect = 6.0
Identities = 6/28 (21%), Positives = 12/28 (42%)
Query: 237 KALAIARIDKVDHAIKKGMALTVHGVRV 264
K + + +D D + L +G+ V
Sbjct: 15 KIVPVIALDNADDILPLADTLAKNGLSV 42
>d1wbha1 c.1.10.1 (A:1-213) KDPG aldolase {Escherichia coli [TaxId:
562]}
Length = 213
Score = 24.9 bits (54), Expect = 7.4
Identities = 9/26 (34%), Positives = 15/26 (57%)
Query: 239 LAIARIDKVDHAIKKGMALTVHGVRV 264
+ + + K++HA+ AL GVRV
Sbjct: 18 VPVIVVKKLEHAVPMAKALVAGGVRV 43
Database: scop70_1_75
Posted date: Mar 27, 2010 6:21 PM
Number of letters in database: 2,407,596
Number of sequences in database: 13,730
Lambda K H
0.323 0.140 0.410
Gapped
Lambda K H
0.267 0.0499 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,063,523
Number of extensions: 51292
Number of successful extensions: 137
Number of sequences better than 10.0: 1
Number of HSP's gapped: 137
Number of HSP's successfully gapped: 16
Length of query: 273
Length of database: 2,407,596
Length adjustment: 84
Effective length of query: 189
Effective length of database: 1,254,276
Effective search space: 237058164
Effective search space used: 237058164
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: 52 (24.4 bits)