RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780430|ref|YP_003064843.1| nitrogen fixation protein
[Candidatus Liberibacter asiaticus str. psy62]
(189 letters)
>1veh_A NIFU-like protein hirip5; structural genomics, mouse cDNA, riken
structural genomics/proteomics initiative, RSGI, unknown
function; NMR {Mus musculus} SCOP: d.52.8.1
Length = 92
Score = 103 bits (258), Expect = 3e-23
Identities = 38/78 (48%), Positives = 56/78 (71%)
Query: 112 ESDSAVVQRIKEVLDNRVRPAVARDGGDIVFKGYRDGIVFLSMRGACSGCPSASETLKYG 171
E D VV IKE+LD R+RP V DGGD++++G+ DGIV L ++G+C+ CPS+ TLK G
Sbjct: 9 EEDDEVVAMIKELLDTRIRPTVQEDGGDVIYRGFEDGIVRLKLQGSCTSCPSSIITLKSG 68
Query: 172 VANILNHFVPEVKDIRTV 189
+ N+L ++PEV+ + V
Sbjct: 69 IQNMLQFYIPEVEGVEQV 86
>1pqx_A Conserved hypothetical protein; ZR18,structure,
autostructure,spins,autoassign, northeast structural
genomics consortium; NMR {Staphylococcus aureus subsp}
SCOP: d.267.1.1 PDB: 2ffm_A
Length = 91
Score = 100 bits (250), Expect = 3e-22
Identities = 18/78 (23%), Positives = 36/78 (46%), Gaps = 2/78 (2%)
Query: 1 MFIQTEDTPNPATLKFIPGQVVLVEGAIHFSNAKEAEISPLASRIFSIPGIASVYFGYDF 60
I +TPN T+K + + ++ +++ + I + G+ S++ DF
Sbjct: 2 KIISISETPNHNTMKITLSESREGMTSDTYTKVDDSQ-PAFINDILKVEGVKSIFHVMDF 60
Query: 61 ITVGK-DQYDWEHLRPPV 77
I+V K + +WE + P V
Sbjct: 61 ISVDKENDANWETVLPKV 78
>1xhj_A Nitrogen fixation protein NIFU; alpha-beta, NIFU-like, structural
genomics, protein structure initiative, NESG, PSI; NMR
{Staphylococcus epidermidis atcc 12228} SCOP: d.52.8.1
Length = 88
Score = 99.1 bits (247), Expect = 5e-22
Identities = 30/78 (38%), Positives = 45/78 (57%), Gaps = 1/78 (1%)
Query: 112 ESDSAVVQRIKEVLDNRVRPAVARDGGDIVFKGYRDGIVFLSMRGACSGCPSASETLKYG 171
+ + ++ EV++ R+RP + RDGGD DGIV L + GAC CPS++ TLK G
Sbjct: 3 TENPTMFDQVAEVIE-RLRPFLLRDGGDCTLVDVEDGIVKLQLHGACGTCPSSTITLKAG 61
Query: 172 VANILNHFVPEVKDIRTV 189
+ L+ VP V ++ V
Sbjct: 62 IERALHEEVPGVIEVEQV 79
>2k1h_A Uncharacterized protein Ser13; structural genomics, unknown
function, PSI-2, protein structure initiative; NMR
{Staphylococcus epidermidis atcc 12228}
Length = 94
Score = 99.2 bits (247), Expect = 5e-22
Identities = 21/87 (24%), Positives = 40/87 (45%), Gaps = 2/87 (2%)
Query: 1 MFIQTEDTPNPATLKFIPGQVVLVEGAIHFSNAKEAEISPLASRIFSIPGIASVYFGYDF 60
I +TPN T+K + ++ A+E + +R+F I G+ S+++ DF
Sbjct: 2 EIIAISETPNHNTMKVSLSEPRQDNSFTTYTAAQEGQ-PEFINRLFEIEGVKSIFYVLDF 60
Query: 61 ITVGK-DQYDWEHLRPPVLGMIMEHFI 86
I++ K D +W L P + + +
Sbjct: 61 ISIDKEDNANWNELLPQIENTFAKSNL 87
>2z51_A NIFU-like protein 2, chloroplast; CNFU, iron-sulfur cluster
biosynthesis, metal transport; 1.35A {Arabidopsis
thaliana} PDB: 2jnv_A
Length = 154
Score = 76.7 bits (188), Expect = 3e-15
Identities = 21/71 (29%), Positives = 40/71 (56%), Gaps = 1/71 (1%)
Query: 119 QRIKEVLDNRVRPAVARDGGDIVFKGYRDGIVFLSMRGACSGCPSASETLKYGVANILNH 178
+ ++ VLD +RP + DGG++ +V + ++GAC CPS++ T+K G+ L
Sbjct: 7 ENVESVLD-EIRPYLMSDGGNVALHEIDGNVVRVKLQGACGSCPSSTMTMKMGIERRLME 65
Query: 179 FVPEVKDIRTV 189
+PE+ + +
Sbjct: 66 KIPEIVAVEAL 76
Score = 62.0 bits (150), Expect = 8e-11
Identities = 13/79 (16%), Positives = 29/79 (36%), Gaps = 4/79 (5%)
Query: 111 IESDSAVVQRIKEVLDNRVRPAVARDGGDIVFKGYRDGIVFLSMRGACSGCPSASETLKY 170
+ I++VL+ + G + D IV + + G +G T++
Sbjct: 80 ETGLELNEENIEKVLEEIRPYLIGTADGSLDLVEIEDPIVKIRITGPAAGVM----TVRV 135
Query: 171 GVANILNHFVPEVKDIRTV 189
V L +P + ++ +
Sbjct: 136 AVTQKLREKIPSIAAVQLI 154
>1th5_A NIFU1; iron-sulfur cluster binding, structural genomics, program
for RICE genome research, unknown function; NMR {Oryza
sativa} SCOP: d.52.8.1
Length = 74
Score = 74.4 bits (183), Expect = 2e-14
Identities = 12/71 (16%), Positives = 31/71 (43%), Gaps = 4/71 (5%)
Query: 119 QRIKEVLDNRVRPAVARDGGDIVFKGYRDGIVFLSMRGACSGCPSASETLKYGVANILNH 178
+ +++VL+ GG + F + IV + + G + T++ V+ L
Sbjct: 7 ENVEKVLNEIRPYLAGTGGGGLQFLMIKGPIVKVRLTGPAAVVR----TVRIAVSKKLRE 62
Query: 179 FVPEVKDIRTV 189
+P ++ ++ +
Sbjct: 63 KIPSIQIVQLL 73
>1np7_A DNA photolyase; protein with FAD cofactor; HET: DNA FAD; 1.90A
{Synechocystis SP} SCOP: a.99.1.1 c.28.1.1
Length = 489
Score = 26.0 bits (56), Expect = 5.7
Identities = 5/30 (16%), Positives = 6/30 (20%), Gaps = 4/30 (13%)
Query: 67 QYDWEHLRPPVLGMIMEHFISGDPIIHNGG 96
DW I D + G
Sbjct: 370 GIDWRW----GAEWFESCLIDYDVCSNWGN 395
>1r53_A Chorismate synthase; two layers alpha-beta, lyase; 2.20A
{Saccharomyces cerevisiae} SCOP: d.258.1.1 PDB: 1r52_A
Length = 382
Score = 25.2 bits (55), Expect = 8.9
Identities = 13/64 (20%), Positives = 20/64 (31%), Gaps = 12/64 (18%)
Query: 41 LASRIFSIPGIASVYFGYDFITVGK------DQYDWEHLRPPVL------GMIMEHFISG 88
LA + SIP G F V D + +E + G + +G
Sbjct: 242 LAHAMLSIPASKGFEIGSGFQGVSVPGSKHNDPFYFEKETNRLRTKTNNSGGVQGGISNG 301
Query: 89 DPII 92
+ I
Sbjct: 302 ENIY 305
Database: pdb70
Posted date: Jan 26, 2011 11:21 AM
Number of letters in database: 5,693,230
Number of sequences in database: 24,244
Lambda K H
0.322 0.142 0.424
Gapped
Lambda K H
0.267 0.0617 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,734,878
Number of extensions: 80980
Number of successful extensions: 252
Number of sequences better than 10.0: 1
Number of HSP's gapped: 246
Number of HSP's successfully gapped: 15
Length of query: 189
Length of database: 5,693,230
Length adjustment: 87
Effective length of query: 102
Effective length of database: 3,584,002
Effective search space: 365568204
Effective search space used: 365568204
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: 54 (24.8 bits)