RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254781064|ref|YP_003065477.1| FeS assembly scaffold SufA
[Candidatus Liberibacter asiaticus str. psy62]
(116 letters)
>1r94_A Protein YFHF; tetrameric, beta barrel, iron-sulfur cluster protein,
pseudo-symmetric motifs, metal transport; 2.30A
{Escherichia coli} SCOP: b.124.1.1 PDB: 1r95_A 1s98_A
Length = 118
Score = 119 bits (300), Expect = 1e-28
Identities = 42/114 (36%), Positives = 70/114 (61%), Gaps = 4/114 (3%)
Query: 1 MSDIVTMTEAAVYRIKEIVFNSQGKAQGIRISLKKGGCAGLEYMVDLVTDNPVDGDDLIE 60
MS +T++++A R+ + ++GK G+R+ ++ GC+G+ Y+++ V + P D + E
Sbjct: 1 MS--ITLSDSAAARVNTFL-ANRGKGFGLRLGVRTSGCSGMAYVLEFVDE-PTPEDIVFE 56
Query: 61 KDGVKVWIDSASLLYMLGTEIDFKTEKLYSGFVFHNPNQVSACGCGQSVEIKRA 114
GVKV +D SL ++ GT++DF E L GF F NPN CGCG+S ++ A
Sbjct: 57 DKGVKVVVDGKSLQFLDGTQLDFVKEGLNEGFKFTNPNVKDECGCGESFKLAAA 110
>1nwb_A Hypothetical protein AQ_1857; QR6, structural genomics, protein
structure initiative, NESG, reduced dimensionality PSI;
NMR {Aquifex aeolicus} SCOP: b.124.1.1
Length = 124
Score = 112 bits (280), Expect = 3e-26
Identities = 39/109 (35%), Positives = 59/109 (54%), Gaps = 1/109 (0%)
Query: 4 IVTMTEAAVYRIKEIVFNSQGKAQGIRISLKKGGCAGLEYMVDLVTDNPVDGDDLIEKDG 63
I +T+ AV IK++ + + +RI + GGC+G +Y + D +GD + E DG
Sbjct: 9 IFKVTDKAVEEIKKVAQENNIENPILRIRVVPGGCSGFQYAMGFD-DTVEEGDHVFEYDG 67
Query: 64 VKVWIDSASLLYMLGTEIDFKTEKLYSGFVFHNPNQVSACGCGQSVEIK 112
VKV ID S+ Y+ G E+D+ + + GF NPN +CGCG S
Sbjct: 68 VKVVIDPFSMPYVNGAELDYVVDFMGGGFTIRNPNATGSCGCGSSFSCG 116
>2d2a_A SUFA protein; iron-sulfur cluster, iron, ISCA, YADR, metal
transport; 2.70A {Escherichia coli}
Length = 145
Score = 108 bits (272), Expect = 2e-25
Identities = 42/107 (39%), Positives = 65/107 (60%), Gaps = 2/107 (1%)
Query: 5 VTMTEAAVYRIKEIVFNSQGKAQGIRISLKKGGCAGLEYMVDLVTDNPVDGDDLIEKDGV 64
+T+T AA I+E+V Q G+R+ +K+ GCAG Y++D V++ D D L E DG
Sbjct: 41 LTLTPAAAIHIRELV-AKQPGMVGVRLGVKQTGCAGFGYVLDSVSEPDKD-DLLFEHDGA 98
Query: 65 KVWIDSASLLYMLGTEIDFKTEKLYSGFVFHNPNQVSACGCGQSVEI 111
K+++ ++ ++ GTE+DF E L F FHNP + CGCG+S +
Sbjct: 99 KLFVPLQAMPFIDGTEVDFVREGLNQIFKFHNPKAQNECGCGESFGV 145
>1x0g_A ISCA; [2Fe-2S], biosynthesis, cyanobacteria, domain swapping, Fe- S
cluster, iron, iron-sulfur cluster protein, scaffold,
sulfur; 2.50A {Thermosynechococcus elongatus}
Length = 112
Score = 106 bits (265), Expect = 1e-24
Identities = 29/113 (25%), Positives = 55/113 (48%), Gaps = 3/113 (2%)
Query: 4 IVTMTEAAVYRIKEIVFNS--QGKAQGIRISLKKGGCAGLEYMVDLVTDNPVDGDDLIEK 61
+V +T AA+ ++ + + +G+A +RI ++ C Y + LV + D L +
Sbjct: 1 MVELTPAAIQELERLQTHGVRRGQAAILRIQVQPSECGDWRYDLALVAEPK-PTDLLTQS 59
Query: 62 DGVKVWIDSASLLYMLGTEIDFKTEKLYSGFVFHNPNQVSACGCGQSVEIKRA 114
G + I + + + G +D+ + + F FHNPN CGCG + + R+
Sbjct: 60 QGWTIAIAAEAAELLRGLRVDYIEDLMGGAFRFHNPNASQTCGCGMAFRVSRS 112
>2apn_A Protein HI1723; HI1723 solution structure, structural genomics,
structure 2 function project, S2F, unknown function; NMR
{Haemophilus influenzae}
Length = 114
Score = 100 bits (250), Expect = 8e-23
Identities = 39/111 (35%), Positives = 60/111 (54%), Gaps = 1/111 (0%)
Query: 1 MSDIVTMTEAAVYRIKEIVFNSQGKAQGIRISLKKGGCAGLEYMVDLVTDNPVDGDDLIE 60
M+ +T T+AA ++K ++ + +R+ + GGC+G +Y + DGD IE
Sbjct: 5 MAVPLTFTDAAANKVKSLISEEENTDLKLRVYITGGGCSGFQYGFTFD-EKVNDGDLTIE 63
Query: 61 KDGVKVWIDSASLLYMLGTEIDFKTEKLYSGFVFHNPNQVSACGCGQSVEI 111
K GV++ ID SL Y++G +D+ S F +NPN S CGCG S I
Sbjct: 64 KSGVQLVIDPMSLQYLIGGTVDYTEGLEGSRFTVNNPNATSTCGCGSSFSI 114
>2k4z_A DSRR; ISCA/SUFA/HESB like fold, structural genomics, PSI-2, protein
structure initiative, northeast structural genomics
consortium, NESG; NMR {Allochromatium vinosum}
Length = 125
Score = 85.9 bits (212), Expect = 2e-18
Identities = 17/96 (17%), Positives = 41/96 (42%), Gaps = 3/96 (3%)
Query: 4 IVTMTEAAVYRIKEIVFNSQGKAQGIRISLKKGGCAGLEYMVDLVTDNPVDGDDLIEKDG 63
+ +T AA ++ + + +R++ + ++Y + D+ + D + +G
Sbjct: 22 MFKLTPAAAEQVLKAAKQGGTEGMCLRLAAGRNPDGSIDYRMGF--DDLTEDDIRLTSEG 79
Query: 64 VKVWIDSASLLYMLGTEIDFK-TEKLYSGFVFHNPN 98
V++ I + + T +D+ E F+F NP
Sbjct: 80 VEIVIAPDYVSLLDQTTLDYVELEPGQFHFIFLNPR 115
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl reductase,
beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 2006
Score = 33.8 bits (77), Expect = 0.008
Identities = 22/111 (19%), Positives = 33/111 (29%), Gaps = 46/111 (41%)
Query: 9 EAAVYRIKEIVFNSQGKAQGIRISLKKGGCAGLEYMVDLV----TDNP-VDGDDLIEKDG 63
A + I F QG +Y +L T + V DLI+
Sbjct: 153 NAQLVAI----FGGQGNTD--------------DYFEELRDLYQTYHVLV--GDLIKF-- 190
Query: 64 VKVWIDSASLLYMLGTEIDFKTEKLYS-GF-V---FHNPNQ-------VSA 102
SA L L EK+++ G + NP+ +S
Sbjct: 191 ------SAETLSELIRTTL-DAEKVFTQGLNILEWLENPSNTPDKDYLLSI 234
Score = 28.4 bits (63), Expect = 0.37
Identities = 15/53 (28%), Positives = 31/53 (58%), Gaps = 13/53 (24%)
Query: 44 MVDLVTDNPVD-----GDDLIEKDGVKVWIDSASLLYMLGTEID--FKTEKLY 89
++D+V +NPV+ G EK G ++ + +++++ T +D KTEK++
Sbjct: 1661 ILDIVINNPVNLTIHFGG---EK-GKRIRENYSAMIFE--TIVDGKLKTEKIF 1707
Score = 26.4 bits (58), Expect = 1.4
Identities = 20/126 (15%), Positives = 32/126 (25%), Gaps = 57/126 (45%)
Query: 9 EAAVYRIKEIVFNSQGKAQGIRIS----------------LKKGGCAGLEYMVDLVTDNP 52
A I + + + + L+ + E +VD + P
Sbjct: 433 VPASDLINKDL-----VKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLP 487
Query: 53 VD------------------GD----DLIE--KDG--VKVWIDSASLLYMLGTEIDFKTE 86
V G L KDG V+V I + +D +
Sbjct: 488 VKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRV-I--------VAGTLDINPD 538
Query: 87 KLYSGF 92
Y GF
Sbjct: 539 DDY-GF 543
>2bsc_A F17A-G adhesin; bacterial adhesion, lectin, protein-sugar complex,
fimbriae; HET: NAG; 1.4A {Escherichia coli} SCOP:
b.2.3.5 PDB: 1o9v_A* 1zpl_A* 1o9w_A* 1o9z_A 2bsb_A*
1zk5_A* 1oio_A* 2bs8_A* 2bs7_1*
Length = 177
Score = 27.8 bits (61), Expect = 0.60
Identities = 20/64 (31%), Positives = 32/64 (50%), Gaps = 6/64 (9%)
Query: 33 LKKGGCAGLEYMVDLVTDNPVDGDD---LIEKDGVKVWIDSASLLYMLGTEIDFKT-EKL 88
+ KG C GL+ VDL +DG L E+ G+ +W+ Y GT + + E +
Sbjct: 48 ISKGFCVGLDGKVDLPVVGSLDGQSIYGLTEEVGLLIWMGDTK--YSRGTAMSGNSWENV 105
Query: 89 YSGF 92
+SG+
Sbjct: 106 FSGW 109
>3eb8_A Cysteine protease-like VIRA; beta sheet, alpha helix, hydrolase,
plasmid, secreted, thiol protease, virulence; 2.40A
{Shigella flexneri}
Length = 358
Score = 27.0 bits (59), Expect = 1.1
Identities = 19/60 (31%), Positives = 28/60 (46%), Gaps = 14/60 (23%)
Query: 57 DLIEKDGVKVWIDSASLLYMLG--------------TEIDFKTEKLYSGFVFHNPNQVSA 102
DLI + G+ +IDS L ML ++ F+TEKL +F +P +SA
Sbjct: 172 DLINELGINEFIDSKKELQMLSYNQVNKIINSNFPQQDLCFQTEKLLFTSLFQDPAFISA 231
>1gsu_A GST, CGSTM1-1, class-MU glutathione S-transferase; detoxification
enzyme, S-hexyl glutathione; HET: GTX; 1.94A {Gallus
gallus} SCOP: a.45.1.1 c.47.1.5 PDB: 1c72_A*
Length = 219
Score = 26.0 bits (56), Expect = 2.0
Identities = 13/76 (17%), Positives = 22/76 (28%), Gaps = 22/76 (28%)
Query: 20 FNSQGKAQGIRISLKKGGCAGLEY---MVDLVTDNPVDGDD----------------LIE 60
++ +G A IR+ L+ Y D D +
Sbjct: 7 WDIRGLAHAIRLLLE---YTETPYQERRYKAGPAPDFDPSDWTNEKEKLGLDFPNLPYLI 63
Query: 61 KDGVKVWIDSASLLYM 76
VK+ +A L Y+
Sbjct: 64 DGDVKLTQSNAILRYI 79
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl
reductase, beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 25.9 bits (56), Expect = 2.1
Identities = 14/46 (30%), Positives = 19/46 (41%), Gaps = 10/46 (21%)
Query: 31 ISLKKGGCAGLEYM--VDLVTDNPVDGDD--------LIEKDGVKV 66
IS G G Y VD T PVD D ++E G+++
Sbjct: 861 ISYHNGNLKGRPYTGWVDSKTKEPVDDKDVKAKYETSILEHSGIRL 906
>2aaa_A Alpha-amylase; glycosidase; 2.10A {Aspergillus niger} SCOP:
b.71.1.1 c.1.8.1
Length = 484
Score = 25.8 bits (55), Expect = 2.2
Identities = 8/62 (12%), Positives = 20/62 (32%), Gaps = 6/62 (9%)
Query: 18 IVFNSQGKAQGIRISLKKGGCAGLEYMVDLVTDNP--VDGDDLIE----KDGVKVWIDSA 71
++ N ++L G +++ T VD I +V + ++
Sbjct: 408 VLSNKGSSGSSYTLTLSGSGYTSGTKLIEAYTCTSVTVDSSGDIPVPMASGLPRVLLPAS 467
Query: 72 SL 73
+
Sbjct: 468 VV 469
>1oe8_A Glutathione S-transferase; schistosomiasis, detoxifying enzyme,
prostaglandin D2 synthase, vaccine candidate; HET: GSH;
1.65A {Schistosoma haematobium} SCOP: a.45.1.1 c.47.1.5
PDB: 1oe7_A* 2c80_A* 2ca8_A* 2f8f_A* 2c8u_A 2caq_A*
2cai_A* 1u3i_A*
Length = 211
Score = 26.0 bits (56), Expect = 2.2
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 8/43 (18%)
Query: 15 IKEIVFNSQGKAQGIRISLKKGGCAGLEYMVDLVTDNPVDGDD 57
IK I FN +G+A+ IR++L AG+ Y D + D
Sbjct: 6 IKVIYFNGRGRAESIRMTLV---AAGVNY-----EDERISFQD 40
>2wb9_A Glutathione transferase sigma class; thioredoxin fold; HET: CGL
GSH; 1.59A {Fasciola hepatica} PDB: 2wdu_A*
Length = 211
Score = 25.9 bits (56), Expect = 2.5
Identities = 11/38 (28%), Positives = 18/38 (47%), Gaps = 8/38 (21%)
Query: 20 FNSQGKAQGIRISLKKGGCAGLEYMVDLVTDNPVDGDD 57
F +G+A+ IR+ L CAG+++ D D
Sbjct: 11 FQFRGRAEPIRLLLT---CAGVKF-----EDYQFTMDQ 40
>1dug_A Chimera of glutathione S-transferase-synthetic linker-C-terminal
fibrinogen gamma...; gamma chain integrin fragment;
HET: GSH; 1.80A {Schistosoma japonicum} SCOP: a.45.1.1
c.47.1.5 PDB: 1gne_A* 1y6e_A 1m9a_A* 1gtb_A* 1gta_A*
1m99_A* 1m9b_A* 1ua5_A* 1u87_A* 1u88_A* 3crt_A* 3cru_A*
3d0z_A*
Length = 234
Score = 25.5 bits (55), Expect = 2.8
Identities = 8/43 (18%), Positives = 15/43 (34%), Gaps = 5/43 (11%)
Query: 20 FNSQGKAQGIRISLKKGGCAGLEYMVDLVTDNPVDGDDLIEKD 62
+ +G Q R+ L+ +Y + +GD K
Sbjct: 7 WKIKGLVQPTRLLLEY---LEEKY--EEHLYERDEGDKWRNKK 44
>2ws2_A NU-class GST, glutathione S-transferase; parasite, nematode;
2.01A {Haemonchus contortus}
Length = 204
Score = 25.3 bits (55), Expect = 3.6
Identities = 10/38 (26%), Positives = 16/38 (42%), Gaps = 8/38 (21%)
Query: 20 FNSQGKAQGIRISLKKGGCAGLEYMVDLVTDNPVDGDD 57
FN +G A+ IR AG +Y D + ++
Sbjct: 9 FNGRGAAEIIRQVFV---LAGQDY-----EDVRLTHEE 38
>3fk4_A Rubisco-like protein; structural genomics, target 9463A, PSI-2,
protein structure initiative; 2.00A {Bacillus cereus
atcc 14579}
Length = 414
Score = 24.8 bits (54), Expect = 4.4
Identities = 10/31 (32%), Positives = 15/31 (48%), Gaps = 5/31 (16%)
Query: 1 MSDIVTMTEAAVYRIKEIVFNSQGKAQGIRI 31
MS I+ A Y I + N + KA+ I +
Sbjct: 1 MSGII-----ATYLIHDDSHNLEKKAEQIAL 26
>1ji1_A Alpha-amylase I; beta/alpha barrel, hydrolase; 1.60A
{Thermoactinomyces vulgaris} SCOP: b.1.18.2 b.71.1.1
c.1.8.1 PDB: 1uh3_A* 2d0f_A* 1izj_A 1uh4_A* 1uh2_A*
2d0g_A* 2d0h_A* 1izk_A
Length = 637
Score = 24.9 bits (53), Expect = 4.9
Identities = 4/40 (10%), Positives = 15/40 (37%)
Query: 18 IVFNSQGKAQGIRISLKKGGCAGLEYMVDLVTDNPVDGDD 57
+V N+ + + + + + + D +T + +
Sbjct: 581 VVLNNDSVSHTVNVPVWQLSMPNGSTVTDKITGHSYTVQN 620
>2isw_A Putative fructose-1,6-bisphosphate aldolase; class II
fructose-1,6-bisphosphate aldolase, glycolytic pathway,
giardia lamblia, drug target; HET: PGH; 1.75A {Giardia
intestinalis} PDB: 2isv_A* 3gay_A* 3gak_A* 3gb6_A*
Length = 323
Score = 24.6 bits (53), Expect = 5.0
Identities = 10/28 (35%), Positives = 15/28 (53%), Gaps = 3/28 (10%)
Query: 7 MTEAAVYRIKEIVFNSQGKAQGIR-ISL 33
+TE + +IK F S G A + +SL
Sbjct: 290 ITEMLIPKIK--AFGSAGHAGDYKVVSL 315
>3iso_A Putative glutathione transferase; GST; HET: GSH; 1.90A
{Clonorchis sinensis}
Length = 218
Score = 24.6 bits (53), Expect = 5.5
Identities = 10/43 (23%), Positives = 17/43 (39%), Gaps = 5/43 (11%)
Query: 20 FNSQGKAQGIRISLKKGGCAGLEYMVDLVTDNPVDGDDLIEKD 62
+ +G AQ IR+ L+ G Y + + DG+
Sbjct: 8 WKIRGLAQPIRLLLE---YVGDSY--EEHSYGRCDGEKWQNDK 45
>1uir_A Polyamine aminopropyltransferase; spermidien synthase, spermine
synthase, riken structural genomics/proteomics
initiative, RSGI; 2.00A {Thermus thermophilus} SCOP:
c.66.1.17
Length = 314
Score = 24.3 bits (52), Expect = 6.0
Identities = 4/23 (17%), Positives = 11/23 (47%)
Query: 9 EAAVYRIKEIVFNSQGKAQGIRI 31
E V R++ ++ + + Q +
Sbjct: 15 ETLVRRMERVIASGKTPFQDYFL 37
>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP,
RNA, spicing, translation; NMR {Homo sapiens} SCOP:
d.58.7.1 d.58.7.1
Length = 198
Score = 24.6 bits (52), Expect = 6.3
Identities = 9/64 (14%), Positives = 22/64 (34%), Gaps = 4/64 (6%)
Query: 6 TMTEAAVYRIKEIVFNSQGKAQGIRISLKKGGCAGLEYMVDLVTDNPVDGDDLIEKDGVK 65
+T +++ + F G Q ++I K A ++ + + + G
Sbjct: 15 RVTPQSLFIL----FGVYGDVQRVKILFNKKENALVQMADGNQAQLAMSHLNGHKLHGKP 70
Query: 66 VWID 69
+ I
Sbjct: 71 IRIT 74
>2kgj_A Peptidyl-prolyl CIS-trans isomerase D; prolyl isomerase,
parvulin, cell inner membrane, cell membrane, membrane,
rotamase, stress response; NMR {Escherichia coli}
Length = 102
Score = 24.1 bits (52), Expect = 8.2
Identities = 7/29 (24%), Positives = 13/29 (44%)
Query: 8 TEAAVYRIKEIVFNSQGKAQGIRISLKKG 36
T+ R I ++ +A+ + L KG
Sbjct: 1 TQPQRTRYSIIQTKTEDEAKAVLDELNKG 29
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
0.319 0.137 0.398
Gapped
Lambda K H
0.267 0.0521 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,022,731
Number of extensions: 42915
Number of successful extensions: 151
Number of sequences better than 10.0: 1
Number of HSP's gapped: 140
Number of HSP's successfully gapped: 28
Length of query: 116
Length of database: 5,693,230
Length adjustment: 79
Effective length of query: 37
Effective length of database: 3,777,954
Effective search space: 139784298
Effective search space used: 139784298
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: 50 (23.5 bits)