RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780636|ref|YP_003065049.1| ribonuclease D [Candidatus
Liberibacter asiaticus str. psy62]
(207 letters)
>3cym_A Uncharacterized protein BAD_0989; structural genomics, unknown
function, ribonuclease D, exonuclease; 2.10A
{Bifidobacterium adolescentis ATCC15703}
Length = 440
Score = 134 bits (338), Expect = 2e-32
Identities = 37/175 (21%), Positives = 66/175 (37%), Gaps = 4/175 (2%)
Query: 17 ARYVDAIAVDTETLGLMPRRDRLCIVQLSPGDGTVDIIRIAAGQKNAPNLVGML-VDEKR 75
A ++A D E +VQ + ++ A +
Sbjct: 35 ASSHGSLAADAERASGFRYGHEDWLVQFKRDGAGIGLLDPQALAAAGADWNDFNRAVGDA 94
Query: 76 EKIFHYGRFDIAVLFYTFGVRVRPVFCTKIASRLTRTYTNQHGLKDNLKELLGINISKAQ 135
I H D+ G+ + +F T+IA+RL + GL + LG+ ++K
Sbjct: 95 VWILHDSLQDLPGF-DELGMEPQRLFDTEIAARLL--GLKRFGLAAVTEHFLGLTLAKEH 151
Query: 136 QSSDWSADDLSDEQLQYAASDVVHLHALRLQFTEKLQRLGRSDLATSCCNFLMDR 190
++DWS L + YAA DV L L + +L+R G+ + A ++ +
Sbjct: 152 SAADWSYRPLPRDWRNYAALDVELLIELETKMRAELKRQGKMEWAQEEFDYALKE 206
>2e6m_A Werner syndrome ATP-dependent helicase homolog; APO form,
hydrolase; 2.00A {Mus musculus} PDB: 2e6l_A 2fby_A
2fbv_A 2fbx_A 2fbt_A 2fc0_A*
Length = 208
Score = 92.7 bits (229), Expect = 6e-20
Identities = 30/164 (18%), Positives = 60/164 (36%), Gaps = 4/164 (2%)
Query: 21 DAIAVDTETLGL--MPRRDRLCIVQLSPGDGTVDIIRIAAGQKNAPNLVGMLVDEKREKI 78
D + D E + +R R+ ++QL + + I++ L +L ++ +K
Sbjct: 41 DVVGFDMEWPPIYKPGKRSRVAVIQLCVSESKCYLFHISSMSVFPQGLKMLLENKSIKKA 100
Query: 79 FHYGRFDIAVLFYTFGVRVRPVFCTKIASRLTRTYTNQHGLKDNLKELLGINISK--AQQ 136
D L F V++ + L +K +LG + K + +
Sbjct: 101 GVGIEGDQWKLLRDFDVKLESFVELTDVANEKLKCAETWSLNGLVKHVLGKQLLKDKSIR 160
Query: 137 SSDWSADDLSDEQLQYAASDVVHLHALRLQFTEKLQRLGRSDLA 180
S+WS L+++Q YAA+D + + + L
Sbjct: 161 CSNWSNFPLTEDQKLYAATDAYAGLIIYQKLGNLGDTVQVFALN 204
>1vk0_A Hypothetical protein; homohexamer, AT5G06450, structural genomics,
protein structure initiative, center for eukaryotic
structural genomics; 2.10A {Arabidopsis thaliana} SCOP:
c.55.3.5 PDB: 2q3s_A
Length = 206
Score = 90.1 bits (223), Expect = 3e-19
Identities = 24/169 (14%), Positives = 54/169 (31%), Gaps = 14/169 (8%)
Query: 14 ECAARYVDAIAVDTETLGLMPRRD--------RLCIVQLSPGDGTVDIIRI-AAGQKNAP 64
+ A+ D P + L V+LS + + +R+ N
Sbjct: 40 DSILNGNRAVIFDVYWDVGFPETETKTKTSGWSLSSVKLSTRNLCL-FLRLPKPFHDNLK 98
Query: 65 NLVGMLVDEKREKIFHYGRFDIAVLFYTFGVRVRPVFCT--KIASRLTRTYTNQHGLKDN 122
+L + + D+ +L G+ +R A G ++
Sbjct: 99 DLYRFFASKFVTFVGVQIEEDLDLLRENHGLVIRNAINVGKLAAEARGTLVLEFLGTREL 158
Query: 123 LKELLGINISK-AQQSSDWSADDLSDEQLQYAASDVVHLHALRLQFTEK 170
+L ++ + + W +EQL+ AA + + + Q +++
Sbjct: 159 AHRVLWSDLGQLDSIEAKWEKA-GPEEQLEAAAIEGWLIVNVWDQLSDE 206
>1yt3_A Ribonuclease D, RNAse D; exoribonuclease, exonuclease, hydrolase,
tRNA processing, hydrolase,translation; 1.60A
{Escherichia coli} SCOP: a.60.8.3 a.60.8.3 c.55.3.5
Length = 375
Score = 87.7 bits (216), Expect = 2e-18
Identities = 43/171 (25%), Positives = 74/171 (43%), Gaps = 3/171 (1%)
Query: 21 DAIAVDTETLGLMPRRDRLCIVQLSPGDGTVDIIRIAAGQKNAPNLVGMLVDEKREKIFH 80
AIA+DTE + +L ++QL G+ I + + L +L D K H
Sbjct: 23 PAIALDTEFVRTRTYYPQLGLIQLFDGEHLALIDPLG--ITDWSPLKAILRDPSITKFLH 80
Query: 81 YGRFDIAVLFYTFGVRVRPVFCTKIASRLTRTYTNQHGLKDNLKELLGINISKAQQSSDW 140
G D+ V FG +P+ T+I + G ++E G+ + K++ +DW
Sbjct: 81 AGSEDLEVFLNVFGELPQPLIDTQILAAFCG-RPMSWGFASMVEEYSGVTLDKSESRTDW 139
Query: 141 SADDLSDEQLQYAASDVVHLHALRLQFTEKLQRLGRSDLATSCCNFLMDRA 191
A L++ Q +YAA+DV +L + + + + G A C + R
Sbjct: 140 LARPLTERQCEYAAADVWYLLPITAKLMVETEASGWLPAALDECRLMQMRR 190
>2hbj_A Exosome complex exonuclease RRP6; RNA metabolism, RNA surveillance,
RNA processing, hydrolase, gene regulation; 2.10A
{Saccharomyces cerevisiae} SCOP: a.60.8.4 c.55.3.5 PDB:
2hbk_A 2hbl_A* 2hbm_A*
Length = 410
Score = 83.0 bits (204), Expect = 5e-17
Identities = 39/170 (22%), Positives = 61/170 (35%), Gaps = 3/170 (1%)
Query: 21 DAIAVDTETLGLMPRRDRLCIVQLSPGDGTVDIIRIAAGQKNAPNLVGMLVDEKREKIFH 80
IAVD E +C++Q+S + ++ ++N L + + K+FH
Sbjct: 107 KEIAVDLEHHDYRSYYGIVCLMQISTRERDY-LVDTLKLRENLHILNEVFTNPSIVKVFH 165
Query: 81 YGRFDIAVLFYTFGVRVRPVFCTKIASRLTRTYTNQHGLKDNLKELLGINISKAQQSSDW 140
DI L G+ V +F T AS+ +H L L+ SK Q +DW
Sbjct: 166 GAFMDIIWLQRDLGLYVVGLFDTYHASKAIG--LPRHSLAYLLENFANFKTSKKYQLADW 223
Query: 141 SADDLSDEQLQYAASDVVHLHALRLQFTEKLQRLGRSDLATSCCNFLMDR 190
LS A +D L + Q KL + + R
Sbjct: 224 RIRPLSKPMTAAARADTHFLLNIYDQLRNKLIESNKLAGVLYESRNVAKR 273
>2hhv_A DNA polymerase I; DNA replication, klenow fragment, protein- DNA
complex, O6-methyl-guanine, transferase/DNA complex;
HET: DNA 6OG SUC; 1.55A {Geobacillus stearothermophilus}
SCOP: c.55.3.5 e.8.1.1 PDB: 2hhs_A* 2hht_A* 2hhu_A*
2hhq_A* 2hhx_A* 2hw3_A* 1nk4_A* 1l3t_A* 1l3u_A* 1l3v_A*
1l5u_A* 1njw_A* 1l3s_A* 1njy_A* 1njz_A* 1nk0_A* 1njx_A*
1nk5_A* 1nk6_A* 1nk7_A* ...
Length = 580
Score = 80.8 bits (198), Expect = 2e-16
Identities = 18/130 (13%), Positives = 37/130 (28%), Gaps = 4/130 (3%)
Query: 21 DAIAVDTETLGLMPRRDRLCIVQLSPGDGTVDIIRIAAGQKNAPNLVGMLVDEKREKIFH 80
D A+ E + + + + G + A P V L DE ++K
Sbjct: 18 DKAALVVEVVEENYHDAPIVGIAVVNEHGRFFLRPETA--LADPQFVAWLGDETKKKSMF 75
Query: 81 YGRFDIAVLFYTFGVRVR-PVFCTKIASRLTRTYTNQHGLKDNLKELLGINISKAQQSSD 139
+ L + G+ + F +A+ L + K + +
Sbjct: 76 DSKRAAVALKW-KGIELCGVSFDLLLAAYLLDPAQGVDDVAAAAKMKQYEAVRPDEAVYG 134
Query: 140 WSADDLSDEQ 149
A ++
Sbjct: 135 KGAKRAVPDE 144
>2kfn_A Klenow fragment of DNA polymerase I; complex (polymerase/DNA),
exonuclease, transferase, transferase/DNA complex; HET:
US1; 2.03A {Escherichia coli} SCOP: c.55.3.5 e.8.1.1
PDB: 1d9f_A* 1d9d_A* 1krp_A* 1ksp_A* 1qsl_A* 1kfs_A*
2kfz_A* 2kzm_A* 2kzz_A* 1dpi_A* 1kfd_A* 1kln_A* 1d8y_A*
Length = 605
Score = 65.6 bits (159), Expect = 7e-12
Identities = 29/141 (20%), Positives = 54/141 (38%), Gaps = 12/141 (8%)
Query: 21 DAIAVDTETLGLMPRRDRLCIVQLSPGDGTVDIIRIAAGQKNAPN----------LVGML 70
A DTET L L + + G I +A +AP+ L +L
Sbjct: 27 PVFAFDTETDSLDNISANLVGLSFAIEPGVAAYIPVAHDYLDAPDQISRERALELLKPLL 86
Query: 71 VDEKREKIFHYGRFDIAVLFYTFGVRVR-PVFCTKIASRLTRTYTNQHGLKDNLKELLGI 129
DEK K+ ++D +L +G+ +R F T + S + + +H + + L
Sbjct: 87 EDEKALKVGQNLKYDRGIL-ANYGIELRGIAFDTMLESYILNSVAGRHDMDSLAERWLKH 145
Query: 130 NISKAQQSSDWSADDLSDEQL 150
++ + + L+ Q+
Sbjct: 146 KTITFEEIAGKGKNQLTFNQI 166
>1x9m_A DNA polymerase; DNA ploymerase, N-2-acetylaminofluorene,
replication block, mutagenesis, transferase/electron
transport/DNA complex; HET: DNA 2DT 8FG; 2.10A
{Enterobacteria phage T7} SCOP: c.55.3.5 e.8.1.1 PDB:
1skr_A* 1skw_A* 1sl0_A* 1sks_A* 1sl2_A* 1t7p_A* 1t8e_A*
1tk0_A* 1tk5_A* 1tk8_A* 1tkd_A* 1sl1_A* 1x9s_A* 1x9w_A*
1zyq_A* 2ajq_A*
Length = 698
Score = 50.1 bits (118), Expect = 4e-07
Identities = 34/214 (15%), Positives = 58/214 (27%), Gaps = 39/214 (18%)
Query: 23 IAVDTETLGLMPRRDRL-CIVQLSPGDGTVDIIRIAAGQKNAPNLVGMLVDEKREKIFHY 81
I D E L+ + C V R + L + +FH
Sbjct: 2 IVSDIEANALLESVTKFHCGVIYDYSTAEYVSYRPSDFGAYLDALEAEVARGG-LIVFHN 60
Query: 82 G-RFDIAVLFYTFGVRVRP--------VFCTKIASRL------------TRTYTNQHGL- 119
G ++D+ L +++ T + SRL R+ L
Sbjct: 61 GHKYDVPALTKLAKLQLNREFHLPRENCIDTLVLSRLIHSNLKDTDMGLLRSGKLPGALE 120
Query: 120 -------------KDNLKELLGINISKAQQSSDWSADDLSDEQLQYAASDVVHLHALRLQ 166
KD+ K +L + +W ++E + Y DVV AL +
Sbjct: 121 AWGYRLGEMKGEYKDDFKRMLEEQGEEYVDGMEWWN--FNEEMMDYNVQDVVVTKALLEK 178
Query: 167 FTEKLQRLGRSDLATSCCNFLMDRAELDLLGWEN 200
T L+ + E+
Sbjct: 179 LLSDKHYFPPEIDFTDVGYTTFWSESLEAVDIEH 212
>3m8r_A DNA polymerase I, thermostable; DNA polymerase, DNA replication,
nucleotides, modified nucleotide, artificial nucleotide;
HET: DNA DOC HXZ 15P; 2.00A {Thermus aquaticus} PDB:
1jxe_A* 3ktq_A* 3lwl_A* 3lwm_A* 3m8s_A* 1ktq_A* 5ktq_A*
4ktq_A* 1qtm_A* 2ktq_A* 1qss_A* 1qsy_A*
Length = 540
Score = 45.5 bits (107), Expect = 8e-06
Identities = 18/148 (12%), Positives = 37/148 (25%), Gaps = 24/148 (16%)
Query: 28 ETLGLMPRRDRLCIVQLS-PGDGTVDIIRIAAGQKNAPN--LVGMLVDEKREKIFHYGRF 84
E P LS D++ +AA + + ++
Sbjct: 3 EEAPWPPPEGAFVGFVLSRKEPMWADLLALAAARGGRVHRAPEPYKALRDLKEARGLLAK 62
Query: 85 DIAVLFYTFGVRVRPVFCTKIASRLTRTYTNQHGLKDNLKELLGINISKAQQSSDWSADD 144
D++VL G+ + P + + L + + + G
Sbjct: 63 DLSVLALREGLGLPPGDDPMLLAYLLD--PSNTTPEGVARRYGG---------------- 104
Query: 145 LSDEQLQYAASDVVHLHALRLQFTEKLQ 172
E + A L +L+
Sbjct: 105 ---EWTEEAGERAALSERLFANLWGRLE 129
>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 = 39.2 bits (91), Expect = 6e-04
Identities = 21/134 (15%), Positives = 36/134 (26%), Gaps = 38/134 (28%)
Query: 75 REKIFHYGRFDIAVLFYTFGVRVRPVFCTKIASRLTRTYTNQHGLKDN-LKELLGINISK 133
R +G + + V P T ++ L++ K L
Sbjct: 7 RPLTLSHGSLE-----HVLLV---P----------TASFFIASQLQEQFNKIL------- 41
Query: 134 AQQSSDWSADDLSDEQLQYAASDVVHLHALRLQFTEKLQRLGRSDLATSCCNFLMDRAEL 193
+ ++ A D DE + L L + L + N + E
Sbjct: 42 -PEPTEGFAAD--DEP-----TTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFEN 93
Query: 194 DLLGWENVDIFSHS 207
L DI H+
Sbjct: 94 CYLE--GNDI--HA 103
Score = 36.1 bits (83), Expect = 0.007
Identities = 29/227 (12%), Positives = 51/227 (22%), Gaps = 105/227 (46%)
Query: 12 PAECAARYVDAIAVDTETLGLMPRRDRLCIVQLSPGDGTVDIIRIAAGQKNAPNLVGMLV 71
PAE ++ LG + + P ++ + +
Sbjct: 57 PAELVGKF----------LGYVSSL-------VEPSK-----------VGQFDQVLNLCL 88
Query: 72 DEKREKIFHYGRFDIAVLF----YTFGVRVRPVFCTKIASR--LTRTYTNQHGLKDNLKE 125
E F+ L + ++ T + L + Y
Sbjct: 89 TE----------FENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITAR-------I 131
Query: 126 LLGINISKAQQSSDWSADDLSDEQLQYAASDVVHLHA--------------LR------- 164
+ K S+ L + L A LR
Sbjct: 132 MAKRPFDKKSNSA------L----FRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYH 181
Query: 165 ------LQF-TEKLQRLGRSDLATSCCNFLMDRAE------LDLLGW 198
++F E L L R+ AE L++L W
Sbjct: 182 VLVGDLIKFSAETLSELIRTT----------LDAEKVFTQGLNILEW 218
>1wlj_A Interferon stimulated gene 20KDA; exoribonuclease, hydrolase; HET:
U5P; 1.90A {Homo sapiens} SCOP: c.55.3.5
Length = 189
Score = 34.2 bits (77), Expect = 0.021
Identities = 28/177 (15%), Positives = 56/177 (31%), Gaps = 18/177 (10%)
Query: 21 DAIAVDTETLGLMPRRD-RLCIVQLSPGDGTVDIIRIAAGQKNAPNLVGMLVDEKREKIF 79
+ +A+D E +GL P R+ L L G V + + + + + +
Sbjct: 6 EVVAMDCEMVGLGPHRESGLARCSLVNVHGAVLYDKFIRPEGEITDYRTRVSGVTPQHMV 65
Query: 80 HYGRFD--IAVLFYTFGVRVRPVFCTKIASRLTRTYTNQHGLKDNLKELLGINISKAQQS 137
F + ++ K + + + + + D + L +K
Sbjct: 66 GATPFAVARLEILQLLKGKLVVGHDLKHDFQALKEDMSGYTIYDTSTDRLLWREAKLDHC 125
Query: 138 SDWSADDLSDEQLQY----------AASDV-----VHLHALRLQFTEKLQRLGRSDL 179
S LS+ L + D ++ + R++ L RL SDL
Sbjct: 126 RRVSLRVLSERLLHKSIQNSLLGHSSVEDARATMELYQISQRIRARRGLPRLAVSDL 182
>2p1j_A POLIII, DNA polymerase III POLC-type; structural genomics,
exonuclease, PSI-2, protein structure initiative; HET:
DNA; 2.50A {Thermotoga maritima MSB8}
Length = 186
Score = 29.3 bits (64), Expect = 0.72
Identities = 7/18 (38%), Positives = 11/18 (61%)
Query: 23 IAVDTETLGLMPRRDRLC 40
+ +D ET GL P+ D +
Sbjct: 15 VVLDFETTGLDPQVDEII 32
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 28.8 bits (63), Expect = 0.85
Identities = 12/36 (33%), Positives = 14/36 (38%), Gaps = 9/36 (25%)
Query: 120 KDNLKELLGINISKAQQSSDWSADDLSDEQLQYAAS 155
K LK+L Q S ADD S L A+
Sbjct: 19 KQALKKL--------QASLKLYADD-SAPALAIKAT 45
>1y97_A Three prime repair exonuclease 2; TREX2, hydrolase; 2.50A {Homo
sapiens} SCOP: c.55.3.5
Length = 238
Score = 28.4 bits (62), Expect = 1.0
Identities = 7/23 (30%), Positives = 10/23 (43%), Gaps = 2/23 (8%)
Query: 23 IAVDTETLGLMPRRDRLCIVQLS 45
+ +D E GL I +LS
Sbjct: 13 VFLDLEATGLPSVEPE--IAELS 33
>2is3_A Ribonuclease T; RNAse, exoribonuclease, exonuclease, hydrolase,
stable RNA maturation, tRNA END-turnover; 3.10A
{Escherichia coli K12}
Length = 215
Score = 28.5 bits (62), Expect = 1.2
Identities = 6/35 (17%), Positives = 13/35 (37%), Gaps = 3/35 (8%)
Query: 23 IAVDTETLGLMPRRDR---LCIVQLSPGDGTVDII 54
+ +D ET G + D + + L + +
Sbjct: 20 VVIDVETAGFNAKTDALLEIAAITLKMDEQGWLMP 54
>2ioc_B Three prime repair exonuclease 1; proline helix, nucleotide
complex, DNAQ family, hydrolase; HET: D5M; 2.10A {Mus
musculus} SCOP: c.55.3.5 PDB: 3b6o_A* 2o4g_A* 3b6p_A*
2o4i_A 2oa8_A
Length = 242
Score = 28.4 bits (62), Expect = 1.3
Identities = 7/23 (30%), Positives = 10/23 (43%), Gaps = 2/23 (8%)
Query: 23 IAVDTETLGLMPRRDRLCIVQLS 45
I +D E GL R + +L
Sbjct: 15 IFLDLEATGLPSSRPE--VTELC 35
>2qxf_A Exodeoxyribonuclease I; alpha-beta domain, DNAQ superfamily,
SH3-like domain, product bound structure, DNA damage,
DNA repair, exonuclease; HET: TMP; 1.50A {Escherichia
coli K12} SCOP: c.55.3.5 PDB: 1fxx_A* 3c94_A 3c95_A
Length = 482
Score = 28.0 bits (61), Expect = 1.6
Identities = 8/23 (34%), Positives = 10/23 (43%), Gaps = 2/23 (8%)
Query: 23 IAVDTETLGLMPRRDRLCIVQLS 45
+ D ET G P DR Q +
Sbjct: 12 LFHDYETFGTHPALDR--PAQFA 32
>2f96_A Ribonuclease T; RNAse, RNT, RNAse T, tRNA hydrolase, SAD, PSI,
MCSG, protein structure initiative; 2.09A {Pseudomonas
aeruginosa PAO1} SCOP: c.55.3.5
Length = 224
Score = 27.3 bits (59), Expect = 2.6
Identities = 8/23 (34%), Positives = 9/23 (39%)
Query: 18 RYVDAIAVDTETLGLMPRRDRLC 40
R + VD ET G D L
Sbjct: 27 RGYLPVVVDVETGGFNSATDALL 49
>2gbz_A Oligoribonuclease; ORN, deddh, structural genomics, X-RAY
diffraction, hydrolase; 2.30A {Xanthomonas campestris
PV}
Length = 194
Score = 27.2 bits (59), Expect = 2.9
Identities = 8/22 (36%), Positives = 12/22 (54%), Gaps = 2/22 (9%)
Query: 23 IAVDTETLGLMPRRDRLCIVQL 44
I +D E GL RD I+++
Sbjct: 12 IWIDLEMTGLDTDRDS--IIEI 31
>2igi_A Oligoribonuclease; RNAse, exoribonuclease, exonuclease,
hydrolase, mRNA decay; 1.70A {Escherichia coli K12}
SCOP: c.55.3.5 PDB: 1yta_A 1j9a_A
Length = 180
Score = 26.9 bits (58), Expect = 3.1
Identities = 10/22 (45%), Positives = 14/22 (63%), Gaps = 2/22 (9%)
Query: 23 IAVDTETLGLMPRRDRLCIVQL 44
I +D E GL P RDR I+++
Sbjct: 8 IWIDLEMTGLDPERDR--IIEI 27
>3cg7_A CRN-4, cell death-related nuclease 4; hydrolase, apoptosis, 3'-5'
exonuclease, deddh; 2.50A {Caenorhabditis elegans} PDB:
3cm5_A 3cm6_A
Length = 308
Score = 26.2 bits (57), Expect = 5.1
Identities = 16/121 (13%), Positives = 33/121 (27%), Gaps = 34/121 (28%)
Query: 23 IAVDTETLGLMPRRDRLCIVQLSPGDGTVDIIRIAAGQKNAPNLVGMLVDEKREKIFHYG 82
+ +D ET +D C ++I+ A + D
Sbjct: 22 LILDFETTSDAANQDYPC-----------EVIQFAI----------VAYDVPN------D 54
Query: 83 RFDIAVLFYTFGVRVRPVFCTKIASRLTRTYTNQHGLKDNLKELLGINISKAQQSSDWSA 142
+ + F + V+P + LT+ + G+ + +Q W
Sbjct: 55 KIREDISFNKY---VKP----VLNRTLTKNCVDFTGIPQRSIDTADTFDVVYEQFQQWLI 107
Query: 143 D 143
Sbjct: 108 T 108
>3be6_A Putative iron compound-binding protein of ABC transporter family;
open form, closed form, group III periplasmic binding
protein; HET: MSE; 1.82A {Escherichia coli O157} PDB:
3be5_A*
Length = 297
Score = 26.1 bits (56), Expect = 5.3
Identities = 13/83 (15%), Positives = 25/83 (30%)
Query: 76 EKIFHYGRFDIAVLFYTFGVRVRPVFCTKIASRLTRTYTNQHGLKDNLKELLGINISKAQ 135
+ + I L T + V + + H L L++ +
Sbjct: 141 AILERRYQAQINALKATLDSQKITVSVIQANQGKINVMHSYHSLGRVLRDAGFRFPPLIE 200
Query: 136 QSSDWSADDLSDEQLQYAASDVV 158
+ D+S E+L +D V
Sbjct: 201 SIPEGGRMDVSAERLPELDADFV 223
>2fgy_A Carboxysome shell polypeptide; beta class of carbonic anhydrase,
lyase; 2.20A {Halothiobacillus neapolitanus}
Length = 542
Score = 25.6 bits (56), Expect = 8.0
Identities = 15/42 (35%), Positives = 18/42 (42%), Gaps = 1/42 (2%)
Query: 4 IRVHEGDIPAE-CAARYVDAIAVDTETLGLMPRRDRLCIVQL 44
IRVH D RYVD +TL L P R+ I +
Sbjct: 330 IRVHIPDSKGFLNPYRYVDNTVTYAQTLHLAPDEARVIIHEA 371
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
0.323 0.137 0.408
Gapped
Lambda K H
0.267 0.0504 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,797,806
Number of extensions: 78685
Number of successful extensions: 210
Number of sequences better than 10.0: 1
Number of HSP's gapped: 197
Number of HSP's successfully gapped: 27
Length of query: 207
Length of database: 5,693,230
Length adjustment: 88
Effective length of query: 119
Effective length of database: 3,559,758
Effective search space: 423611202
Effective search space used: 423611202
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 54 (25.1 bits)