RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2898
(222 letters)
>1w66_A Lipoyltransferase; lipoate-protein ligase B, lipoic acid,
acyltransferase, mycobacterium tuberculosis structural
proteomics project; HET: DKA; 1.08A {Mycobacterium
tuberculosis} SCOP: d.104.1.3
Length = 232
Score = 241 bits (616), Expect = 4e-81
Identities = 58/217 (26%), Positives = 96/217 (44%), Gaps = 14/217 (6%)
Query: 5 SISSTYSNLQIIQRGLEPYIVSFNAMLLFNSNRTNYTIDQLWFVEHFPVYTLGLKSNFSH 64
SI S S + + Q G Y ++ R D L +EH VYT G ++
Sbjct: 6 SIRSKLSAIDVRQLGTVDYRTAWQLQRELADARVAGGADTLLLLEHPAVYTAGRRTETHE 65
Query: 65 ILISKKLNNIPIIRTDRGGEVTYHGPGQAIIYLLIDLRRRYSDNIKIYIKKLVENIEEAV 124
++ P++ TDRGG++T+HGPGQ + Y +I L + V +EE++
Sbjct: 66 RP----IDGTPVVDTDRGGKITWHGPGQLVGYPIIGLAEPLD------VVNYVRRLEESL 115
Query: 125 ILTMSQYNINCKRKKNAPGVYIANGPFSGAKIASIGLKISAKGYVYHGVSINVSMDLEPF 184
I + ++ R GV++ P K+A+IG+++S + HG ++N DL F
Sbjct: 116 IQVCADLGLHAGRVDGRSGVWLPGRP--ARKVAAIGVRVS-RATTLHGFALNCDCDLAAF 172
Query: 185 NNINPCGYPGLVIVDMKK-LGINTTISKVQHLFIKNF 220
I PCG + + LG T+ +V+
Sbjct: 173 TAIVPCGISDAAVTSLSAELGRTVTVDEVRATVAAAV 209
>2qhs_A Lipoyltransferase; globular protein; HET: OCA; 1.50A {Thermus
thermophilus} PDB: 2qht_A 2qhu_A 2qhv_A
Length = 237
Score = 221 bits (564), Expect = 3e-73
Identities = 57/226 (25%), Positives = 101/226 (44%), Gaps = 21/226 (9%)
Query: 2 FSISISSTYSN--LQIIQRGLEPYIVSFNAML-LFNSNRTNYTIDQLWFVEHFPVYTLGL 58
S + S+ + GL PY ++ + L +EH V TLG
Sbjct: 10 HSSGLVPRGSHMEFLVEDLGLVPYGEAWAYQKRVHREVVAGNRPPTLLLLEHPRVITLGR 69
Query: 59 KSNFSHILISK---KLNNIPIIRTDRGGEVTYHGPGQAIIYLLIDLRRRYSDNIKIYIKK 115
K+ ++L + + N + +RGG+VTYHGPGQ + Y + + R +++
Sbjct: 70 KATGENLLFPESWYRENGFELYWVERGGDVTYHGPGQLVGYPIFPVGRE--------VRR 121
Query: 116 LVENIEEAVILTMSQYNINCKRKKNAPGVYIANGPFSGAKIASIGLKISAKGYVYHGVSI 175
+ IEEA++ + Y I+ GV++ K+ +IG+ + +G +HG ++
Sbjct: 122 FLRQIEEAIVRVAAGYGISAYPTPGYAGVWVG-----EDKLCAIGVAVK-EGVSFHGFAL 175
Query: 176 NVSMDLEPFNNINPCGYPGLVIVDMKK-LGINTTISKVQHLFIKNF 220
NV+ DL F I PCG G + ++K LG + + + + F
Sbjct: 176 NVNTDLNDFTVIVPCGLKGKGVTSLEKLLGRKVPMEEAKARVVAAF 221
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 40.0 bits (93), Expect = 4e-04
Identities = 37/244 (15%), Positives = 81/244 (33%), Gaps = 91/244 (37%)
Query: 4 ISISSTYSN-LQIIQRGLEPYIVSFNAMLLFNSNRTNYTIDQLWFVEHFPVYTLGLKSN- 61
I+ + ++ + +++ + +LF + +G++
Sbjct: 283 IAETDSWESFFVSVRKAIT---------VLF------------F---------IGVRCYE 312
Query: 62 -FSHILISKKLNNIPIIRTD--RGGE--------VTYHGPGQAIIYLLIDLRRRY-SDNI 109
+ + + P I D E ++ Q + ++ +
Sbjct: 313 AYPNTSLP------PSILEDSLENNEGVPSPMLSIS--NLTQEQVQDYVNKTNSHLPAGK 364
Query: 110 KIYIKKLVENIEEAVILT---MSQYNINCK-RKKNAP-GVYIANGPFSGAK--IASIGLK 162
++ I LV N + ++++ S Y +N RK AP G+ + PFS K ++ L
Sbjct: 365 QVEIS-LV-NGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLP 422
Query: 163 ISAKGYVYH------------------GVSINVSMDLE-P----FNNINPCGYPGLV--- 196
+++ +H VS N D++ P F+ + G +
Sbjct: 423 VAS---PFHSHLLVPASDLINKDLVKNNVSFNAK-DIQIPVYDTFDGSDLRVLSGSISER 478
Query: 197 IVDM 200
IVD
Sbjct: 479 IVDC 482
Score = 37.7 bits (87), Expect = 0.003
Identities = 45/299 (15%), Positives = 78/299 (26%), Gaps = 128/299 (42%)
Query: 6 ISSTYSNLQIIQRGLEPYIVSFNAMLLFNSNRTN----YTI------DQLWFVEHFPVYT 55
I + + + +R + S LF + I +F E
Sbjct: 123 IKNYITARIMAKRPFDKKSNS----ALFRAVGEGNAQLVAIFGGQGNTDDYFEE------ 172
Query: 56 LGLKSNFSHILISKKLNNIPIIRTDRGGEVTYHGPGQAIIY----LLIDLRRRYSDNIKI 111
L+ + TYH +I L +L R D K+
Sbjct: 173 --LRDLYQ----------------------TYHVLVGDLIKFSAETLSELIRTTLDAEKV 208
Query: 112 Y-----IKKLVENIEEA--------------VI-LT-MSQYNINCKRKKNAPGVYIANGP 150
+ I + +EN +I + ++ Y + K PG +
Sbjct: 209 FTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSY-- 266
Query: 151 FSGAKIASIGLKISAKGYVYHGVSINVSMDLEPFNNI----------------------- 187
GA S GL ++A V+I + E F
Sbjct: 267 LKGATGHSQGL-VTA-------VAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTS 318
Query: 188 -----------NPCGYPG--LVIVDMKKLGINTTISKV-------QHLFI------KNF 220
N G P L I ++ + + ++K + + I KN
Sbjct: 319 LPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNL 377
>2c8m_A Lipoate-protein ligase A; lipoylation; HET: LPA; 1.89A
{Thermoplasma acidophilum} SCOP: d.104.1.3 PDB: 2art_A*
2aru_A* 2c7i_A 2ars_A* 3r07_A
Length = 262
Score = 36.6 bits (85), Expect = 0.004
Identities = 21/117 (17%), Positives = 39/117 (33%), Gaps = 16/117 (13%)
Query: 72 NNIPIIRTDRGGEVTYHGPGQAIIYLLIDLRRRYSDNIKIYIKKLVENIEEAVILTMSQY 131
N I + R GG YH G + + ++ I + + EAV+ ++
Sbjct: 65 NGIMLARRYTGGGAVYHDLGD-LNFSVVRSSDDMD------ITSMFRTMNEAVVNSLRIL 117
Query: 132 NINCKRKKNAPGVYIANGPFSGAKIASIGLKIS------AKGYVYHGVSINVSMDLE 182
++ + + N I + KI KG ++ V DL+
Sbjct: 118 GLDARPGELNDVSIPVNKKTD---IMAGEKKIMGAAGAMRKGAKLWHAAMLVHTDLD 171
>3a7r_A Lipoate-protein ligase A; adenylate-forming enzyme, lipoic acid,
ATP-binding, cytoplasm, nucleotide-binding, transferase,
lipoyl; HET: LAQ; 2.05A {Escherichia coli} PDB: 1x2h_A*
3a7a_A* 1x2g_A*
Length = 337
Score = 32.5 bits (74), Expect = 0.085
Identities = 21/161 (13%), Positives = 51/161 (31%), Gaps = 26/161 (16%)
Query: 72 NNIPIIRTDRGGEVTYHGPGQAIIYLLIDLRRRYSDNIKIYIKKLVENIEEAVILTMSQY 131
+N+ + R GG +H G + + + Y V+ ++
Sbjct: 63 DNVRLARRSSGGGAVFHDLGN-TCFTFMAGKPEYD----------KTISTSIVLNALNAL 111
Query: 132 NINCK-RKKNAPGVYIANGPFSGAKIASIGLKISAKGYVYHGVSINVSMDLEPFNNINPC 190
++ + +N + K++ + + K +H ++ ++ DL N
Sbjct: 112 GVSAEASGRND---LVVKTVEGDRKVSGSAYRET-KDRGFHHGTLLLNADLSRLANYLNP 167
Query: 191 GYPGLV----------IVDMKKLGINTTISKVQHLFIKNFF 221
L + ++ +L T +V + FF
Sbjct: 168 DKKKLAAKGITSVRSRVTNLTELLPGITHEQVCEAITEAFF 208
>2p5i_A BH3822 protein; PFAM03099, structural genomics, PSI-2, protein
structure initiative, NEW YORK structural genomix
research consortium; 2.21A {Bacillus halodurans c-125}
SCOP: d.104.1.3
Length = 288
Score = 30.0 bits (67), Expect = 0.48
Identities = 18/117 (15%), Positives = 37/117 (31%), Gaps = 17/117 (14%)
Query: 72 NNIPIIRTDRGGEVTYHGPGQAIIYLLIDLRRRYSDNIKIYIKKLVENIEEAVILTMSQY 131
+I + GG G + L++ + +S + Y E + E + +
Sbjct: 83 FQHDVIVRNSGGLAVVLDSGILNLSLVLKEEKGFSID-DGY-----ELMYELICSMFQDH 136
Query: 132 NINCKRKKNAPGVYIANGPFSGAKIASIGLKIS------AKGYVYHGVSINVSMDLE 182
+ G Y G + ++ G K + +G V + + VS
Sbjct: 137 REQI-EAREIVGSY-CPGSYD---LSIDGKKFAGISQRRIRGGVAVQIYLCVSGSGA 188
>2e5a_A Lipoyltransferase 1; lipoyl-AMP, ligase; HET: LAQ; 2.10A {Bos
taurus} PDB: 3a7u_A
Length = 347
Score = 28.4 bits (63), Expect = 2.0
Identities = 22/160 (13%), Positives = 49/160 (30%), Gaps = 25/160 (15%)
Query: 72 NNIPIIRTDRGGEVTYHGPGQAIIYLLIDLRRRYSDNIKIYIKKLVENIEEAVILTMSQY 131
+ + R GG YH G I +++Y + V+ +
Sbjct: 66 EGVKLARRRSGGGTVYHDMGN-INLTFFTTKKKYD----------RMENLKLVVRALKAV 114
Query: 132 NINCKRKKNAPGVYIANGPFSGAKIASIGLKISAKGYVYHGVSINVSMDLEPFNNINPCG 191
+ + + + +G F KI+ KI + YH ++ D +++
Sbjct: 115 HPHLDVQATKRFDLLLDGQF---KISGTASKIG-RNAAYHHCTLLCGTDGTFLSSLLKSP 170
Query: 192 YPGLV----------IVDMKKLGINTTISKVQHLFIKNFF 221
Y G+ + ++ + T V + +
Sbjct: 171 YQGIRSNATASTPALVKNLMEKDPTLTCEVVINAVATEYA 210
>2p0l_A Lipoate-protein ligase A; PFAM, lopoate-protein ligase A, 10425H,
structural genomics, structure initiative, PSI-2; 2.04A
{Streptococcus agalactiae} SCOP: d.104.1.3
Length = 288
Score = 28.1 bits (62), Expect = 2.3
Identities = 17/115 (14%), Positives = 28/115 (24%), Gaps = 11/115 (9%)
Query: 72 NNIPIIRTDRGGEVTYHGPGQAIIYLLIDLRRRYSDNIKIYIKKLVENIEEAVILTMSQY 131
+ + GG G L L K+ I + + + S +
Sbjct: 80 RGYEPVVRNFGGLAVVADEGI----LNFSLVIPDVFERKLSISDGYLIMVDFIRSIFSDF 135
Query: 132 NINCKRKKNAPGVYIANGPFS----GAKIASIGLKISAKGY-VYHGVSINVSMDL 181
Y G F G K A + + G V +S+
Sbjct: 136 YQPI-EHFEVETSY-CPGKFDLSINGKKFAGLAQRRIKNGIAVSIYLSVCGDQKG 188
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 28.3 bits (62), Expect = 2.3
Identities = 16/90 (17%), Positives = 34/90 (37%), Gaps = 8/90 (8%)
Query: 51 FPVYTLGLKSNFSHILISKKLNNIPIIRTDRGGEVTYHGPGQAIIYLLIDLRRRYSDNI- 109
F ++ L LK+ S + + L + + + D I + ++ +
Sbjct: 182 FKIFWLNLKNCNSPETVLEMLQKL-LYQIDPNWTSRSDHS-SNIKLRIHSIQAELRRLLK 239
Query: 110 -KIYIKKLV--ENIEEAVILTMSQYNINCK 136
K Y L+ N++ A +N++CK
Sbjct: 240 SKPYENCLLVLLNVQNAKAWNA--FNLSCK 267
>1urj_A Major DNA-binding protein; SSB, ICP8, HSV-1, DNA replication,
zinc-finger, nuclear protein.; 3.0A {Human herpesvirus
1} SCOP: e.58.1.1
Length = 1136
Score = 27.3 bits (60), Expect = 4.3
Identities = 11/75 (14%), Positives = 18/75 (24%), Gaps = 24/75 (32%)
Query: 14 QIIQRGLEPYIVSFNAMLLFNSNRTNYTIDQ------------------LWFVEHF-PVY 54
+ L+PY +L R+N + Q F F PV
Sbjct: 652 HAMSLTLDPYACGPCPLLQLLGRRSNLAVYQDLALSQCHGVFAGQSVEGRNFRNQFQPVL 711
Query: 55 TLGLKSNFSHILISK 69
+ +
Sbjct: 712 R-----RRVMDMFNN 721
>4a0g_A Adenosylmethionine-8-amino-7-oxononanoate aminotransferase;
BIO3-BIO1, biotin synthesis; HET: PLP; 2.50A
{Arabidopsis thaliana} PDB: 4a0h_A* 4a0r_A* 4a0f_A*
Length = 831
Score = 27.2 bits (60), Expect = 5.5
Identities = 9/32 (28%), Positives = 19/32 (59%)
Query: 189 PCGYPGLVIVDMKKLGINTTISKVQHLFIKNF 220
P PG+++ D + GI+ TI+ + L ++ +
Sbjct: 229 PFRLPGILVGDGRLGGISGTIAAYESLKLRGY 260
>2o9p_A Beta-glucosidase B; family 1 glycoside hydrolase; 2.10A
{Paenibacillus polymyxa} PDB: 2o9t_A* 2z1s_A* 2jie_A*
2o9r_A*
Length = 454
Score = 27.1 bits (61), Expect = 5.7
Identities = 10/36 (27%), Positives = 17/36 (47%), Gaps = 4/36 (11%)
Query: 78 RTDRGGEVTYHGPGQAIIYLLIDLRRRYSDNIKIYI 113
TD G E+ P ++ LL + + +S + I I
Sbjct: 329 VTDMGWEIH---P-ESFYKLLTRIEKDFSKGLPILI 360
>1pbg_A PGAL, 6-phospho-beta-D-galactosidase; hydrolase (glycosyl
hydrolase); 2.30A {Lactococcus lactis} SCOP: c.1.8.4
PDB: 3pbg_A 2pbg_A 4pbg_A*
Length = 468
Score = 26.8 bits (60), Expect = 7.2
Identities = 12/60 (20%), Positives = 26/60 (43%), Gaps = 7/60 (11%)
Query: 60 SNFSHILISKKLNNIPIIRTDRGGEVTYHGPGQAIIYLLIDLRRRYSDNIKIYIKKLVEN 119
S + + +++ + RTD + P + + ++ ++ Y + KIYI EN
Sbjct: 324 SKYQIKGVGRRVAPDYVPRTDWDWIIY---P-EGLYDQIMRVKNDYPNYKKIYI---TEN 376
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.323 0.141 0.411
Gapped
Lambda K H
0.267 0.0796 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,401,217
Number of extensions: 202279
Number of successful extensions: 438
Number of sequences better than 10.0: 1
Number of HSP's gapped: 427
Number of HSP's successfully gapped: 26
Length of query: 222
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 132
Effective length of database: 4,188,903
Effective search space: 552935196
Effective search space used: 552935196
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 (21.9 bits)
S2: 55 (24.8 bits)