RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8036
(194 letters)
>2e5a_A Lipoyltransferase 1; lipoyl-AMP, ligase; HET: LAQ; 2.10A {Bos
taurus} PDB: 3a7u_A
Length = 347
Score = 93.9 bits (233), Expect = 3e-23
Identities = 53/171 (30%), Positives = 78/171 (45%), Gaps = 19/171 (11%)
Query: 10 KGIISNATASTPAPTLNLQEVCPEVSMDRLIKSLGYEYLRTKAITMEDGGEGQIAKQRGF 69
+GI SNATASTPA NL E P ++ + +I ++ EY + I
Sbjct: 172 QGIRSNATASTPALVKNLMEKDPTLTCEVVINAVATEYATSHQIDNH------------I 219
Query: 70 QTINPTDD-WFPGLAKIQSEYQSWEWRYGSTPKFTISQSFDIPDEHGAPGQLVISLEIVK 128
INPTD+ FPG+ E Q+WEW YG TPKF++ SF + E ++ + +++
Sbjct: 220 HLINPTDETVFPGINSKAIELQTWEWIYGKTPKFSVDTSFTVLHEQSH-VEIKVFIDVKN 278
Query: 129 GLIESVCFKIPPALVNDEHFLQDAELLCSV-QGRKFTETALDDLKEALTSR 178
G IE + P + L+ + L S G KF+ L L
Sbjct: 279 GRIEVCNIEAP----DHWLPLEICDQLNSSLIGSKFSPIETTVLTSILHRT 325
>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 = 78.7 bits (194), Expect = 8e-18
Identities = 29/168 (17%), Positives = 56/168 (33%), Gaps = 28/168 (16%)
Query: 10 KGIISNATASTPAPTLNLQEVCPEVSMDRLIKSLGYEYLRTKAITMEDGGEGQIAKQRGF 69
K + + S + NL E+ P ++ +++ +++ + +E
Sbjct: 170 KKLAAKGITSVRSRVTNLTELLPGITHEQVCEAITEAFFAHYGERVEA------------ 217
Query: 70 QTINPTD-DWFPGLAKIQSEYQSWEWRYGSTPKFTISQSFDIPDEHGAPGQLVISLEIVK 128
+ I+P P A+ + SWEW +G P F+ G + + ++ K
Sbjct: 218 EIISPNKTPDLPNFAETFARQSSWEWNFGQAPAFSHLLDERFTW-----GGVELHFDVEK 272
Query: 129 GLIESVCFKIPPALVNDEHFLQDAELLCSV-QGRKFTETALDDLKEAL 175
G I D E L QG + D L++
Sbjct: 273 GHITRAQV------FTDSLNPAPLEALAGRLQGCLYRA---DMLQQEC 311
>1vqz_A Lipoate-protein ligase, putative; class II AARS and biotin
synthetases fold, SUFE/NIFU fold, S genomics; HET: MSE;
1.99A {Streptococcus pneumoniae} SCOP: d.224.1.3
d.104.1.3
Length = 341
Score = 70.9 bits (174), Expect = 5e-15
Identities = 26/174 (14%), Positives = 65/174 (37%), Gaps = 38/174 (21%)
Query: 10 KGIISNATASTPAPTLNL-QEVCPEVSMDRLIKSLGYEYLRTKAITMEDGGEGQIAKQRG 68
S S A N+ E+ ++++++ L EY++ + M +
Sbjct: 179 DKFESKGVKSVRARVTNIINELPKKITVEKFRDLL-LEYMKKEYPEMTEY---------- 227
Query: 69 FQTINPTDDWFPGLAKI-QSEYQSWEWRYGSTPKFTISQSFDIPDEHGAPGQLVISLEIV 127
+++ + +I +++ +W+W YG +P+F + + G++ + +
Sbjct: 228 ----VFSEEELAEINRIKDTKFGTWDWNYGKSPEFNVRRGIKFTS-----GKVEVFANVT 278
Query: 128 KGLIESVCFK---IPPALVND-EHFLQDAELLCSVQGRKFTETALDDLKEALTS 177
+ I+ + V E L +G K+ +D+ +AL +
Sbjct: 279 ESKIQDIKIYGDFFGIEDVAAVEDVL---------RGVKYER---EDVLKALKT 320
>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 = 60.1 bits (146), Expect = 2e-11
Identities = 15/98 (15%), Positives = 30/98 (30%), Gaps = 16/98 (16%)
Query: 8 SMKGIISNATASTPAPTLNLQEVCPEVSMDRLIKSLGYEYLRTKAITMEDGGEGQIAKQR 67
+ ST N+ + +VS+D + +L + T I +
Sbjct: 180 PDEKFRDKIAKSTRERVANVTDF-VDVSIDEVRNALIRGFSETLHIDFRED--------- 229
Query: 68 GFQTINPTDDWFPGLAKIQSE-YQSWEWRYGSTPKFTI 104
T+ ++ + Y + EW G K +
Sbjct: 230 -----TITEKEESLARELFDKKYSTEEWNMGLLRKEVV 262
>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 = 36.2 bits (83), Expect = 0.005
Identities = 33/167 (19%), Positives = 50/167 (29%), Gaps = 42/167 (25%)
Query: 33 EVSMDRLIKSLGYEYLRTKAITME--DGGEGQIAKQRGF--QTI---NPTDD--WFPGLA 83
E M G + +T + + + GF I NP + F G
Sbjct: 1628 EQGM-------GMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEK 1680
Query: 84 --KIQSEYQSWEWRYGSTPKFTISQSFDIPDEHGAPGQLVISLEIVKGLIESVCFKIPPA 141
+I+ Y + + K + F +EH S F+
Sbjct: 1681 GKRIRENYSAMIFETIVDGKLKTEKIFKEINEH----------------STSYTFRSEKG 1724
Query: 142 LVNDEHFLQDAELLCSVQGRKFTETALDDLKEA-LTSRGQTYLGTSL 187
L++ F Q A L A +DLK L T+ G SL
Sbjct: 1725 LLSATQFTQPALTLMEK-------AAFEDLKSKGLIPADATFAGHSL 1764
Score = 36.2 bits (83), Expect = 0.005
Identities = 33/200 (16%), Positives = 53/200 (26%), Gaps = 70/200 (35%)
Query: 22 APTLNLQEVCPEVSMDRLIKSLGYEYLRTKAITME--------------DGGEGQIAKQR 67
A L + V LIK+ Y+ + + G Q+
Sbjct: 105 AAKLLQENDTTLVKTKELIKN----YITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIF 160
Query: 68 GFQTINPTDDWFPGLAKIQSEYQSW--------------EWRYGSTPKFTISQSFDI--- 110
G Q TDD+F L + Y R + +Q +I
Sbjct: 161 GGQ--GNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEW 218
Query: 111 -------PDEH---GAPGQLVISLEIVKGLIESVCFKIPPALVNDEHFLQDAELLCSVQG 160
PD+ P IS ++ G+I+ + + + G
Sbjct: 219 LENPSNTPDKDYLLSIP----ISCPLI-GVIQLAHYVV----------------TAKLLG 257
Query: 161 RKFTETALDDLKEALTSRGQ 180
FT L + T Q
Sbjct: 258 --FTPGELRSYLKGATGHSQ 275
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 34.3 bits (78), Expect = 0.013
Identities = 19/96 (19%), Positives = 36/96 (37%), Gaps = 16/96 (16%)
Query: 80 PGLAKIQSEYQS--------WEWRYGSTPKFTISQSFDIPDEHGAPGQ-LVISLEIVKGL 130
G+A IQ Y S + + P I ++ D + LVI+ E
Sbjct: 116 VGMA-IQVNYSSEVKENSVDSDDKAKVPPLIRIVSGLELSDTKQKGKKFLVIAYEP---- 170
Query: 131 IESVCFKIPPA--LVNDEHFLQDAELLCSVQGRKFT 164
E++ ++PP L ++ + + + +K T
Sbjct: 171 FENIAIELPPNEILFSENNDMDNNNDGVDELNKKCT 206
>3gty_X Trigger factor, TF; chaperone-client complex, cell cycle, cell
division, chapero isomerase, rotamase,
ribonucleoprotein, binding; 3.40A {Thermotoga maritima}
PDB: 3gu0_A
Length = 433
Score = 31.1 bits (71), Expect = 0.18
Identities = 5/51 (9%), Positives = 18/51 (35%), Gaps = 2/51 (3%)
Query: 125 EIVKGLIESVCFKIPPALVNDE--HFLQDAELLCSVQGRKFTETALDDLKE 173
++++ L E V +I + + + + + + + +E
Sbjct: 274 QLLEKLPEIVEIEISDRTLEILVNEAINRLKREGRYEQIVSSYESEEKFRE 324
>2nsa_A Trigger factor, TF; chaperone; 1.70A {Thermotoga maritima}
Length = 170
Score = 30.0 bits (68), Expect = 0.33
Identities = 6/53 (11%), Positives = 19/53 (35%), Gaps = 2/53 (3%)
Query: 125 EIVKGLIESVCFKIPPALVNDE--HFLQDAELLCSVQGRKFTETALDDLKEAL 175
++++ L E V +I + + + + + + + +E L
Sbjct: 32 QLLEKLPEIVEIEISDRTLEILVNEAINRLKREGRYEQIVSSYESEEKFREEL 84
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 29.6 bits (66), Expect = 0.42
Identities = 7/35 (20%), Positives = 17/35 (48%), Gaps = 3/35 (8%)
Query: 135 CFKIPPALVNDEHFLQDAELLCSVQGRKFTETALD 169
C PP +V + +++C++ G ++ +D
Sbjct: 27 CKVYPPKIVERF---SEGDVVCALCGLVLSDKLVD 58
Score = 26.2 bits (57), Expect = 6.5
Identities = 6/11 (54%), Positives = 7/11 (63%)
Query: 23 PTLNLQEVCPE 33
P LN+ CPE
Sbjct: 16 PNLNIVLTCPE 26
>2owy_A Recombination-associated protein RDGC; homologous recombination,
RECA shaped DNA binding proteins, DNA binding protein;
2.50A {Pseudomonas aeruginosa}
Length = 306
Score = 27.6 bits (61), Expect = 2.4
Identities = 14/74 (18%), Positives = 27/74 (36%), Gaps = 8/74 (10%)
Query: 105 SQSFDIPDEHGAPGQLVISLEIVKGLIESVCFKIPPALVNDEHFLQDAELLCSVQGRKFT 164
+ D P H + +IS + +I P V + + + + + Q RK
Sbjct: 49 GKGPDAPLVHVSQDFFLISARKEE--------RILPGSVVRDALKEKVDEIEAQQMRKVY 100
Query: 165 ETALDDLKEALTSR 178
+ D LK+ +
Sbjct: 101 KKERDQLKDEIVQT 114
>1w26_A Trigger factor, TF; chaperone, protein folding, ribosome associated
protein, nascent chain, cell division, isomerase; 2.7A
{Escherichia coli} SCOP: a.223.1.1 d.241.2.1 d.26.1.1
PDB: 2vrh_A 1w2b_5
Length = 432
Score = 27.6 bits (62), Expect = 3.2
Identities = 9/51 (17%), Positives = 23/51 (45%), Gaps = 2/51 (3%)
Query: 125 EIVKGLIESVCFKIPPALVNDE--HFLQDAELLCSVQGRKFTETALDDLKE 173
+ ++GL+++ +P AL++ E + A ++ E + +E
Sbjct: 289 QAIEGLVKANDIDVPAALIDSEIDVLRRQAAQRFGGNEKQALELPRELFEE 339
>3f7c_A Protein of unknown function (DUF416); structural genomics, joint
center for structural genomics, J protein structure
initiative; HET: CIT; 2.00A {Marinobacter aquaeolei VT8}
Length = 200
Score = 26.8 bits (59), Expect = 4.1
Identities = 12/47 (25%), Positives = 21/47 (44%)
Query: 142 LVNDEHFLQDAELLCSVQGRKFTETALDDLKEALTSRGQTYLGTSLD 188
L+ D+ Q ++ R E L +L+ + G + LG SL+
Sbjct: 153 LLKDDKLFQRDTVMALYYYRTPKEAFLAELRAGAANDGVSNLGISLE 199
>1t11_A Trigger factor, TF; helix-turn-helix, four-helix-bundle, ppiase,
chaperone; 2.50A {Vibrio cholerae} SCOP: a.223.1.1
d.241.2.1 d.26.1.1 PDB: 1l1p_A
Length = 392
Score = 26.8 bits (60), Expect = 4.4
Identities = 6/22 (27%), Positives = 15/22 (68%)
Query: 125 EIVKGLIESVCFKIPPALVNDE 146
+ ++GL++ ++P AL++ E
Sbjct: 292 QAIEGLVKENEIQVPSALIDQE 313
>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 = 27.1 bits (59), Expect = 4.6
Identities = 27/201 (13%), Positives = 52/201 (25%), Gaps = 53/201 (26%)
Query: 30 VCPEVSMDRLIKSLGYEYLRTKAITME-DGGEG------QIAKQRGFQTINP-------- 74
V +L ++L E K + ++ G G + Q
Sbjct: 131 VSRLQPYLKLRQAL-LELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNL 189
Query: 75 ----TDDWFPGLAKIQSEYQSWEWRYGSTPKFTISQSFDIPDEHGAPGQLVISLEIVKGL 130
+ + L +Q + + S + + I +L+ S L
Sbjct: 190 KNCNSPETV--LEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCL 247
Query: 131 IESVCFKIPPAL--VND----EHF------L---QDAELLCSVQGRKFTETALDDLKEAL 175
+ + L V + F L + ++ + T +LD L
Sbjct: 248 L------V---LLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTL 298
Query: 176 TSRGQT------YLGTSLDRL 190
T + YL L
Sbjct: 299 TPD-EVKSLLLKYLDCRPQDL 318
>2owl_A Recombination-associated protein RDGC; replication, RECA; 2.40A
{Escherichia coli}
Length = 303
Score = 26.0 bits (57), Expect = 8.0
Identities = 18/65 (27%), Positives = 26/65 (40%), Gaps = 8/65 (12%)
Query: 114 HGAPGQLVISLEIVKGLIESVCFKIPPALVNDEHFLQDAELLCSVQGRKFTETALDDLKE 173
H A GQ+VI + KI P+ V + L + Q RK +T D LK+
Sbjct: 58 HVANGQIVICARKEE--------KILPSPVIKQALEAKIAKLEAEQARKLKKTEKDSLKD 109
Query: 174 ALTSR 178
+
Sbjct: 110 EVLHS 114
>1hq8_A NKG2-D; homodimer, CIS-proline, apoptosis; 1.95A {Mus musculus}
SCOP: d.169.1.1 PDB: 1jsk_A 1kcg_A*
Length = 123
Score = 25.4 bits (56), Expect = 8.2
Identities = 11/36 (30%), Positives = 17/36 (47%), Gaps = 1/36 (2%)
Query: 81 GLAKIQSEYQSWEWRYGSTPKFTISQSFDIPDEHGA 116
GL +I + SW+W GS+ + +IP A
Sbjct: 63 GLVQIPAN-GSWQWEDGSSLSYNQLTLVEIPKGSCA 97
>1wzl_A Alpha-amylase II; pullulan, GH-13, alpha-amylase family, hydrolase;
2.00A {Thermoactinomyces vulgaris} SCOP: b.1.18.2
b.71.1.1 c.1.8.1 PDB: 1ji2_A 1bvz_A 1vfk_A* 3a6o_A*
1wzm_A 1jf6_A 1wzk_A 2d2o_A* 1jib_A* 1jl8_A* 1vb9_A*
1g1y_A* 1vfo_A* 1vfm_A* 1vfu_A* 1jf5_A
Length = 585
Score = 26.2 bits (58), Expect = 8.7
Identities = 7/35 (20%), Positives = 15/35 (42%), Gaps = 5/35 (14%)
Query: 73 NPTDDWF-----PGLAKIQSEYQSWEWRYGSTPKF 102
+ DWF P ++ Y+++ + + PK
Sbjct: 262 SRYKDWFFIEDFPVSKTSRTNYETFAVQVPAMPKL 296
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
0.317 0.134 0.394
Gapped
Lambda K H
0.267 0.0515 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,951,308
Number of extensions: 169098
Number of successful extensions: 360
Number of sequences better than 10.0: 1
Number of HSP's gapped: 358
Number of HSP's successfully gapped: 20
Length of query: 194
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 106
Effective length of database: 4,244,745
Effective search space: 449942970
Effective search space used: 449942970
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (25.5 bits)