RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 019862
(334 letters)
>1l5j_A Aconitate hydratase 2; molecular recognition, RNA binding, citric
acid cycle, heat- like domain, lyase; HET: TRA; 2.40A
{Escherichia coli} SCOP: a.118.15.1 c.8.2.1 c.83.1.1
Length = 865
Score = 193 bits (492), Expect = 1e-55
Identities = 46/277 (16%), Positives = 78/277 (28%), Gaps = 31/277 (11%)
Query: 57 RRPATTGSVKNAMTLTEKIFSRASEKPQLSPGDNVWVNVDILMTHDVCGPGSFGIFKKEF 116
R+ +L +K+ RA + PG + + + D GP + K
Sbjct: 370 RQAKDVAESDRGFSLAQKMVGRACGVKGIRPGAYCEPKMTSVGSQDTTGPMTRDELKDL- 428
Query: 117 GENAKVWDREKIVIIPDHYIFTSDERANRNVDILRDFCMEQNIKYFYDIKDLGNFKANPD 176
+ + ++ H L DF M +
Sbjct: 429 --ACLGFSADLVMQSFCHTAAYPKPVDVNTHHTLPDFIMNRGGVSLRP------------ 474
Query: 177 YKGVCHIALAQEGHCRPGEVLLGTDSHTCTAGAFGQFATGIGNTDAGFVLGTGKVLLKVP 236
GV H L P V G DSHT + G+ F TG + L +P
Sbjct: 475 GDGVIHSWL--NRMLLPDTVGTGGDSHTRFPIGI---SFPAGSGLVAFAAATGVMPLDMP 529
Query: 237 PTLRFVLDGEMPDYLLAKDLILQIIGEISVAGAT----------YKSMEFVGTTVERLSM 286
++ G+M + +DL+ I G + + L +
Sbjct: 530 ESVLVRFKGKMQPGITLRDLVHAIPLYAIKQGLLTVEKKGKKNIFSGRILEIEGLPDLKV 589
Query: 287 EERMTLCNMVVEAGGKNGVVPADG-TTFKYLEDKTSL 322
E+ L + E + + +YL L
Sbjct: 590 EQAFELTDASAERSAAGCTIKLNKEPIIEYLNSNIVL 626
>1c96_A Mitochondrial aconitase; lyase, tricarboxylic acid cycle,
iron-sulfur, mitochondrion, transit peptide, 4Fe-4S,
3D-structure; HET: FLC; 1.81A {Bos taurus} SCOP: c.8.2.1
c.83.1.1 PDB: 1c97_A* 1b0k_A* 1b0j_A* 7acn_A* 6acn_A*
5acn_A* 1b0m_A* 1ami_A* 1amj_A 8acn_A* 1fgh_A* 1aco_A*
1nis_A* 1nit_A
Length = 753
Score = 107 bits (269), Expect = 7e-26
Identities = 49/140 (35%), Positives = 69/140 (49%), Gaps = 3/140 (2%)
Query: 179 GVCH-IALAQEGHCRPGEVLLGTDSHTCTAGAFGQFATGIGNTDAGFVLGTGKVLLKVPP 237
G+ H I L E + PG +L+GTDSHT G G G+G DA V+ LK P
Sbjct: 143 GIIHQIIL--ENYAYPGVLLIGTDSHTPNGGGLGGICIGVGGADAVDVMAGIPWELKCPK 200
Query: 238 TLRFVLDGEMPDYLLAKDLILQIIGEISVAGATYKSMEFVGTTVERLSMEERMTLCNMVV 297
+ L G + + KD+IL++ G ++V G T +E+ G V+ +S T+CNM
Sbjct: 201 VIGVKLTGSLSGWTSPKDVILKVAGILTVKGGTGAIVEYHGPGVDSISCTGMATICNMGA 260
Query: 298 EAGGKNGVVPADGTTFKYLE 317
E G V P + KYL
Sbjct: 261 EIGATTSVFPYNHRMKKYLS 280
>2b3y_A Iron-responsive element binding protein 1; IRP1 IRE-IRP1 aconitase
activity, lyase; 1.85A {Homo sapiens} SCOP: c.8.2.1
c.83.1.1 PDB: 2b3x_A 3snp_A 3sn2_A 2ipy_A
Length = 888
Score = 61.0 bits (149), Expect = 2e-10
Identities = 45/161 (27%), Positives = 74/161 (45%), Gaps = 18/161 (11%)
Query: 170 NFKANPDYKGVCH---------IALAQEGHCRPGEVLLGTDSHTCTAGAFGQFATGIGNT 220
N + P G+ H + Q+G+ P + L+GTDSHT G G+G
Sbjct: 165 NMRIIPPGSGIIHQVNLEYLARVVFDQDGYYYP-DSLVGTDSHTTMIDGLGILGWGVGGI 223
Query: 221 DAGFV-LGTGKVLLKVPPTLRFVLDGEMPDYLLAKDLIL---QIIGEISVAGATYKSMEF 276
+A V LG + + +P + + L G+ + + D++L + + ++ V G K +EF
Sbjct: 224 EAEAVMLGQ-PISMVLPQVIGYRLMGKPHPLVTSTDIVLTITKHLRQVGVVG---KFVEF 279
Query: 277 VGTTVERLSMEERMTLCNMVVEAGGKNGVVPADGTTFKYLE 317
G V +LS+ +R T+ NM E G P D + YL
Sbjct: 280 FGPGVAQLSIADRATIANMCPEYGATAAFFPVDEVSITYLV 320
>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 = 37.9 bits (87), Expect = 0.004
Identities = 41/312 (13%), Positives = 79/312 (25%), Gaps = 117/312 (37%)
Query: 6 ISPA-PTSSFINNKKDLGSFCFSSTSQFS---VNKCKKLAVSKKIVSVMAPQQSERRPAT 61
P+ T +I + L ++ F+ V++ + ++ + E RPA
Sbjct: 103 RQPSMMTRMYIEQRDRL----YNDNQVFAKYNVSRLQPYLKLRQALL-------ELRPAK 151
Query: 62 -------TGSVKNAMTLTEKIFSRASEKPQLSPGDNV-WVNV-------DIL-------- 98
GS K + L S K Q + W+N+ +L
Sbjct: 152 NVLIDGVLGSGKTWVALD----VCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLY 207
Query: 99 -MTHDVCGPGSFGIFKKEFGENAKVWDREKIVIIPDHYIFTSDERANRNVDILRDFCMEQ 157
+ + K + + R + + +L + +
Sbjct: 208 QIDPNWTSRSDHSSNIKLRIHSIQAELRR----------LLKSKPYENCLLVLLNVQNAK 257
Query: 158 NIKYFYDIKDLGNFKANPDYKGVCHIALAQEGHCRPGEVLLGT-DSHTCTAGAFGQFATG 216
F +L C+ +LL T
Sbjct: 258 AWNAF----NLS---------------------CK---ILLTTRFK-------------- 275
Query: 217 IGNTDAGFVLGTGKVLLKVPPTLRFVLDGEMPDY---LLAK-------DLILQIIG---- 262
TD T + +L PD LL K DL +++
Sbjct: 276 -QVTDFLSAATTTHI------SLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPR 328
Query: 263 EISVAGATYKSM 274
+S+ + +
Sbjct: 329 RLSIIAESIRDG 340
Score = 35.6 bits (81), Expect = 0.027
Identities = 32/195 (16%), Positives = 62/195 (31%), Gaps = 43/195 (22%)
Query: 27 SSTSQFSVNKCKKLAVSKK-----IVSVMAPQQSERRPATTGSVKNAMTLTEKI-----F 76
S VNK K ++ +K +S+ + + ++N L I
Sbjct: 401 KSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVK-----LENEYALHRSIVDHYNI 455
Query: 77 SRASEKPQLSP--GDNVWVNVDILMTH-DVCGPG-SFGIFKK-----EFGENAKV----- 122
+ + L P D + + + H +F+ F E K+
Sbjct: 456 PKTFDSDDLIPPYLDQYFYS--HIGHHLKNIEHPERMTLFRMVFLDFRFLE-QKIRHDST 512
Query: 123 -WDREKIVI--IPD-----HYIFTSDERANRNVDILRDFCM--EQNIKYFYDIKDLGNFK 172
W+ ++ + YI +D + R V+ + DF E+N+ DL
Sbjct: 513 AWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENL-ICSKYTDLLRIA 571
Query: 173 ANPDYKGVCHIALAQ 187
+ + + A Q
Sbjct: 572 LMAEDEAIFEEAHKQ 586
>3krm_A Insulin-like growth factor 2 mRNA-binding protein 1; KH domain,
cell projection, cytoplasm, nucleus, phosphoprotein,
translation regulation; 2.75A {Homo sapiens}
Length = 163
Score = 31.7 bits (72), Expect = 0.18
Identities = 18/100 (18%), Positives = 31/100 (31%), Gaps = 6/100 (6%)
Query: 45 KIVSVMAPQQSERRPATTGSVKNAMTLTEKIFSRASEKPQLSPGDNVWVNVDILMTHDVC 104
KI P R TG + +I+ + E+ P + V + I +
Sbjct: 37 KIAPPETPDSKVRMVIITGPPEAQFKAQGRIYGKLKEENFFGPKEEVKLETHIRVPASAA 96
Query: 105 GP--GSFGIFKKEFGENAKVWDREKIVIIPDHYIFTSDER 142
G G G E ++V+ D +D+
Sbjct: 97 GRVIGKGGKTVNELQNLTAA----EVVVPRDQTPDENDQV 132
>1jg8_A L-ALLO-threonine aldolase; glycine biosynthesis, pyridoxal-5'-
phosphate, calcium binding site, structural genomics,
PSI; HET: LLP; 1.80A {Thermotoga maritima} SCOP:
c.67.1.1 PDB: 1lw4_A* 1lw5_A* 1m6s_A* 2fm1_A*
Length = 347
Score = 30.3 bits (69), Expect = 0.89
Identities = 10/28 (35%), Positives = 13/28 (46%), Gaps = 3/28 (10%)
Query: 190 HCRPG-EVLLGTDSHTCT--AGAFGQFA 214
H + G EV+L DSH GA +
Sbjct: 73 HTQRGDEVILEADSHIFWYEVGAMAVLS 100
>3ugn_A Tumor necrosis factor ligand superfamily member 1; structural
genomics, PSI-biology, NEW YORK structural genomi
research consortium, nysgrc; HET: NAG; 2.59A {Homo
sapiens} PDB: 4en0_A*
Length = 167
Score = 29.3 bits (65), Expect = 1.3
Identities = 8/32 (25%), Positives = 10/32 (31%), Gaps = 2/32 (6%)
Query: 84 QLSPGDNVWVNVDILMTHDVCGPGS--FGIFK 113
L G+ V V V + FG F
Sbjct: 135 HLEAGEEVVVRVLDERLVRLRDGTRSYFGAFM 166
>2rjl_A TNF superfamily ligand TL1A; TNFSF, cytokine, mutant, membrane,
transmembrane; 2.05A {Homo sapiens} PDB: 3k51_A 3mi8_A
2rjk_A 2qe3_A 2o0o_A 2re9_A
Length = 184
Score = 29.1 bits (64), Expect = 1.7
Identities = 10/32 (31%), Positives = 12/32 (37%), Gaps = 2/32 (6%)
Query: 84 QLSPGDNVWVNVDILMTHDVCGPGS--FGIFK 113
L GD + VNV + D FG F
Sbjct: 152 SLQEGDKLMVNVSDISLVDYTKEDKTFFGAFL 183
>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 = 28.4 bits (62), Expect = 2.2
Identities = 10/35 (28%), Positives = 14/35 (40%), Gaps = 8/35 (22%)
Query: 35 NKCKKLAVSKKIVSVMAPQQSERRPATTGSVKNAM 69
KKL S K+ A + PA ++K M
Sbjct: 20 QALKKLQASLKL---YAD---DSAPAL--AIKATM 46
>2tnf_A Protein (tumor necrosis factor alpha); lymphokine, cytokine,
cytotoxin, transmembrane, glycoprotein, signal-anchor;
1.40A {Mus musculus} SCOP: b.22.1.1 PDB: 1a8m_A 1tnf_A
2tun_A 3l9j_T 2az5_A* 3it8_A* 3alq_A 4tsv_A 5tsw_A
2e7a_A 2zpx_A 2zjc_A
Length = 156
Score = 27.8 bits (61), Expect = 2.9
Identities = 9/32 (28%), Positives = 13/32 (40%), Gaps = 2/32 (6%)
Query: 84 QLSPGDNVWVNVDILMTHDVCGPGS--FGIFK 113
QL GD + V++ D G FG+
Sbjct: 124 QLEKGDQLSAEVNLPKYLDFAESGQVYFGVIA 155
>1u5x_A Tumor necrosis factor ligand superfamily member 1; TNFSF, cytokine,
jelly-roll, trimer, hormone-growth factor C; 1.80A {Mus
musculus} SCOP: b.22.1.1 PDB: 1u5y_A 1u5z_A 3k48_A
1xu1_A 1xu2_A
Length = 140
Score = 26.8 bits (59), Expect = 5.8
Identities = 7/32 (21%), Positives = 9/32 (28%), Gaps = 2/32 (6%)
Query: 84 QLSPGDNVWVNVDILMTHDVCGPGS--FGIFK 113
L GD + V + P G K
Sbjct: 108 HLHQGDIITVKIPRANAKLSLSPHGTFLGFVK 139
>3lma_A Stage V sporulation protein AD (spovad); NESG, structural genomics,
PSI-2, protein structure initiative; 1.99A {Bacillus
licheniformis} PDB: 3lm6_A
Length = 347
Score = 27.3 bits (61), Expect = 7.4
Identities = 14/77 (18%), Positives = 30/77 (38%), Gaps = 2/77 (2%)
Query: 249 DYLLAKDLILQIIGEISVAGATYKSMEFVGTTVERLSMEERMTLCNMVVEAGGKNGVVPA 308
D LA DL+ Q + + A + + F+ + E + + + +++ G + A
Sbjct: 78 DIFLAGDLLNQNVT--ANYVARHLKIPFLCLFGACSTSMESIAISSALIDGGFAKRALAA 135
Query: 309 DGTTFKYLEDKTSLPYE 325
+ E + P E
Sbjct: 136 TSSHNATAERQFRYPTE 152
>3sma_A FRBF; N-acetyl transferase, acetyl COA binding, transferase; HET:
ACO; 2.00A {Streptomyces rubellomurinus}
Length = 286
Score = 27.0 bits (59), Expect = 9.9
Identities = 10/56 (17%), Positives = 18/56 (32%)
Query: 50 MAPQQSERRPATTGSVKNAMTLTEKIFSRASEKPQLSPGDNVWVNVDILMTHDVCG 105
M RR ++ +T + + PG + V+ + VCG
Sbjct: 1 MIRHIDARREDLEPDRQDRELVTRDRLASDLAALGVRPGGVLLVHASLSALGWVCG 56
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
0.318 0.135 0.398
Gapped
Lambda K H
0.267 0.0532 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,129,877
Number of extensions: 316739
Number of successful extensions: 693
Number of sequences better than 10.0: 1
Number of HSP's gapped: 685
Number of HSP's successfully gapped: 16
Length of query: 334
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 240
Effective length of database: 4,077,219
Effective search space: 978532560
Effective search space used: 978532560
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 (21.7 bits)
S2: 57 (26.2 bits)