RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 010403
(511 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 = 361 bits (927), Expect = e-116
Identities = 98/500 (19%), Positives = 161/500 (32%), Gaps = 86/500 (17%)
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 EQAFELTDASAERSAAGCTIKLNKEPIIEYLNSNIVLLKWMIAEGYGDRRTLERRIQGME 649
Query: 323 ----PYEPVYSDEKASFLSEYRFDISKL-EPLVAKPHSPDNRALARECKDVKIDRVYIGS 377
E + +D A + + D++ + EP++ P+ PD+ + KID V+IGS
Sbjct: 650 KWLANPELLEADADAEYAAVIDIDLADIKEPILCAPNDPDDARPLSAVQGEKIDEVFIGS 709
Query: 378 CTGGKTEDFLAAAKVFLASGKKV--KVPTFLVPATQKVWMDV----YTLPVPGSGGKTCS 431
C F AA K+ K ++ P T+ + Y
Sbjct: 710 CMTNI-GHFRAAGKLL--DAHKGQLPTRLWVAPPTRMDAAQLTEEGYY------------ 754
Query: 432 QIFEEAGCDTPASPSCGACLGGPKDTYARMNEPMVCVSTTNRNFPGRMGHKEGQIYLASP 491
+F ++G P C C+G AR+ + VST+ RNFP R+G ++LAS
Sbjct: 755 SVFGKSGARI-EIPGCSLCMGN----QARVADGATVVSTSTRNFPNRLG-TGANVFLASA 808
Query: 492 YTAAASALTGYVTDPREFLE 511
AA +AL G + P E+
Sbjct: 809 ELAAVAALIGKLPTPEEYQT 828
>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 = 224 bits (572), Expect = 3e-65
Identities = 98/351 (27%), Positives = 149/351 (42%), Gaps = 32/351 (9%)
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 EAGGKNGVVPADGTTFKYL--------EDKTSLPYEPVYSDEKASFLSEYRFDISKLEPL 349
E G V P + KYL + + + D + ++S+L+P
Sbjct: 261 EIGATTSVFPYNHRMKKYLSKTGRADIANLADEFKDHLVPDPGCHYDQVIEINLSELKPH 320
Query: 350 VAKPHSPDNRALARECKDV--------KIDRVYIGSCTGGKTEDFLAAAKVF---LASGK 398
+ P +PD E V I IGSCT ED +A V LA G
Sbjct: 321 INGPFTPDLAHPVAEVGSVAEKEGWPLDIRVGLIGSCTNSSYEDMGRSAAVAKQALAHGL 380
Query: 399 KVKVPTFLVPATQKVWMDVYTLPVPGSGGKTCSQIFEEAGCDTPASPSCGACLGGPKDTY 458
K K + P ++++ T+ G +Q+ + G A+ +CG C+G
Sbjct: 381 KCKSQFTITPGSEQI---RATIERDGY-----AQVLRDVGGIVLAN-ACGPCIGQWDRKD 431
Query: 459 ARMNEPMVCVSTTNRNFPGR-MGHKEGQIYLASPYTAAASALTGYVTDPRE 508
+ E V++ NRNF GR + E ++ SP A A+ G + E
Sbjct: 432 IKKGEKNTIVTSYNRNFTGRNDANPETHAFVTSPEIVTALAIAGTLKFNPE 482
>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 = 67.6 bits (166), Expect = 5e-12
Identities = 55/272 (20%), Positives = 97/272 (35%), Gaps = 50/272 (18%)
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 FGPGVAQLSIADRATIANMCPEYGATAAFFPVDEVSITYLVQTGRDEEKLKYIKKYLQAV 339
Query: 318 ----DKTSLPYEPVYSDEKASFLSEYRFDISKLEPLVAKPHSPDNRALARECKDV--KID 371
D +P ++ D+ + P + P P ++ + K
Sbjct: 340 GMFRDFNDPSQDPDFTQ-------VVELDLKTVVPCCSGPKRPQDKVAVSDMKKDFESCL 392
Query: 372 RVYIGSCTGGKTEDFLAAAKVFLASGKKVKVP 403
G + K F+ + +
Sbjct: 393 GAKQGFKGFQVAPEHHNDHKTFIYDNTEFTLA 424
Score = 31.4 bits (72), Expect = 0.91
Identities = 15/40 (37%), Positives = 19/40 (47%), Gaps = 5/40 (12%)
Query: 472 NRNFPGRMGHKEGQIYLASPYTAAASALTGYV-----TDP 506
NRNF GR+ YLASP A A+ G + +P
Sbjct: 534 NRNFEGRVHPNTRANYLASPPLVIAYAIAGTIRIDFEKEP 573
>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 = 46.8 bits (110), Expect = 2e-05
Identities = 50/404 (12%), Positives = 99/404 (24%), Gaps = 158/404 (39%)
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---LLAKDLILQIIGEISVAGATYKS 273
TD T + +L PD LL K
Sbjct: 276 -QVTDFLSAATTTHI------SLDHHSMTLTPDEVKSLLLK------------------- 309
Query: 274 MEFVGTTVERLSMEERMT---LCNMVVEAGGKNGVVPADGTTFKYLEDKTSLPYEPVYSD 330
++ + L E T +++ E+ + T+ ++ V D
Sbjct: 310 --YLDCRPQDLPREVLTTNPRRLSIIAES------IRDGLATWDN--------WKHVNCD 353
Query: 331 EKASFLSEYRFDISKLEPLVAKPHSPDNRALAREC----KDVKI 370
+ + + ++ LEP + R + I
Sbjct: 354 KLTTIIES---SLNVLEP-------AEYRKMFDRLSVFPPSAHI 387
Score = 36.0 bits (82), Expect = 0.034
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
>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 = 43.5 bits (102), Expect = 2e-04
Identities = 71/505 (14%), Positives = 141/505 (27%), Gaps = 170/505 (33%)
Query: 58 RPAT--TGSVKNAMTLTEKIFSRASEKPQLSPGDNVWVNVDILMTHDVCGPGSFGIFKKE 115
RP T GS+++ + + F AS QL +++
Sbjct: 7 RPLTLSHGSLEHVLLVPTASFFIAS---QL---------------------------QEQ 36
Query: 116 FGENAKVWDREKIVIIPDHYI-FTSDERANRNVDILRDFCMEQNIKYFYDIKDLGNFKAN 174
F I+P+ F +D+ +++ F + Y + L
Sbjct: 37 F-----------NKILPEPTEGFAADDEPTTPAELVGKF-----LGY---VSSLVEPSKV 77
Query: 175 PDYKGVCHIALAQ-EGHCRPGEVLLGTDSHTCTAGAFGQFATGIGNT--------DAGFV 225
+ V ++ L + E L G D H A + T + T A +
Sbjct: 78 GQFDQVLNLCLTEFEN-----CYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIM 132
Query: 226 LGTGKVLLKVPPT--LRFVLDGEMP------------DYLLAKDLILQIIGEISVAGATY 271
+ K + R V +G DY ++ L+ + + TY
Sbjct: 133 --AKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYF--EE--LRDLYQ------TY 180
Query: 272 KSMEFVGTTVERLSMEERMTLCNMVVEAGGKNGVVPADGTTFKYLEDKTSLPYEPVYSDE 331
VG ++ + TL ++ V ++LE+ ++ P +
Sbjct: 181 HV--LVGDLIKFSA----ETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSI 234
Query: 332 KASF-------LSEYR--FDISKLEPLVAKPHSPDNRALARECKDVKIDRVYIGSCTGGK 382
S L+ Y + P + + + + + + V I
Sbjct: 235 PISCPLIGVIQLAHYVVTAKLLGFTPGELRSYL---KGATGHSQGL-VTAVAIAETDSW- 289
Query: 383 TEDFLAAAKVFLASGKKVKVPTFLVPATQKVWMDVYTLPVPGSGGKTCSQIFEEAGCDTP 442
E F + + + V F+ + + +LP P + + E P
Sbjct: 290 -ESFFVSVRKAI------TVLFFIGVRCYEAY-PNTSLP-P-----SILEDSLENNEGVP 335
Query: 443 ASPSCGACLGGPKDTYARMNEPMVCVS------------TTNRNFPGRMGHKEGQIYLA- 489
+ PM+ +S TN + P Q+ ++
Sbjct: 336 S--------------------PMLSISNLTQEQVQDYVNKTNSHLPA-----GKQVEISL 370
Query: 490 --SPY----TAAASALTGYVTDPRE 508
+ +L G R+
Sbjct: 371 VNGAKNLVVSGPPQSLYGLNLTLRK 395
>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 = 36.9 bits (84), Expect = 0.004
Identities = 9/33 (27%), Positives = 16/33 (48%), Gaps = 10/33 (30%)
Query: 331 EKASFLSEYRFDISKLEPLVAKPHSPDNR-ALA 362
EK + + KL+ + K ++ D+ ALA
Sbjct: 18 EKQA--------LKKLQASL-KLYADDSAPALA 41
Score = 27.6 bits (60), Expect = 6.5
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
>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 = 32.4 bits (74), Expect = 0.17
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
>1b93_A Protein (methylglyoxal synthase); glycolytic bypass, lyase; 1.90A
{Escherichia coli} SCOP: c.24.1.2 PDB: 1egh_A 1ik4_A*
1s8a_A 1s89_A
Length = 152
Score = 31.4 bits (71), Expect = 0.35
Identities = 26/94 (27%), Positives = 37/94 (39%), Gaps = 13/94 (13%)
Query: 308 ADGTTFKYLEDKTSLPYEPVYS------DEKASFLSEYRFD--ISKLEPLVAKPHSPDNR 359
A GTT + T + + S + + +SE + D I +PL A PH PD +
Sbjct: 44 ATGTTGNLISRATGMNVNAMLSGPMGGDQQVGALISEGKIDVLIFFWDPLNAVPHDPDVK 103
Query: 360 ALARECKDVKIDRVYIGSCTGGKTEDFLAAAKVF 393
AL R I T T DF+ + F
Sbjct: 104 ALLRLA-----TVWNIPVATNVATADFIIQSPHF 132
>1vmd_A MGS, methylglyoxal synthase; TM1185, structural genomics, JCSG, P
structure initiative, PSI, joint center for structural
GENO lyase; 2.06A {Thermotoga maritima} SCOP: c.24.1.2
Length = 178
Score = 29.8 bits (67), Expect = 1.4
Identities = 23/94 (24%), Positives = 37/94 (39%), Gaps = 13/94 (13%)
Query: 308 ADGTTFKYLEDKTSLPYEPVYS------DEKASFLSEYRFD--ISKLEPLVAKPHSPDNR 359
A GTT L++K L + S + + ++E + D I +PL + H D +
Sbjct: 60 ATGTTGALLQEKLGLKVHRLKSGPLGGDQQIGAMIAEGKIDVLIFFWDPLEPQAHDVDVK 119
Query: 360 ALARECKDVKIDRVYIGSCTGGKTEDFLAAAKVF 393
AL R I T DFL ++ +
Sbjct: 120 ALIRIA-----TVYNIPVAITRSTADFLISSPLM 148
>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 = 1.6
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
>2xw6_A MGS, methylglyoxal synthase; lyase; 1.08A {Thermus SP} PDB: 2x8w_A
1wo8_A
Length = 134
Score = 29.0 bits (65), Expect = 1.7
Identities = 23/66 (34%), Positives = 34/66 (51%), Gaps = 8/66 (12%)
Query: 308 ADGTTFKYLEDKTSLPYEPVYS------DEKASFLSEYRFD--ISKLEPLVAKPHSPDNR 359
A GTT + +E+ T L E + S + + ++E R I +PL A+PH PD +
Sbjct: 36 ATGTTGRRIEEATGLTVEKLLSGPLGGDQQMGARVAEGRILAVIFFRDPLTAQPHEPDVQ 95
Query: 360 ALAREC 365
AL R C
Sbjct: 96 ALLRVC 101
>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 = 2.2
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 = 28.7 bits (63), Expect = 3.0
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
>1esc_A Esterase; 2.10A {Streptomyces scabiei} SCOP: c.23.10.1 PDB: 1esd_A
1ese_A
Length = 306
Score = 29.3 bits (64), Expect = 3.2
Identities = 17/126 (13%), Positives = 30/126 (23%), Gaps = 2/126 (1%)
Query: 377 SCTGGKTEDFLAAAKVFLASGKKVKVPTFLVPATQKVWMDVYTLPVPGSGGKTCSQIFEE 436
SC G F ++ +G+ L TQ + + +
Sbjct: 63 SCGGALIHHFWEKQELPFGAGELPPQQDALKQDTQLTVGSLGGNTLGFNRILKQCSDELR 122
Query: 437 AGCDTPASPSCGACLGGPKDTYARMNEPMVCVSTTNRNFPGRMGHKEGQIYLASPYTAAA 496
P P G + + + + +I +P A
Sbjct: 123 KPSLLPGDPVDGDEPAAKCGEFFGTGDGKQWLDDQFERVGAELEELLDRIGYFAP--DAK 180
Query: 497 SALTGY 502
L GY
Sbjct: 181 RVLVGY 186
>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 = 28.2 bits (62), Expect = 4.7
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
>1t1e_A Kumamolisin; proenzyme, prosubtilase, activation mechanism,
sedolisin, serine-carboxyl proteinase, hydrolase; 1.18A
{Bacillus SP} SCOP: c.41.1.2 d.58.3.2 PDB: 1t1g_A 1t1i_A
1gt9_1 1gtg_1 1gtj_1* 1gtl_1* 1sio_A* 1sn7_A 1zvj_A
1siu_A 1zvk_A
Length = 552
Score = 28.7 bits (63), Expect = 5.9
Identities = 30/131 (22%), Positives = 39/131 (29%), Gaps = 11/131 (8%)
Query: 373 VYIGSCTGGKTEDFLAAAKVFLASGKKVKVPTFLVPATQKVWMDVYTLPVPGSGGKTCSQ 432
G G DF AA+ LA G V + + VW D G G S+
Sbjct: 355 STDGEQDGLYHVDFPAASPYVLACGGTRLVASAGRIERETVWNDGPDGGSTGGG---VSR 411
Query: 433 IFEE----AGCDTPASPSCGACLGGPKDTYARMNEPMVCVSTTNRNFPGRMGHKEGQIYL 488
IF + P S + GA G A +P + G
Sbjct: 412 IFPLPSWQERANVPPSANPGAGSGRGVPDVAGNADPATGYEVVIDGETTVI----GGTAA 467
Query: 489 ASPYTAAASAL 499
+P AA A
Sbjct: 468 VAPLFAALVAR 478
>1g8a_A Fibrillarin-like PRE-rRNA processing protein; rRNA binding, RNA
binding, structural genomics, BSGC structure funded by
NIH; 1.40A {Pyrococcus horikoshii} SCOP: c.66.1.3 PDB:
2nnw_B 3nmu_F* 3nvk_I* 3nvm_B 1pry_A
Length = 227
Score = 27.7 bits (61), Expect = 7.7
Identities = 15/122 (12%), Positives = 40/122 (32%), Gaps = 19/122 (15%)
Query: 280 TVERLSMEERMTLCNMVVEAGGKNGVVPADGTTFKYLEDKTSLPYEPVY----SDEKASF 335
++ ++ ++ + + A GTT ++ D ++ S
Sbjct: 65 GLKNFPIKPGKSVLYLGI----------ASGTTASHVSDIVG-WEGKIFGIEFSPRVLRE 113
Query: 336 LSEYRFDISKLEPLVAKPHSPDNRALARECKDVKIDRVYIGSCTGGKTEDFLAAAKVFLA 395
L + + P++ P+ K+D ++ + + + A+V+L
Sbjct: 114 LVPIVEERRNIVPILGDATKPEEYRALVP----KVDVIFEDVAQPTQAKILIDNAEVYLK 169
Query: 396 SG 397
G
Sbjct: 170 RG 171
>2f9f_A First mannosyl transferase (WBAZ-1); alpha-beta protein, structural
genomics, PSI, protein struct initiative; 1.80A
{Archaeoglobus fulgidus} SCOP: c.87.1.8
Length = 177
Score = 27.1 bits (61), Expect = 9.4
Identities = 9/43 (20%), Positives = 16/43 (37%), Gaps = 1/43 (2%)
Query: 353 PHSPDNRALARECKDVKIDRV-YIGSCTGGKTEDFLAAAKVFL 394
AR+ + D V ++GS + + D + K L
Sbjct: 60 SKGDHAERYARKIMKIAPDNVKFLGSVSEEELIDLYSRCKGLL 102
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 0.403
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: 7,949,658
Number of extensions: 499290
Number of successful extensions: 1142
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1125
Number of HSP's successfully gapped: 24
Length of query: 511
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 413
Effective length of database: 3,965,535
Effective search space: 1637765955
Effective search space used: 1637765955
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: 59 (27.0 bits)