RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 013449
(443 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 = 356 bits (914), Expect = e-115
Identities = 97/488 (19%), Positives = 159/488 (32%), Gaps = 86/488 (17%)
Query: 1 MTLTEKIFSRASEKPQLSPGDNVWVNVDILMTHDVCGPGSFGIFKKEFGENAKVWDREKI 60
+L +K+ RA + PG + + + D GP + K + + +
Sbjct: 382 FSLAQKMVGRACGVKGIRPGAYCEPKMTSVGSQDTTGPMTRDELKDL---ACLGFSADLV 438
Query: 61 VIIPDHYIFTSDERANRNVDILRDFCMEQNIKYFYDIKDLGNFKANPDYKGVCHIALAQE 120
+ H L DF M + GV H L
Sbjct: 439 MQSFCHTAAYPKPVDVNTHHTLPDFIMNRGGVSLRP------------GDGVIHSWL--N 484
Query: 121 GHCRPGEVLLGTDSHTCTAGAFGQFATGIGNTDAGFVLGTGKVLLKVPPTLRFVLDGEMP 180
P V G DSHT + G+ F TG + L +P ++ G+M
Sbjct: 485 RMLLPDTVGTGGDSHTRFPIGI---SFPAGSGLVAFAAATGVMPLDMPESVLVRFKGKMQ 541
Query: 181 DYLLAKDLILQIIGEISVAGAT----------YKSMEFVGTTVERLSMEERMTLCNMVVE 230
+ +DL+ I G + + L +E+ L + E
Sbjct: 542 PGITLRDLVHAIPLYAIKQGLLTVEKKGKKNIFSGRILEIEGLPDLKVEQAFELTDASAE 601
Query: 231 AGGKNGVVPADG-TTFKYLEDKTSL---------------------------PYEPVYSD 262
+ + +YL L E + +D
Sbjct: 602 RSAAGCTIKLNKEPIIEYLNSNIVLLKWMIAEGYGDRRTLERRIQGMEKWLANPELLEAD 661
Query: 263 EKASFLSEYRFDISKL-EPLVAKPHSPDNRALARECKDVKIDRVYIGSCTGGKTEDFLAA 321
A + + D++ + EP++ P+ PD+ + KID V+IGSC F AA
Sbjct: 662 ADAEYAAVIDIDLADIKEPILCAPNDPDDARPLSAVQGEKIDEVFIGSCMTNI-GHFRAA 720
Query: 322 AKVFLASGKKV--KVPTFLVPATQKVWMDV----YTLPVPGSGGKTCSQIFEEAGCDTPA 375
K+ K ++ P T+ + Y +F ++G
Sbjct: 721 GKLL--DAHKGQLPTRLWVAPPTRMDAAQLTEEGYY------------SVFGKSGARI-E 765
Query: 376 SPSCGACLGGPKDTYARMNEPMVCVSTTNRNFPGRMGHKEGQIYLASPYTAAASALTGYV 435
P C C+G AR+ + VST+ RNFP R+G ++LAS AA +AL G +
Sbjct: 766 IPGCSLCMGN----QARVADGATVVSTSTRNFPNRLG-TGANVFLASAELAAVAALIGKL 820
Query: 436 TDPREFLE 443
P E+
Sbjct: 821 PTPEEYQT 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 = 222 bits (569), Expect = 1e-65
Identities = 98/351 (27%), Positives = 149/351 (42%), Gaps = 32/351 (9%)
Query: 111 GVCH-IALAQEGHCRPGEVLLGTDSHTCTAGAFGQFATGIGNTDAGFVLGTGKVLLKVPP 169
G+ H I L E + PG +L+GTDSHT G G G+G DA V+ LK P
Sbjct: 143 GIIHQIIL--ENYAYPGVLLIGTDSHTPNGGGLGGICIGVGGADAVDVMAGIPWELKCPK 200
Query: 170 TLRFVLDGEMPDYLLAKDLILQIIGEISVAGATYKSMEFVGTTVERLSMEERMTLCNMVV 229
+ L G + + KD+IL++ G ++V G T +E+ G V+ +S T+CNM
Sbjct: 201 VIGVKLTGSLSGWTSPKDVILKVAGILTVKGGTGAIVEYHGPGVDSISCTGMATICNMGA 260
Query: 230 EAGGKNGVVPADGTTFKYL--------EDKTSLPYEPVYSDEKASFLSEYRFDISKLEPL 281
E G V P + KYL + + + D + ++S+L+P
Sbjct: 261 EIGATTSVFPYNHRMKKYLSKTGRADIANLADEFKDHLVPDPGCHYDQVIEINLSELKPH 320
Query: 282 VAKPHSPDNRALARECKDV--------KIDRVYIGSCTGGKTEDFLAAAKVF---LASGK 330
+ P +PD E V I IGSCT ED +A V LA G
Sbjct: 321 INGPFTPDLAHPVAEVGSVAEKEGWPLDIRVGLIGSCTNSSYEDMGRSAAVAKQALAHGL 380
Query: 331 KVKVPTFLVPATQKVWMDVYTLPVPGSGGKTCSQIFEEAGCDTPASPSCGACLGGPKDTY 390
K K + P ++++ T+ G +Q+ + G A+ +CG C+G
Sbjct: 381 KCKSQFTITPGSEQI---RATIERDGY-----AQVLRDVGGIVLAN-ACGPCIGQWDRKD 431
Query: 391 ARMNEPMVCVSTTNRNFPGR-MGHKEGQIYLASPYTAAASALTGYVTDPRE 440
+ 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 = 67.2 bits (165), Expect = 5e-12
Identities = 55/272 (20%), Positives = 97/272 (35%), Gaps = 50/272 (18%)
Query: 102 NFKANPDYKGVCH---------IALAQEGHCRPGEVLLGTDSHTCTAGAFGQFATGIGNT 152
N + P G+ H + Q+G+ P + L+GTDSHT G G+G
Sbjct: 165 NMRIIPPGSGIIHQVNLEYLARVVFDQDGYYYP-DSLVGTDSHTTMIDGLGILGWGVGGI 223
Query: 153 DAGFV-LGTGKVLLKVPPTLRFVLDGEMPDYLLAKDLIL---QIIGEISVAGATYKSMEF 208
+A V LG + + +P + + L G+ + + D++L + + ++ V G K +EF
Sbjct: 224 EAEAVMLGQ-PISMVLPQVIGYRLMGKPHPLVTSTDIVLTITKHLRQVGVVG---KFVEF 279
Query: 209 VGTTVERLSMEERMTLCNMVVEAGGKNGVVPADGTTFKYLE------------------- 249
G V +LS+ +R T+ NM E G P D + YL
Sbjct: 280 FGPGVAQLSIADRATIANMCPEYGATAAFFPVDEVSITYLVQTGRDEEKLKYIKKYLQAV 339
Query: 250 ----DKTSLPYEPVYSDEKASFLSEYRFDISKLEPLVAKPHSPDNRALARECKDV--KID 303
D +P ++ D+ + P + P P ++ + K
Sbjct: 340 GMFRDFNDPSQDPDFTQ-------VVELDLKTVVPCCSGPKRPQDKVAVSDMKKDFESCL 392
Query: 304 RVYIGSCTGGKTEDFLAAAKVFLASGKKVKVP 335
G + K F+ + +
Sbjct: 393 GAKQGFKGFQVAPEHHNDHKTFIYDNTEFTLA 424
Score = 31.0 bits (71), Expect = 0.83
Identities = 15/40 (37%), Positives = 19/40 (47%), Gaps = 5/40 (12%)
Query: 404 NRNFPGRMGHKEGQIYLASPYTAAASALTGYV-----TDP 438
NRNF GR+ YLASP A A+ G + +P
Sbjct: 534 NRNFEGRVHPNTRANYLASPPLVIAYAIAGTIRIDFEKEP 573
>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 = 50.0 bits (119), Expect = 1e-06
Identities = 78/483 (16%), Positives = 132/483 (27%), Gaps = 205/483 (42%)
Query: 48 FGENAKVWDREKIVIIPDHYIFTSDERANRNVDILRDFCMEQNIKYFYDIKDLGNFKANP 107
F E ++ +++ I S E + + D K F ++ + NP
Sbjct: 170 FEELRDLYQTYHVLVGD--LIKFSAETLSELIRTTLDAE-----KVFTQGLNILEWLENP 222
Query: 108 ------DYKGVCH-------IALAQEGH----CR-----PGEV---LLGTDSHTCTAGAF 142
DY + I + Q H + PGE+ L G + G
Sbjct: 223 SNTPDKDY--LLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGAT--GHSQGLV 278
Query: 143 GQFATGIGNTDAGFVLGTGKVL----------------LKVPPTLR--FVLDGE-MPDYL 183
A ++ F + K + +PP++ + + E +P +
Sbjct: 279 TAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPM 338
Query: 184 LAKDLILQIIGEISVAGATYKSME-FVGTTVERLSMEER--MTLCNMVVEAGGKNGVV-- 238
L S++ T + ++ +V T L ++ ++L N G KN VV
Sbjct: 339 L------------SISNLTQEQVQDYVNKTNSHLPAGKQVEISLVN-----GAKNLVVSG 381
Query: 239 -PADGTTFK-YLE--------DKTSLPYEPVYSDEKASFLSEYRFDISKLEPLVAKP-HS 287
P L D++ +P+ S+ K F RF L P VA P HS
Sbjct: 382 PPQSLYGLNLTLRKAKAPSGLDQSRIPF----SERKLKF--SNRF----L-P-VASPFHS 429
Query: 288 PDNRALARECKDVKIDRVYIGSCTGGKTEDFLAAAKVFLASGKKVKVPTFLVPATQKVWM 347
LVPA+ +
Sbjct: 430 H------------------------------------------------LLVPASDLINK 441
Query: 348 DVYT---------LPVP------GS---------GGKTCSQIFE-----EAGCDTPAS-- 376
D+ + +P GS + I E A+
Sbjct: 442 DLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHI 501
Query: 377 ----PSCGACLGGPKDTYARMNEPMVCVSTTNRNFPGRMGHKEG-QIYLASPYTAAASAL 431
P + LG T+RN G G ++ +A
Sbjct: 502 LDFGPGGASGLG----------------VLTHRNKDGT-----GVRVIVAGTLDINPDDD 540
Query: 432 TGY 434
G+
Sbjct: 541 YGF 543
Score = 42.0 bits (98), Expect = 5e-04
Identities = 58/423 (13%), Positives = 118/423 (27%), Gaps = 126/423 (29%)
Query: 69 FTSDERANRNVDILRDFCMEQNIKYFYDIKDLGNFKANPDYKGVCHIALAQ-EGHCRPGE 127
F +D+ +++ F + Y + L + V ++ L + E
Sbjct: 48 FAADDEPTTPAELVGKF-----LGY---VSSLVEPSKVGQFDQVLNLCLTEFEN-----C 94
Query: 128 VLLGTDSHTCTAGAFGQFATGIGNT--------DAGFVLGTGKVLLKVPPT--LRFVLDG 177
L G D H A + T + T A + + K + R V +G
Sbjct: 95 YLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIM--AKRPFDKKSNSALFRAVGEG 152
Query: 178 EMP------------DYLLAKDLILQIIGEISVAGATYKSMEFVGTTVERLSMEERMTLC 225
DY ++ L+ + + TY VG ++ + TL
Sbjct: 153 NAQLVAIFGGQGNTDDYF--EE--LRDLYQ------TYHV--LVGDLIKFSA----ETLS 196
Query: 226 NMVVEAGGKNGVVPADGTTFKYLEDKTSLPYEPVYSDEKASF-------LSEYR--FDIS 276
++ V ++LE+ ++ P + S L+ Y +
Sbjct: 197 ELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLL 256
Query: 277 KLEPLVAKPHSPDNRALARECKDVKIDRVYIGSCTGGKTEDFLAAAKVFLASGKKVKVPT 336
P + + + + + + V I E F + + + V
Sbjct: 257 GFTPGELRSYL---KGATGHSQGL-VTAVAIAETDSW--ESFFVSVRKAI------TVLF 304
Query: 337 FLVPATQKVWMDVYTLPVPGSGGKTCSQIFEEAGCDTPASPSCGACLGGPKDTYARMNEP 396
F+ + + +LP P + + E P+ P
Sbjct: 305 FIGVRCYEAY-PNTSLP-P-----SILEDSLENNEGVPS--------------------P 337
Query: 397 MVCVS------------TTNRNFPGRMGHKEGQIYLA---SPY----TAAASALTGYVTD 437
M+ +S TN + P Q+ ++ + +L G
Sbjct: 338 MLSISNLTQEQVQDYVNKTNSHLPA-----GKQVEISLVNGAKNLVVSGPPQSLYGLNLT 392
Query: 438 PRE 440
R+
Sbjct: 393 LRK 395
Score = 29.2 bits (65), Expect = 3.1
Identities = 11/47 (23%), Positives = 18/47 (38%), Gaps = 10/47 (21%)
Query: 350 YTLPVPGSGGKTCSQIFEEAGCDTPASPSCGACLGGPKDTYARMNEP 396
+ L VP + SQ+ E+ L P + +A +EP
Sbjct: 18 HVLLVPTASFFIASQLQEQ----------FNKILPEPTEGFAADDEP 54
>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 = 42.9 bits (100), Expect = 2e-04
Identities = 36/319 (11%), Positives = 72/319 (22%), Gaps = 132/319 (41%)
Query: 12 SEKPQLSPGDNV-WVNV-------DIL---------MTHDVCGPGSFGIFKKEFGENAKV 54
S K Q + W+N+ +L + + K + +
Sbjct: 173 SYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQA 232
Query: 55 WDREKIVIIPDHYIFTSDERANRNVDILRDFCMEQNIKYFYDIKDLGNFKANPDYKGVCH 114
R + + +L + + F +L
Sbjct: 233 ELRR----------LLKSKPYENCLLVLLNVQNAKAWNAF----NLS------------- 265
Query: 115 IALAQEGHCRPGEVLLGT-DSHTCTAGAFGQFATGIGNTDAGFVLGTGKVLLKVPPTLRF 173
C+ +LL T TD T + +L
Sbjct: 266 --------CK---ILLTTRFK---------------QVTDFLSAATTTHI------SLDH 293
Query: 174 VLDGEMPDY---LLAKDLILQIIGEISVAGATYKSMEFVGTTVERLSMEERMT---LCNM 227
PD LL K ++ + L E T ++
Sbjct: 294 HSMTLTPDEVKSLLLK---------------------YLDCRPQDLPREVLTTNPRRLSI 332
Query: 228 VVEAGGKNGVVPADGTTFKYLEDKTSLPYEPVYSDEKASFLSEYRFDISKLEPLVAKPHS 287
+ E+ + T+ ++ V D+ + + ++ LEP
Sbjct: 333 IAES------IRDGLATWDN--------WKHVNCDKLTTIIES---SLNVLEP------- 368
Query: 288 PDNRALAREC----KDVKI 302
+ R + I
Sbjct: 369 AEYRKMFDRLSVFPPSAHI 387
Score = 31.7 bits (71), Expect = 0.61
Identities = 13/55 (23%), Positives = 22/55 (40%), Gaps = 3/55 (5%)
Query: 67 YIFTSDERANRNVDILRDFCM--EQNIKYFYDIKDLGNFKANPDYKGVCHIALAQ 119
YI +D + R V+ + DF E+N+ DL + + + A Q
Sbjct: 533 YICDNDPKYERLVNAILDFLPKIEENL-ICSKYTDLLRIALMAEDEAIFEEAHKQ 586
>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 = 37.2 bits (85), Expect = 0.003
Identities = 9/33 (27%), Positives = 16/33 (48%), Gaps = 10/33 (30%)
Query: 263 EKASFLSEYRFDISKLEPLVAKPHSPDNR-ALA 294
EK + + KL+ + K ++ D+ ALA
Sbjct: 18 EKQA--------LKKLQASL-KLYADDSAPALA 41
>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 = 0.33
Identities = 26/94 (27%), Positives = 37/94 (39%), Gaps = 13/94 (13%)
Query: 240 ADGTTFKYLEDKTSLPYEPVYS------DEKASFLSEYRFD--ISKLEPLVAKPHSPDNR 291
A GTT + T + + S + + +SE + D I +PL A PH PD +
Sbjct: 44 ATGTTGNLISRATGMNVNAMLSGPMGGDQQVGALISEGKIDVLIFFWDPLNAVPHDPDVK 103
Query: 292 ALARECKDVKIDRVYIGSCTGGKTEDFLAAAKVF 325
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 = 29.5 bits (66), Expect = 1.4
Identities = 23/94 (24%), Positives = 37/94 (39%), Gaps = 13/94 (13%)
Query: 240 ADGTTFKYLEDKTSLPYEPVYS------DEKASFLSEYRFD--ISKLEPLVAKPHSPDNR 291
A GTT L++K L + S + + ++E + D I +PL + H D +
Sbjct: 60 ATGTTGALLQEKLGLKVHRLKSGPLGGDQQIGAMIAEGKIDVLIFFWDPLEPQAHDVDVK 119
Query: 292 ALARECKDVKIDRVYIGSCTGGKTEDFLAAAKVF 325
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 = 30.0 bits (68), Expect = 1.5
Identities = 10/28 (35%), Positives = 13/28 (46%), Gaps = 3/28 (10%)
Query: 122 HCRPG-EVLLGTDSHTCT--AGAFGQFA 146
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: 240 ADGTTFKYLEDKTSLPYEPVYS------DEKASFLSEYRFD--ISKLEPLVAKPHSPDNR 291
A GTT + +E+ T L E + S + + ++E R I +PL A+PH PD +
Sbjct: 36 ATGTTGRRIEEATGLTVEKLLSGPLGGDQQMGARVAEGRILAVIFFRDPLTAQPHEPDVQ 95
Query: 292 ALAREC 297
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 = 1.8
Identities = 8/32 (25%), Positives = 10/32 (31%), Gaps = 2/32 (6%)
Query: 16 QLSPGDNVWVNVDILMTHDVCGPGS--FGIFK 45
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 = 2.4
Identities = 10/32 (31%), Positives = 12/32 (37%), Gaps = 2/32 (6%)
Query: 16 QLSPGDNVWVNVDILMTHDVCGPGS--FGIFK 45
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 = 28.9 bits (63), Expect = 3.0
Identities = 17/126 (13%), Positives = 30/126 (23%), Gaps = 2/126 (1%)
Query: 309 SCTGGKTEDFLAAAKVFLASGKKVKVPTFLVPATQKVWMDVYTLPVPGSGGKTCSQIFEE 368
SC G F ++ +G+ L TQ + + +
Sbjct: 63 SCGGALIHHFWEKQELPFGAGELPPQQDALKQDTQLTVGSLGGNTLGFNRILKQCSDELR 122
Query: 369 AGCDTPASPSCGACLGGPKDTYARMNEPMVCVSTTNRNFPGRMGHKEGQIYLASPYTAAA 428
P P G + + + + +I +P A
Sbjct: 123 KPSLLPGDPVDGDEPAAKCGEFFGTGDGKQWLDDQFERVGAELEELLDRIGYFAP--DAK 180
Query: 429 SALTGY 434
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 = 3.9
Identities = 9/32 (28%), Positives = 13/32 (40%), Gaps = 2/32 (6%)
Query: 16 QLSPGDNVWVNVDILMTHDVCGPGS--FGIFK 45
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 = 4.3
Identities = 30/131 (22%), Positives = 39/131 (29%), Gaps = 11/131 (8%)
Query: 305 VYIGSCTGGKTEDFLAAAKVFLASGKKVKVPTFLVPATQKVWMDVYTLPVPGSGGKTCSQ 364
G G DF AA+ LA G V + + VW D G G S+
Sbjct: 355 STDGEQDGLYHVDFPAASPYVLACGGTRLVASAGRIERETVWNDGPDGGSTGGG---VSR 411
Query: 365 IFEE----AGCDTPASPSCGACLGGPKDTYARMNEPMVCVSTTNRNFPGRMGHKEGQIYL 420
IF + P S + GA G A +P + G
Sbjct: 412 IFPLPSWQERANVPPSANPGAGSGRGVPDVAGNADPATGYEVVIDGETTVI----GGTAA 467
Query: 421 ASPYTAAASAL 431
+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 = 7.5
Identities = 15/122 (12%), Positives = 40/122 (32%), Gaps = 19/122 (15%)
Query: 212 TVERLSMEERMTLCNMVVEAGGKNGVVPADGTTFKYLEDKTSLPYEPVY----SDEKASF 267
++ ++ ++ + + A GTT ++ D ++ S
Sbjct: 65 GLKNFPIKPGKSVLYLGI----------ASGTTASHVSDIVG-WEGKIFGIEFSPRVLRE 113
Query: 268 LSEYRFDISKLEPLVAKPHSPDNRALARECKDVKIDRVYIGSCTGGKTEDFLAAAKVFLA 327
L + + P++ P+ K+D ++ + + + A+V+L
Sbjct: 114 LVPIVEERRNIVPILGDATKPEEYRALVP----KVDVIFEDVAQPTQAKILIDNAEVYLK 169
Query: 328 SG 329
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 = 26.7 bits (60), Expect = 9.9
Identities = 9/43 (20%), Positives = 16/43 (37%), Gaps = 1/43 (2%)
Query: 285 PHSPDNRALARECKDVKIDRV-YIGSCTGGKTEDFLAAAKVFL 326
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
0.319 0.137 0.416
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: 7,119,166
Number of extensions: 452598
Number of successful extensions: 1071
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1055
Number of HSP's successfully gapped: 23
Length of query: 443
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 346
Effective length of database: 3,993,456
Effective search space: 1381735776
Effective search space used: 1381735776
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 59 (27.0 bits)