RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15838
(399 letters)
>3dou_A Ribosomal RNA large subunit methyltransferase J; cell division,
structural genomics, protein structure initiative, PSI;
HET: SAM; 1.45A {Thermoplasma volcanium}
Length = 191
Score = 55.2 bits (134), Expect = 3e-09
Identities = 25/90 (27%), Positives = 43/90 (47%), Gaps = 2/90 (2%)
Query: 273 LVTADGSFDCQGNPGEQEILVGKLHYREVQIALSLLHNGGNLVIKIFTIFESDTICLMYL 332
V +D G P + ++ R ++IA+ L NGGN+++K F T + +
Sbjct: 94 DVVSDAMAKVSGIPSRDHAVSYQIGQRVMEIAVRYLRNGGNVLLKQFQ--GDMTNDFIAI 151
Query: 333 LACLFTSVDLFKPATSKEGNSEIYVICRDF 362
F+S + KP S+ +SEIY++ F
Sbjct: 152 WRKNFSSYKISKPPASRGSSSEIYIMFFGF 181
>2nyu_A Putative ribosomal RNA methyltransferase 2; SAM, structural
genomics, structural genomics consortium, SGC; HET: SAM;
1.76A {Homo sapiens}
Length = 196
Score = 55.2 bits (134), Expect = 3e-09
Identities = 16/61 (26%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 303 IALSLLHNGGNLVIKIFTIFESDTICLMYLLACLFTSVDLFKPATSKEGNSEIYVICRDF 362
+ +L GG + K + S + L L F +V + KP S++ +SE+Y + +
Sbjct: 130 VTPDILQPGGTFLCKTWA--GSQSRRLQRRLTEEFQNVRIIKPEASRKESSEVYFLATQY 187
Query: 363 H 363
H
Sbjct: 188 H 188
>1ej0_A FTSJ; methyltransferase, adoMet, adenosyl methionine, heat shock
proteins, 23S ribosomal RNA; HET: SAM; 1.50A
{Escherichia coli} SCOP: c.66.1.2 PDB: 1eiz_A*
Length = 180
Score = 54.8 bits (133), Expect = 4e-09
Identities = 15/60 (25%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 303 IALSLLHNGGNLVIKIFTIFESDTICLMYLLACLFTSVDLFKPATSKEGNSEIYVICRDF 362
+ +L GG+ V+K+F + + LFT V + KP +S+ + E+Y++
Sbjct: 121 MCRDVLAPGGSFVVKVFQ--GEGFDEYLREIRSLFTKVKVRKPDSSRARSREVYIVATGR 178
>2plw_A Ribosomal RNA methyltransferase, putative; malaria, SAM, structural
genomics, structural genomics consortium, SGC; HET: SAM;
1.70A {Plasmodium falciparum}
Length = 201
Score = 54.9 bits (133), Expect = 4e-09
Identities = 17/61 (27%), Positives = 30/61 (49%), Gaps = 2/61 (3%)
Query: 302 QIALSLLHNGGNLVIKIFTIFESDTICLMYLLACLFTSVDLFKPATSKEGNSEIYVICRD 361
++ GG ++K++ S T L L +F V KP S+ + EIY++C++
Sbjct: 138 HFMEQYINIGGTYIVKMYL--GSQTNNLKTYLKGMFQLVHTTKPKASRNESREIYLVCKN 195
Query: 362 F 362
F
Sbjct: 196 F 196
>3evf_A RNA-directed RNA polymerase NS5; NS5 methyltransferase, RNA CAP
binding, binding, capsid protein; HET: GTA SAH; 1.45A
{Yellow fever virus} PDB: 3evb_A* 3evc_A* 3evd_A*
3eve_A* 3eva_A*
Length = 277
Score = 48.4 bits (115), Expect = 1e-06
Identities = 13/82 (15%), Positives = 26/82 (31%), Gaps = 9/82 (10%)
Query: 297 HYREVQIALSLL--------HNGGNLVIKIFTIFESDTICLMYLLACLFTSVDLFKPATS 348
E + + +L N +K+ + D + + LL F + P +
Sbjct: 155 SVTEGERTVRVLDTVEKWLACGVDNFCVKVLAPYMPDVLEKLELLQRRFGGTVIRNPLSR 214
Query: 349 KEGNSEIYVICRDFHSVCSQVW 370
E+Y + +V V
Sbjct: 215 NS-THEMYYVSGARSNVTFTVN 235
>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 = 1e-04
Identities = 29/191 (15%), Positives = 52/191 (27%), Gaps = 58/191 (30%)
Query: 186 LKLHHPRMQWDW-IANTLNPHYE--GNSF--------DEMISDDRLILGTHRKWYFGPDN 234
L L H ++ + F + +DD P
Sbjct: 9 LTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDE------------PTT 56
Query: 235 TGNILVQNFVSHFKQHIGFLLIHDTSLAPHCTHASHCFLVTADGSFDCQGNPGEQEILVG 294
V F +G++ + + P L F E L G
Sbjct: 57 -----PAELVGKF---LGYV---SSLVEPSKVGQFDQVLNLCLTEF-------ENCYLEG 98
Query: 295 K-LHYREVQIALSLLHNGGNLVIKIFTIFESDTICLMYLLACLFTSVDLFKPATS----- 348
+H +A LL ++K + ++ Y+ A + K + S
Sbjct: 99 NDIH----ALAAKLLQENDTTLVKTKELIKN------YITARIMAKRPFDKKSNSALFRA 148
Query: 349 -KEGNSEIYVI 358
EGN+++ I
Sbjct: 149 VGEGNAQLVAI 159
Score = 32.7 bits (74), Expect = 0.26
Identities = 40/242 (16%), Positives = 65/242 (26%), Gaps = 96/242 (39%)
Query: 122 FVNRSSKVVQSVKRFIKPQLATQAWCKFHEIVHSYNIV---------PQQENSFTSIHLC 172
+ S++ + + R T K NI+ P ++ +L
Sbjct: 187 LIKFSAETLSELIR------TTLDAEKVFT--QGLNILEWLENPSNTPDKD------YLL 232
Query: 173 EAPGAF----ITSLNHYL---KLH--HPRMQWDWIANTLNPHYEG----------NSFDE 213
P + + L HY+ KL P ++ H +G +S++
Sbjct: 233 SIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATG-HSQGLVTAVAIAETDSWES 291
Query: 214 MISDDRLILGTHRKWYFGPDNTGNILVQNFVSHFKQHIGFLLIHDTSLAPHCTHASHCFL 273
R + F IG C A
Sbjct: 292 FFVSVRKAI----TVLF-------------------FIGV----------RCYEAYPNTS 318
Query: 274 VTADGSFDC----QGNPG----------EQ-EILVGKL--HY-REVQIALSLLHNGG-NL 314
+ D +G P EQ + V K H Q+ +S L NG NL
Sbjct: 319 LPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEIS-LVNGAKNL 377
Query: 315 VI 316
V+
Sbjct: 378 VV 379
Score = 31.6 bits (71), Expect = 0.66
Identities = 37/279 (13%), Positives = 77/279 (27%), Gaps = 114/279 (40%)
Query: 142 ATQAWCKFHEIVHSYNIVPQQENSFTS-IHLCEAPGAFITSLNHYLKLHHPRMQWDWIAN 200
A+Q +F++I+ ++ T+ L G F L + +++
Sbjct: 30 ASQLQEQFNKILPEPTEGFAADDEPTTPAELV---GKF---------LGY-------VSS 70
Query: 201 TLNPHYEGNSFDEMISDDRLILGTHRKWYFGPDNTGNILVQNFVSHFKQHIGFLLIHDTS 260
+ P + FD+ ++ ++ F+ +L +D
Sbjct: 71 LVEPS-KVGQFDQ-------------------------VLNLCLTEFEN--CYLEGNDI- 101
Query: 261 LAPHCTHASHCFLVTADGSFDCQGNPGEQEILVGKLHYREVQIAL---------SLL--- 308
H D +E++ +Y +I S L
Sbjct: 102 ---------HALAAKLLQEND-TTLVKTKELI---KNYITARIMAKRPFDKKSNSALFRA 148
Query: 309 HNGGNLVIKIFTIF----ESDTICLMYL--LACLFTS-----VDLFKPAT--------SK 349
GN ++ IF +D Y L L+ + DL K + +
Sbjct: 149 VGEGN--AQLVAIFGGQGNTDD----YFEELRDLYQTYHVLVGDLIKFSAETLSELIRTT 202
Query: 350 EGNSEIYVICRDFHSVCSQVWI----------YLNLPPV 378
+++ + W+ YL P+
Sbjct: 203 LDAEKVFTQGLNILE-----WLENPSNTPDKDYLLSIPI 236
Score = 30.8 bits (69), Expect = 0.93
Identities = 13/85 (15%), Positives = 32/85 (37%), Gaps = 22/85 (25%)
Query: 31 KNFSEEALNHFNKKYQL----------YNASSS-YKLSDGETWFSQTKWQNTQLAPTLFS 79
+FS+EAL + ++ YN + Y + G+ + + +
Sbjct: 1819 ASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAA-GDL-------RALDTVTNVLN 1870
Query: 80 HFNIKTIPSIKLE---NFQALKEKL 101
++ I I+L+ + + ++ L
Sbjct: 1871 FIKLQKIDIIELQKSLSLEEVEGHL 1895
Score = 29.6 bits (66), Expect = 2.3
Identities = 23/119 (19%), Positives = 33/119 (27%), Gaps = 50/119 (42%)
Query: 10 LESYGLPSCFASTKHSYKKKPKNFSEEALNHFN-----KKYQLYNASSSYKLSDGE---- 60
++YG S P HF + + Y+A + DG+
Sbjct: 1654 KDTYGF-----SILDIVINNPV----NLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTE 1704
Query: 61 -------------TWFS------QTKWQNTQLAPTLFSHFNIKTIPSIKLENFQALKEK 100
T+ S T Q TQ A TL + F+ LK K
Sbjct: 1705 KIFKEINEHSTSYTFRSEKGLLSAT--QFTQPALTLMEK-------AA----FEDLKSK 1750
>3eld_A Methyltransferase; flavivirus, RNA capping, guanylyltransfer viral
enzyme structure; HET: SFG; 1.90A {Wesselsbron virus}
PDB: 3elu_A* 3elw_A* 3ely_A* 3emb_A* 3emd_A*
Length = 300
Score = 39.9 bits (93), Expect = 0.001
Identities = 12/52 (23%), Positives = 19/52 (36%), Gaps = 1/52 (1%)
Query: 307 LLHNGGNLVIKIFTIFESDTICLMYLLACLFTSVDLFKPATSKEGNSEIYVI 358
N N +K+ + D I + L F + P S+ E+Y I
Sbjct: 180 KHVNTENFCVKVLAPYHPDVIEKLERLQLRFGGGIVRVPF-SRNSTHEMYYI 230
>3r2k_A Bacterioferritin, BFR; bacterial ferritin, iron binding, iron
storage, iron homeost iron release, iron mobilization;
1.55A {Pseudomonas aeruginosa} PDB: 3r2h_A 3r2l_A 3r2m_A
3r2o_A 3r2r_A 3r2s_A
Length = 154
Score = 32.2 bits (73), Expect = 0.12
Identities = 11/52 (21%), Positives = 18/52 (34%), Gaps = 2/52 (3%)
Query: 170 HLCEAPGAFITSLNHYLKLHHPRMQWDWIANTLNPHYEGNSFDEMISDDRLI 221
+L + + + Y H RM DW + L +E D L+
Sbjct: 10 YLNTLLTGELAARDQYF--IHSRMYEDWGFSKLYERLNHEMEEETQHADALL 59
>1nfv_A Bacterioferritin; 24 subunits in the active molecule, DIIRON HAEM
Fe-coproporphyrin III cofactor, iron storage-electron
complex; HET: FEC; 1.95A {Desulfovibrio desulfuricans}
SCOP: a.25.1.1 PDB: 1nf6_A* 1nf4_A*
Length = 179
Score = 32.7 bits (74), Expect = 0.12
Identities = 8/52 (15%), Positives = 19/52 (36%), Gaps = 2/52 (3%)
Query: 170 HLCEAPGAFITSLNHYLKLHHPRMQWDWIANTLNPHYEGNSFDEMISDDRLI 221
L +A + +++ Y+ + D L + + + DEM +
Sbjct: 15 VLNKARAMELHAIHQYM--NQHYSLDDMDYGELAANMKLIAIDEMRHAENFA 64
>2fkz_A Bacterioferritin; ferroxidase, DIIRON site, iron T metal binding
protein; HET: HEM; 2.00A {Azotobacter vinelandii} SCOP:
a.25.1.1 PDB: 2fl0_A* 1sof_A*
Length = 155
Score = 32.2 bits (73), Expect = 0.13
Identities = 19/52 (36%), Positives = 24/52 (46%), Gaps = 2/52 (3%)
Query: 170 HLCEAPGAFITSLNHYLKLHHPRMQWDWIANTLNPHYEGNSFDEMISDDRLI 221
HL + G + ++N Y H RM DW L H S DEM D+LI
Sbjct: 10 HLNKILGNELIAINQYF--LHARMYEDWGLEKLGKHEYHESIDEMKHADKLI 59
>3qb9_A Bacterioferritin, BFR; cytosol, structural genomics, TB structural
genomics consort TBSGC, metal binding protein; HET: HEM;
2.11A {Mycobacterium tuberculosis} PDB: 2wtl_A* 3bkn_A*
Length = 174
Score = 31.5 bits (71), Expect = 0.29
Identities = 16/52 (30%), Positives = 24/52 (46%), Gaps = 2/52 (3%)
Query: 170 HLCEAPGAFITSLNHYLKLHHPRMQWDWIANTLNPHYEGNSFDEMISDDRLI 221
L E + +T++N Y H +MQ +W L H SFDEM + +
Sbjct: 12 LLNEQLTSELTAINQYF--LHSKMQDNWGFTELAAHTRAESFDEMRHAEEIT 61
>3fvb_A Bacterioferritin; niaid, ssgcid, decode, structural genomics,
seattle structural genomics center for infectious
disease; HET: HEM; 1.81A {Brucella melitensis biovar
ABORTUS2308}
Length = 182
Score = 31.2 bits (70), Expect = 0.38
Identities = 16/52 (30%), Positives = 22/52 (42%), Gaps = 2/52 (3%)
Query: 170 HLCEAPGAFITSLNHYLKLHHPRMQWDWIANTLNPHYEGNSFDEMISDDRLI 221
L EA + ++N Y H R+ DW L S +EM D+LI
Sbjct: 31 RLNEALFLELGAVNQYW--LHYRLLNDWGYTRLAKKEREESIEEMHHADKLI 80
>1jgc_A Bacterioferritin, BFR; iron storage protein, metal binding protein;
HET: HEM; 2.60A {Rhodobacter capsulatus} SCOP: a.25.1.1
Length = 161
Score = 30.7 bits (69), Expect = 0.41
Identities = 14/52 (26%), Positives = 24/52 (46%), Gaps = 2/52 (3%)
Query: 170 HLCEAPGAFITSLNHYLKLHHPRMQWDWIANTLNPHYEGNSFDEMISDDRLI 221
L A + +T+++ Y H R+Q DW + S +EM D++I
Sbjct: 10 FLNAALRSELTAISQYW--VHFRLQEDWGLAKMAKKSREESIEEMGHADKII 59
>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 = 30.3 bits (67), Expect = 0.55
Identities = 7/25 (28%), Positives = 12/25 (48%), Gaps = 10/25 (40%)
Query: 131 QSVKRF---IK-------PQLATQA 145
Q++K+ +K P LA +A
Sbjct: 20 QALKKLQASLKLYADDSAPALAIKA 44
>3gvy_A Bacterioferritin; iron storage, DI-iron, ferroxida activity, heme,
metal binding protein; HET: HEM; 2.80A {Rhodobacter
sphaeroides}
Length = 161
Score = 30.3 bits (68), Expect = 0.60
Identities = 15/52 (28%), Positives = 26/52 (50%), Gaps = 2/52 (3%)
Query: 170 HLCEAPGAFITSLNHYLKLHHPRMQWDWIANTLNPHYEGNSFDEMISDDRLI 221
+L A + +T+++ Y H R+Q DW ++ S +EM D+LI
Sbjct: 10 YLNAALRSELTAVSQYW--LHYRLQEDWGFGSIAHKSRKESIEEMHHADKLI 59
>2y3q_A Bacterioferritin; metal binding protein, redox; HET: HEM; 1.55A
{Escherichia coli} PDB: 1bfr_A* 1bcf_A* 2htn_A* 2vxi_A*
3e1j_A* 3e1l_A* 3e1m_A* 3e1n_A* 3e1o_A* 3e1p_A* 3ghq_A*
3e1q_A* 3e2c_A* 3isf_A* 3is8_A* 3ise_A* 3is7_A*
Length = 158
Score = 29.9 bits (67), Expect = 0.82
Identities = 17/52 (32%), Positives = 23/52 (44%), Gaps = 2/52 (3%)
Query: 170 HLCEAPGAFITSLNHYLKLHHPRMQWDWIANTLNPHYEGNSFDEMISDDRLI 221
+L + G + ++N Y H RM +W LN S DEM DR I
Sbjct: 10 YLNKLLGNELVAINQYF--LHARMFKNWGLKRLNDVEYHESIDEMKHADRYI 59
>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 = 31.0 bits (69), Expect = 0.87
Identities = 22/149 (14%), Positives = 50/149 (33%), Gaps = 32/149 (21%)
Query: 90 KLENFQALKEKLNDVKSNLNHVHLKTWHQ-------HTNFVNRSSKVVQSVKRFIKPQLA 142
KL + ++++ + ++ ++L+ + H + V+ + + P
Sbjct: 410 KLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYL 469
Query: 143 TQAWCKF--HEIVHSYNIVPQQE-NSFTSIHLCEAPGAFITSLNHYLKLHHPRMQWDW-- 197
Q + H H NI + F + L F+ K+ H W+
Sbjct: 470 DQYFYSHIGH---HLKNIEHPERMTLFRMVFL---DFRFLEQ-----KIRHDSTAWNASG 518
Query: 198 -IANTLN--PHYEG------NSFDEMISD 217
I NTL Y+ ++ +++
Sbjct: 519 SILNTLQQLKFYKPYICDNDPKYERLVNA 547
Score = 28.7 bits (63), Expect = 4.2
Identities = 43/265 (16%), Positives = 73/265 (27%), Gaps = 76/265 (28%)
Query: 92 ENF-QALKEKLNDV-KSNLNHVHLKTWHQHTNFVNRSSKVVQ-SVKRFIKPQLATQAWCK 148
+N+ +KL + +S+LN L+ F S V S I L + W
Sbjct: 345 DNWKHVNCDKLTTIIESSLNV--LEPAEYRKMFDRLS--VFPPSAH--IPTILLSLIWFD 398
Query: 149 FHEIV--------HSYNIVPQQENSFT-SIHLCEAPGAFITSLNHYLKLHHPRMQWDWIA 199
+ H Y++V +Q T SI YL+L +
Sbjct: 399 VIKSDVMVVVNKLHKYSLVEKQPKESTISIPSI------------YLELKVKLENEYALH 446
Query: 200 NTLNPHYEGNSFDEMISDDRLILGTHRKWYFGPDNTGNILVQNFVSHFKQH--------- 250
++ HY I T P + H K
Sbjct: 447 RSIVDHYN-------------IPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLF 493
Query: 251 ------IGFL---LIHDTSLAPHCTHASHC---------FLVTADGSFDCQGN------P 286
FL + HD++ + ++ D ++ N P
Sbjct: 494 RMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLP 553
Query: 287 GEQEILVGKLHYREVQIALSLLHNG 311
+E L+ + ++IAL
Sbjct: 554 KIEENLICSKYTDLLRIALMAEDEA 578
>2w1k_A Putative sortase; pilus, pneumococcus, pathogenicity,
transferase; HET: MES; 2.14A {Streptococcus pneumoniae}
Length = 252
Score = 30.4 bits (68), Expect = 0.93
Identities = 9/68 (13%), Positives = 26/68 (38%)
Query: 25 SYKKKPKNFSEEALNHFNKKYQLYNASSSYKLSDGETWFSQTKWQNTQLAPTLFSHFNIK 84
+ K+ + E YN + + + + ++ N Q++ + +
Sbjct: 8 GHATFVKSMTTEMYQEQQNHSLAYNQRLASQNRIVDPFLAEGYEVNYQVSDDPDAVYGYL 67
Query: 85 TIPSIKLE 92
+IPS+++
Sbjct: 68 SIPSLEIM 75
>2qqy_A Sigma B operon; dodecameric alpha-helical, ferritin fold,
structural genomic protein structure initiative; 2.00A
{Bacillus anthracis str}
Length = 149
Score = 28.9 bits (65), Expect = 1.4
Identities = 10/52 (19%), Positives = 15/52 (28%), Gaps = 2/52 (3%)
Query: 170 HLCEAPGAFITSLNHYLKLHHPRMQWDWIANTLNPHYEGNSFDEMISDDRLI 221
L E +++ Y H+ L P +E DE L
Sbjct: 14 GLNEDLAGEYSAIIMYN--HNAATVSGIYRQVLKPFFESEISDEQGHALYLA 63
>3ceg_A Baculoviral IAP repeat-containing protein 6; apoptosis, ligase,
protease inhibitor, thiol protease inhibitor, UBL
conjugation pathway; HET: MSE; 2.01A {Homo sapiens}
Length = 323
Score = 28.1 bits (62), Expect = 5.9
Identities = 10/83 (12%), Positives = 23/83 (27%), Gaps = 11/83 (13%)
Query: 24 HSYKKKPKNFSEEALNHFNKKYQLYNASSSYKLSDGETWFSQTKWQNTQLAPTLFSHFNI 83
+ F E HF K ++ E W + + ++ +
Sbjct: 245 EQIRNPSPCFKEVIHKHFYLKRVEI-------MAQCEEWIADIQQYSSDKRVGRTMSHHA 297
Query: 84 KTIPSIKLENFQALKEKLNDVKS 106
+ + L+E+L +
Sbjct: 298 AAL----KRHTAQLREELLKLPC 316
>2vzb_A Putative bacterioferritin-related protein; DPS, DPSL, iron,
oxidative stress, metal transport; 2.30A {Bacteroides
fragilis}
Length = 170
Score = 27.4 bits (61), Expect = 6.1
Identities = 5/52 (9%), Positives = 14/52 (26%), Gaps = 2/52 (3%)
Query: 170 HLCEAPGAFITSLNHYLKLHHPRMQWDWIANTLNPHYEGNSFDEMISDDRLI 221
L A + Y + + + +E ++ +E +
Sbjct: 21 QLNAALSEEWLAYYQYW--VGALVVEGAMRADVQGEFEEHAEEERHHAQLIA 70
>3fnd_A Chitinase; TIM-barrel, structural genomics, PSI-2, P structure
initiative, NEW YORK SGX research center for STRU
genomics, nysgxrc; 1.90A {Bacteroides thetaiotaomicron}
PDB: 3co4_A
Length = 312
Score = 27.7 bits (62), Expect = 6.9
Identities = 13/49 (26%), Positives = 19/49 (38%), Gaps = 4/49 (8%)
Query: 265 CTHASHCFL-VTADGSFDCQGNPGEQEILVGKLHYREVQIALSLLHNGG 312
TH + F V ADG+ + E + H V+I +SL
Sbjct: 29 LTHINASFARVKADGTLNINPVRKRIESVRETAHKHNVKILISL---AK 74
>2pyb_A NAPA, neutrophil activating protein; ferritin, DPS, four-helix
bundle, metal transport; 2.60A {Borrelia burgdorferi}
Length = 151
Score = 27.0 bits (60), Expect = 7.8
Identities = 6/32 (18%), Positives = 16/32 (50%)
Query: 92 ENFQALKEKLNDVKSNLNHVHLKTWHQHTNFV 123
++ A++ KL ++ ++L+ + H N
Sbjct: 1 DDLDAIQLKLQELLASLHIFYSNLRGIHWNIK 32
>4eve_A Neutrophil-activating protein; dodecamer, four-helix bundle, metal
transport; 2.10A {Helicobacter pylori} PDB: 4evd_A
3t9j_A 3ta8_A 4evb_A 4evc_A 1ji4_A
Length = 164
Score = 26.6 bits (59), Expect = 9.8
Identities = 4/36 (11%), Positives = 14/36 (38%)
Query: 84 KTIPSIKLENFQALKEKLNDVKSNLNHVHLKTWHQH 119
+ + + E L ++++ + +K + H
Sbjct: 10 HSSGLVPRGSHMKTFEILKHLQADAIVLFMKVHNFH 45
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
0.321 0.134 0.423
Gapped
Lambda K H
0.267 0.0686 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,930,017
Number of extensions: 335123
Number of successful extensions: 773
Number of sequences better than 10.0: 1
Number of HSP's gapped: 768
Number of HSP's successfully gapped: 39
Length of query: 399
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 303
Effective length of database: 4,021,377
Effective search space: 1218477231
Effective search space used: 1218477231
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 (21.9 bits)
S2: 58 (26.2 bits)