RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6189
(539 letters)
>2vqe_I 30S ribosomal protein S9, 30S ribosomal protein S6; tRNA-binding,
rRNA-binding, metal-binding, zinc-finger, translation;
HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: d.14.1.1
PDB: 1gix_L* 1hnw_I* 1hnx_I* 1hnz_I* 1hr0_I 1i94_I*
1i95_I* 1i96_I* 1i97_I* 1ibk_I* 1ibl_I* 1ibm_I 1j5e_I
1jgo_L* 1jgp_L* 1jgq_L* 1ml5_L* 1n32_I* 1n33_I* 1n34_I
...
Length = 128
Score = 145 bits (369), Expect = 6e-42
Identities = 47/121 (38%), Positives = 68/121 (56%), Gaps = 2/121 (1%)
Query: 419 RKCARADVTVYQPGTGKITINEKHYFDYFPDENDRQQLMFPLIFTDMLNKVDIVASVREG 478
RK A A V + +PG GK+T+N + + +YF + PL D L + D +VR G
Sbjct: 10 RKEAVARVFL-RPGNGKVTVNGQDFNEYFQGLVRAVAALEPLRAVDALGRFDAYITVRGG 68
Query: 479 GHSGQAGAIRWGISWGLRNFVEPEMRERMRLAGLLTRDFRRKERKKPGQARARKKFTWKK 538
G SGQ AI+ GI+ L + P+ R +++ G LTRD R ERKK G+ +AR+ + K
Sbjct: 69 GKSGQIDAIKLGIARALVQY-NPDYRAKLKPLGFLTRDARVVERKKYGKHKARRAPQYSK 127
Query: 539 R 539
R
Sbjct: 128 R 128
>3r8n_I 30S ribosomal protein S9; protein biosynthesis, RNA, tRNA, transfer
RNA, 16S ribosomal subunit, RRF; 3.00A {Escherichia
coli} PDB: 2ykr_I 3fih_I* 3iy8_I 2wwl_I 3oar_I 3oaq_I
3ofb_I 3ofa_I 3ofp_I 3ofx_I 3ofy_I 3ofo_I 3r8o_I 4a2i_I
2qal_I* 1p6g_I 1p87_I 2aw7_I 2avy_I 2i2u_I ...
Length = 127
Score = 145 bits (368), Expect = 7e-42
Identities = 52/121 (42%), Positives = 74/121 (61%), Gaps = 2/121 (1%)
Query: 419 RKCARADVTVYQPGTGKITINEKHYFDYFPDENDRQQLMFPLIFTDMLNKVDIVASVREG 478
RK + A V + +PG GKI IN++ YF E R + PL DM+ K+D+ +V+ G
Sbjct: 9 RKSSAARVFI-KPGNGKIVINQRSLEQYFGRETARMVVRQPLELVDMVEKLDLYITVKGG 67
Query: 479 GHSGQAGAIRWGISWGLRNFVEPEMRERMRLAGLLTRDFRRKERKKPGQARARKKFTWKK 538
G SGQAGAIR GI+ L + + +R +R AG +TRD R+ ERKK G +AR++ + K
Sbjct: 68 GISGQAGAIRHGITRALMEY-DESLRSELRKAGFVTRDARQVERKKVGLRKARRRPQFSK 126
Query: 539 R 539
R
Sbjct: 127 R 127
>3bbn_I Ribosomal protein S9; small ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 197
Score = 137 bits (347), Expect = 4e-38
Identities = 47/122 (38%), Positives = 59/122 (48%), Gaps = 3/122 (2%)
Query: 419 RKCARADVTVYQPGTGKITINEKHYFDYFP-DENDRQQLMFPLIFTDMLNKVDIVASVRE 477
RKCA A V + Q GTGK IN + +Y + Q + PL D+
Sbjct: 78 RKCAIARVVL-QEGTGKFIINYRDAKEYLQGNPLWLQYVKTPLATLGYETNYDVFVKAHG 136
Query: 478 GGHSGQAGAIRWGISWGLRNFVEPEMRERMRLAGLLTRDFRRKERKKPGQARARKKFTWK 537
GG SGQA AI G++ L R ++ GLLTRD R ERKKPG +ARK +
Sbjct: 137 GGLSGQAQAISLGVARALLKV-SASHRAPLKQEGLLTRDSRIVERKKPGLKKARKAPQFS 195
Query: 538 KR 539
KR
Sbjct: 196 KR 197
>3iz6_I 40S ribosomal protein S16 (S9P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum}
Length = 149
Score = 128 bits (324), Expect = 2e-35
Identities = 36/133 (27%), Positives = 52/133 (39%), Gaps = 14/133 (10%)
Query: 419 RKCARADVTVYQPGTGKITINEKHYFDYFPDENDRQQLMFPLIFT--DMLNKVDIVASVR 476
+K A A +PG G I +N + E R + P++ +D+ VR
Sbjct: 19 KKTAVAVSYC-KPGRGLIKVN-GVPIELIRPEMLRLKAFEPILLAGRSRFKDIDMRIRVR 76
Query: 477 EGGHSGQAGAIRWGISWGLRNFVEPEMRERMR----------LAGLLTRDFRRKERKKPG 526
GG + Q AIR I+ L + + + E + LL D RR E KK G
Sbjct: 77 GGGKTSQIYAIRQAIAKALVAYYQKYVDEASKKEVKDIFARYDRTLLVADPRRCEPKKFG 136
Query: 527 QARARKKFTWKKR 539
AR +F R
Sbjct: 137 GRGARARFQKSYR 149
>2zkq_i 40S ribosomal protein S16E; protein-RNA complex, 40S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 146
Score = 126 bits (320), Expect = 9e-35
Identities = 37/133 (27%), Positives = 53/133 (39%), Gaps = 14/133 (10%)
Query: 419 RKCARADVTVYQPGTGKITINEKHYFDYFPDENDRQQLM--FPLIFTDMLNKVDIVASVR 476
+K A A + G G I +N + P + +L+ L+ + VDI V+
Sbjct: 16 KKTATAVAHC-KRGNGLIKVNGRPLEMIEP-RTLQYKLLEPVLLLGKERFAGVDIRVRVK 73
Query: 477 EGGHSGQAGAIRWGISWGLRNFVEPEMRERMR----------LAGLLTRDFRRKERKKPG 526
GGH Q AIR IS L + + + E + LL D RR E KK G
Sbjct: 74 GGGHVAQIYAIRQSISKALVAYYQKYVDEASKKEIKDILIQYDRTLLVADPRRCESKKFG 133
Query: 527 QARARKKFTWKKR 539
AR ++ R
Sbjct: 134 GPGARARYQKSYR 146
>3u5c_Q RP61R, 40S ribosomal protein S16-A; translation, ribosome,
ribosomal, ribosomal R ribosomal protein, eukaryotic
ribosome, RNA-protein C; 3.00A {Saccharomyces
cerevisiae} PDB: 3izb_I 3o30_J 3o2z_J 3u5g_Q 1s1h_I
3jyv_I*
Length = 143
Score = 125 bits (317), Expect = 2e-34
Identities = 41/133 (30%), Positives = 58/133 (43%), Gaps = 14/133 (10%)
Query: 419 RKCARADVTVYQPGTGKITINEKHYFDYFPDENDRQQLMFPLIFT--DMLNKVDIVASVR 476
+K A A V + G G I +N E R ++ PL+ D + +DI V
Sbjct: 13 KKSATAVAHV-KAGKGLIKVNGSP-ITLVEPEILRFKVYEPLLLVGLDKFSNIDIRVRVT 70
Query: 477 EGGHSGQAGAIRWGISWGL----RNFVEPEMRERMRLA------GLLTRDFRRKERKKPG 526
GGH Q AIR I+ GL + +V+ + + ++ A LL D RR E KK G
Sbjct: 71 GGGHVSQVYAIRQAIAKGLVAYHQKYVDEQSKNELKKAFTSYDRTLLIADSRRPEPKKFG 130
Query: 527 QARARKKFTWKKR 539
AR +F R
Sbjct: 131 GKGARSRFQKSYR 143
>2xzm_I RPS16E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB:
2xzn_I
Length = 145
Score = 124 bits (313), Expect = 7e-34
Identities = 35/133 (26%), Positives = 56/133 (42%), Gaps = 14/133 (10%)
Query: 419 RKCARADVTVYQPGTGKITINEKHYFDYFPDENDRQQLMFPL--IFTDMLNKVDIVASVR 476
+K A A +V +PG G + +N P + + ++ P+ + +DI VR
Sbjct: 15 KKNAVAVASV-RPGKGLLKVNGSPIDMINP-QILQAKIYEPILLLGQQKFANLDIRIRVR 72
Query: 477 EGGHSGQAGAIRWGISWGL----RNFVEPEMRERMR------LAGLLTRDFRRKERKKPG 526
G++ Q AIR +S G+ +V+ + ++ LL D RR E KK G
Sbjct: 73 GSGYTSQVYAIRQALSKGIVAYHAKYVDENSKREIKEQLMQYDRSLLVADPRRMEPKKCG 132
Query: 527 QARARKKFTWKKR 539
AR K R
Sbjct: 133 GRGARSKMQKAYR 145
>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 = 61.6 bits (149), Expect = 5e-10
Identities = 81/466 (17%), Positives = 145/466 (31%), Gaps = 156/466 (33%)
Query: 151 LFYTA-----RFSSKTPNPPDKP---NEPS---ELAKE----TANIPETPHHDMFDRTKV 195
F+ A +F+ P P + +EP+ EL + +++ E FD+
Sbjct: 26 SFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQ--- 82
Query: 196 SKAMQAYLKRAEDYTSFMEG-EKHSYEVGRRHLANMMGRDVETFTQKDIDEAIAYLMPSG 254
+ L E ++EG + H+ LA + ++ +T K + Y+
Sbjct: 83 --VLNLCLTEFE--NCYLEGNDIHA-------LAAKLLQENDTTLVKTKELIKNYI---- 127
Query: 255 LYSKKARPYMKHPEEVFPPKKDAEFDNLGRPYHFLFYT-----GKPNLY-----ELFHNA 304
AR K P + A F +G + G + Y +L+
Sbjct: 128 ----TARIMAKRPFD--KKSNSALFRAVGEG-NAQLVAIFGGQGNTDDYFEELRDLYQTY 180
Query: 305 NVLIRKLNKMEDEDLRN-PKQTQASEASRELYLTNTEWMSQEALERITVEPITKP--EYQ 361
+VL+ L K E L + T +E L EW+ P P +Y
Sbjct: 181 HVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLE---------NPSNTPDKDYL 231
Query: 362 QFVAV------MTRLVNHKYAYLHEEFIFKYRQPKVIKTMNFDPEEPQAGEDGVKFVTTK 415
+ + + +L + Y K + F P E ++ G T
Sbjct: 232 LSIPISCPLIGVIQLAH--YVV-------------TAKLLGFTPGELRSYLKGA---TG- 272
Query: 416 DCPRKCARADVT---VYQPGTGKITINEKHYFDYFPDENDRQ--QLMF------------ 458
++ VT + + + + +F + R+ ++F
Sbjct: 273 -----HSQGLVTAVAIAETDSWE---------SFF--VSVRKAITVLFFIGVRCYEAYPN 316
Query: 459 ----PLIFTD-----------ML-----NKVDIVASVRE-GGHSGQAGAIRWGISW--GL 495
P I D ML + + V + H + IS G
Sbjct: 317 TSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVE--ISLVNGA 374
Query: 496 RNFV---EPEMRERMRLAGLLTRDFRRKERKKPGQARARKKFTWKK 538
+N V P+ L GL RK + G ++R F+ +K
Sbjct: 375 KNLVVSGPPQ-----SLYGLNLT--LRKAKAPSGLDQSRIPFSERK 413
Score = 61.2 bits (148), Expect = 7e-10
Identities = 83/526 (15%), Positives = 157/526 (29%), Gaps = 148/526 (28%)
Query: 18 RFSSKTPNPPDKP---NEPS---ELAKE----TANIPETPHHDMFDRTKVSKAMQAYLKR 67
+F+ P P + +EP+ EL + +++ E FD+ + L
Sbjct: 36 QFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQ-----VLNLCLTE 90
Query: 68 AEDYTNFMEG-EKHSFEVGRRHLANMMGRDVETFTQKDIDEAI-AYLM------------ 113
E ++EG + H+ A ++ + T + E I Y+
Sbjct: 91 FE--NCYLEGNDIHAL------AAKLLQENDTTLVKTK--ELIKNYITARIMAKRPFDKK 140
Query: 114 -PSGLY----SKKARPYMK-----HPEEVFPPKKDAEFDNLGRPYH-FLFYTARFSSKTP 162
S L+ A+ + ++ F E +L + YH + +FS++T
Sbjct: 141 SNSALFRAVGEGNAQLVAIFGGQGNTDDYFE-----ELRDLYQTYHVLVGDLIKFSAETL 195
Query: 163 NP-PDKPNEPSELAKETANI------PE-TPHHDMFDRTKVS------KAMQAYLK--RA 206
+ + ++ + NI P TP D +S + Y+ +
Sbjct: 196 SELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKL 255
Query: 207 EDYTSFMEGEKHSYEVGR-RHLANM-------MGRDVETFTQKDIDEAIAYLMPSGLYSK 258
+T GE SY G H + E+F + +AI L G+
Sbjct: 256 LGFTP---GELRSYLKGATGHSQGLVTAVAIAETDSWESFFV-SVRKAITVLFFIGVRCY 311
Query: 259 KARPYMKHPEEVFPPK--KDAEFDNLGRPYHFLFYTGKPNLYELFHNANVLIRKLNKMED 316
+A +P PP +D+ +N G P L + ++ + K N
Sbjct: 312 EA-----YPNTSLPPSILEDSLENNEGVPSPMLSISN-LTQEQVQ----DYVNKTNSHLP 361
Query: 317 ED------LRN-PKQTQASEASRELYLTNTEWMSQEALERITVEPITKPEYQQFVAVMTR 369
L N K S + LY N L + Q +R
Sbjct: 362 AGKQVEISLVNGAKNLVVSGPPQSLYGLNL------TLRKAKAPS----GLDQ-----SR 406
Query: 370 LVNHKYAYLHEEFIFKYRQPKVIKTMNFDP-EEP-------QAGEDGVKFVTTKDCPRKC 421
+ + + K+ + F P P A + K + +
Sbjct: 407 I--------------PFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNA 452
Query: 422 ARADVTVYQPGTGKITINEKHYFDYFPDENDRQQLMFPLIFTDMLN 467
+ VY G + + + +++ I +
Sbjct: 453 KDIQIPVYDTFDGS---DLRVL-----SGSISERI-VDCIIRLPVK 489
Score = 45.0 bits (106), Expect = 5e-05
Identities = 69/442 (15%), Positives = 122/442 (27%), Gaps = 137/442 (30%)
Query: 7 FQRNCRL------SFLARFSSKTPNPPDKPNEPSE---LAKETANIPETPHHD--MFDRT 55
F+ L + A+ + K E + A+ A P + +F
Sbjct: 91 FENCY-LEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAV 149
Query: 56 KVSKA-----------MQAYLK--RA--EDYTNFMEGEKHSFEVGRRHLANMMGRDVET- 99
A Y + R + Y + + L+ ++ ++
Sbjct: 150 GEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVG---DLIKFSAETLSELIRTTLDAE 206
Query: 100 --FTQK-DIDEAI---------AYL------MP-SGL-----YSKKARPYMKHPEEVFPP 135
FTQ +I E + YL P G+ Y A+ P E+
Sbjct: 207 KVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSY 266
Query: 136 KK---------------------DAEFDNLGRPYHFLFYT-ARFSSKTPNPPDKPNEPSE 173
K ++ F ++ + LF+ R PN PS
Sbjct: 267 LKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTS---LPPSI 323
Query: 174 LAKETANIPETPHHDMF-----DRTKVSKAMQAYLKRAEDYTSFMEGEKHSYEV----GR 224
L N P M + +V Q Y+ + + + K + G
Sbjct: 324 LEDSLENNEGVPSP-MLSISNLTQEQV----QDYVNKTNSH---LPAGKQVE-ISLVNGA 374
Query: 225 RHLANMMG--RDVETFTQKDIDEAIAYLMPSGLYSKKARPYMKHPEEVFPPKKDAEFDNL 282
++L + G + + + +A A PSGL + E K F +
Sbjct: 375 KNL-VVSGPPQSLYGLNLT-LRKAKA---PSGLDQSRI----PFSER--KLKFSNRFLPV 423
Query: 283 GRPYHFLFYTG-KPNLYELFHNANVLIRKLNKMEDEDLRNPKQTQASEASRELYLTNT-- 339
P+H + + NV +D++ P +Y T
Sbjct: 424 ASPFHSHLLVPASDLINKDLVKNNVSFNA------KDIQIP-----------VYDTFDGS 466
Query: 340 --EWMSQEALER----ITVEPI 355
+S ER I P+
Sbjct: 467 DLRVLSGSISERIVDCIIRLPV 488
Score = 40.4 bits (94), Expect = 0.002
Identities = 31/178 (17%), Positives = 50/178 (28%), Gaps = 60/178 (33%)
Query: 219 SYEVGRRHLANMMGRDV-ETF-TQKDI-DEAIAYLMPSGLYSKKARPYMKHPEEVFPPKK 275
S E G MG D+ +T +D+ + A + + +S + P
Sbjct: 1626 SQEQG-------MGMDLYKTSKAAQDVWNRADNHFKDTYGFS------ILDIVINNPVNL 1672
Query: 276 DAEFDNLGRPYHFLFYTGK-------PNLYELFHNANVLIRKLNKMEDEDLRNPKQTQAS 328
HF GK ++E + + K+ K +E T S
Sbjct: 1673 T---------IHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHST--SYTFRS 1721
Query: 329 EASRELYLT-NTEWMSQEALERITVEPITKPEYQQFVAVMTRLVNHKYAYLHEEFIFK 385
E L T T Q AL +E A + L + +
Sbjct: 1722 EKG-LLSATQFT----QPAL--TLME----------KAA--------FEDLKSKGLIP 1754
Score = 29.6 bits (66), Expect = 3.1
Identities = 27/165 (16%), Positives = 43/165 (26%), Gaps = 44/165 (26%)
Query: 2 SLQRLFQRNCRLSFL--ARFSSKTPNPPDKPNEPSELAKETANIPETPHHDMFDRTKVSK 59
S ++ + F R PN PS L N P M +S
Sbjct: 291 SFFVSVRKAITVLFFIGVRCYEAYPNTS---LPPSILEDSLENNEGVPSP-ML---SISN 343
Query: 60 AMQAYLKRAEDYTNFMEGEKHSFEVGRRHLANMMGRDVETFTQKDIDEAIAYLM---PSG 116
Q ++ + TN H + ++ + G ++ P
Sbjct: 344 LTQEQVQDYVNKTN-----SHLPAGKQVEISLVNGAK-------------NLVVSGPPQS 385
Query: 117 LYS-------KKARPYM-----KHPEEVFPPKKDAEFDNLGRPYH 149
LY KA + E K F + P+H
Sbjct: 386 LYGLNLTLRKAKAPSGLDQSRIPFSER--KLKFSNRFLPVASPFH 428
>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 = 51.4 bits (122), Expect = 6e-07
Identities = 82/625 (13%), Positives = 166/625 (26%), Gaps = 199/625 (31%)
Query: 48 HHDMFDRTKVSKAMQAYLKRAEDYTNFMEGEKHSFEVGRRHLANMMGRDVETFTQKDIDE 107
HH D + + Y F + +F+ + + +M + + ++++ID
Sbjct: 3 HHHHMD-FETGEHQYQYKDILSV---FEDAFVDNFDC--KDVQDMP-KSI--LSKEEIDH 53
Query: 108 AI--------AYLMPSGLYSKKARPYMKHPEEVFPPKKDAEFDNLGRPYHFLFYTARFSS 159
I + L SK+ K EEV + + Y FL +
Sbjct: 54 IIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVL--RIN---------YKFLMSPIKTEQ 102
Query: 160 KTPNPPDKP---------NEPSELAKETANIPETPHHDMFDRTKVSKAMQAYLKRAEDYT 210
+ P+ + N+ AK + + P+ + R + + L+ A++
Sbjct: 103 RQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQ-PYLKL--RQALLE-----LRPAKNVL 154
Query: 211 SF-MEGEKHSYEVGRRHLANMMGRDVE------------TFTQKDIDEAIAYLMPSGLYS 257
+ G G+ +A + + + E + M L
Sbjct: 155 IDGVLG------SGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETV-LEMLQKLLY 207
Query: 258 KKARPYMKHPEEVFPPKKDAE-----FDNL--GRPY-----------------HF----- 288
+ + + K L +PY F
Sbjct: 208 QIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCK 267
Query: 289 -LFYT--------------------------GKPNLYELFHNANVLIRKLNKMEDEDLRN 321
L T + L L +DL
Sbjct: 268 ILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLL--LKYL-----DCRPQDL-- 318
Query: 322 PKQTQA---------SEASRELYLTNTEW--MSQEALERI------TVEP-ITKPEYQQF 363
P++ +E+ R+ T W ++ + L I +EP + + +
Sbjct: 319 PREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRL 378
Query: 364 V----------AVMTRLVNHKYAYLHEEFIFKYRQPKVIKTMNFDPEEPQAGEDGVKFVT 413
+++ + + K + +++ P+E +
Sbjct: 379 SVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEK---QPKESTISIPSIYLEL 435
Query: 414 TKDCPRKCA--RADVTVYQ-----PGTGKITINEKHYFDYF-------PDENDRQQLMFP 459
+ A R+ V Y I YF Y E+ + +F
Sbjct: 436 KVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYF-YSHIGHHLKNIEHPERMTLFR 494
Query: 460 LIFTD---MLNKVDIVASVREGGHSGQAGAIRWGISWGL------RNFVEPEMRERMRLA 510
++F D + K +R H A I L + ++ + RL
Sbjct: 495 MVFLDFRFLEQK------IR---HDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLV 545
Query: 511 GLLTRDFRRKERKKPGQARARKKFT 535
+ DF K + K+T
Sbjct: 546 NAI-LDFLP----KIEENLICSKYT 565
>2if6_A Hypothetical protein YIIX; structural genomics, metalloprotein,
PSI-2, PR structure initiative, NEW YORK SGX research
center for STRU genomics; 1.80A {Escherichia coli} SCOP:
d.3.1.21
Length = 186
Score = 30.1 bits (67), Expect = 1.2
Identities = 16/71 (22%), Positives = 26/71 (36%), Gaps = 7/71 (9%)
Query: 260 ARPYMKHPEEVFPPKKDAEFDNLGRPYHFLFYTGKPNLY------ELFHNA-NVLIRKLN 312
R E LG+PY F F Y +++ NA + + +
Sbjct: 73 RRVEGGLSVEQQQKLAQTAKRYLGKPYDFSFSWSDDRQYCSEVVWKVYQNALGMRVGEQQ 132
Query: 313 KMEDEDLRNPK 323
K+++ DL NP
Sbjct: 133 KLKEFDLSNPL 143
>3bq3_A Defective in cullin neddylation protein 1; ubiquitin,
ubiquitination,SCF,cullin, E3 E2, cell cycle, protein
degradation, ligase; 1.90A {Saccharomyces cerevisiae}
PDB: 2is9_A* 3o2p_A 3o6b_A 3tdi_B 2l4e_A 2l4f_A
Length = 270
Score = 29.8 bits (66), Expect = 2.1
Identities = 17/105 (16%), Positives = 29/105 (27%), Gaps = 6/105 (5%)
Query: 304 ANVLIRKLNKMEDEDLRNPKQ-TQASEASRELYLTNTEWMSQEALERITVEPITKPE--- 359
N + RK E E + + T+ YL W AL + I
Sbjct: 4 NNKIKRKDASPEQEAIESFTSLTKCDPKVSRKYLQRNHWNINYALNDYYDKEIGTFTDEV 63
Query: 360 --YQQFVAVMTRLVNHKYAYLHEEFIFKYRQPKVIKTMNFDPEEP 402
L Y++ K I+ + ++ E+
Sbjct: 64 STVAHPPVYPKELTQVFEHYINNNLFDIDSLVKFIEELGYNLEDL 108
>3i99_A UDP-N-acetylenolpyruvoylglucosamine reductase; structural genomics,
center for structural of infectious diseases, csgid;
HET: FAD; 2.20A {Vibrio cholerae}
Length = 357
Score = 28.7 bits (65), Expect = 4.3
Identities = 12/68 (17%), Positives = 21/68 (30%), Gaps = 15/68 (22%)
Query: 1 MSLQRLFQRNCRLSFLARFSSKTPNPPDKPN----------EPSELAKETANIPETPHHD 50
++ ++QR C R K P+P N A+ P+ +
Sbjct: 214 CAIHDVYQRVCAT----R-MEKLPDPAVMGNAGSFFKNPVISQQAFARLQIEHPDVVAYP 268
Query: 51 MFDRTKVS 58
KV+
Sbjct: 269 AEQGVKVA 276
Score = 28.3 bits (64), Expect = 6.9
Identities = 8/49 (16%), Positives = 13/49 (26%), Gaps = 10/49 (20%)
Query: 158 SSKTPNPPDKPN----------EPSELAKETANIPETPHHDMFDRTKVS 196
K P+P N A+ P+ + KV+
Sbjct: 228 MEKLPDPAVMGNAGSFFKNPVISQQAFARLQIEHPDVVAYPAEQGVKVA 276
>2r60_A Glycosyl transferase, group 1; rossmann-fold; 1.80A
{Halothermothrix orenii} PDB: 2r66_A* 2r68_A*
Length = 499
Score = 28.9 bits (65), Expect = 4.9
Identities = 9/48 (18%), Positives = 15/48 (31%), Gaps = 16/48 (33%)
Query: 491 ISWGLRNFVE-PEMRERMRLAGLLTRDFRRKERKKPGQARARKKFTWK 537
I+ GL E E + G R +++TW+
Sbjct: 414 IARGLLKAFESEETWSAYQEKGK---------------QRVEERYTWQ 446
>4e9f_A Methyl-CPG-binding domain protein 4; HHH DNA glycosylase family,
hydrolase-DNA complex; HET: DNA 3DR; 1.79A {Homo
sapiens} PDB: 4e9e_A* 4e9g_A* 4e9h_A* 4ea5_A* 4dk9_A*
1ngn_A 4ea4_A* 4ew4_A* 4evv_A* 4ew0_A* 3iho_A
Length = 161
Score = 27.8 bits (62), Expect = 5.3
Identities = 10/39 (25%), Positives = 15/39 (38%)
Query: 96 DVETFTQKDIDEAIAYLMPSGLYSKKARPYMKHPEEVFP 134
E D + L P GLY +A+ +K +E
Sbjct: 62 SAEVARTADWRDVSELLKPLGLYDLRAKTIVKFSDEYLT 100
Score = 27.8 bits (62), Expect = 5.3
Identities = 10/39 (25%), Positives = 15/39 (38%)
Query: 234 DVETFTQKDIDEAIAYLMPSGLYSKKARPYMKHPEEVFP 272
E D + L P GLY +A+ +K +E
Sbjct: 62 SAEVARTADWRDVSELLKPLGLYDLRAKTIVKFSDEYLT 100
>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 = 27.2 bits (59), Expect = 8.1
Identities = 11/33 (33%), Positives = 17/33 (51%), Gaps = 6/33 (18%)
Query: 323 KQT-QASEASRELYLTNTEWMSQEALE-RITVE 353
KQ + +AS +LY + S AL + T+E
Sbjct: 19 KQALKKLQASLKLYADD----SAPALAIKATME 47
>2o8l_A V8 protease, taphylococcal serine; serine protease, enzyme,
hydrolase; 1.50A {Staphylococcus aureus} SCOP: b.47.1.1
PDB: 1qy6_A
Length = 274
Score = 27.9 bits (61), Expect = 9.2
Identities = 15/65 (23%), Positives = 22/65 (33%), Gaps = 1/65 (1%)
Query: 123 RPYMKHPEEVFPPKKDAEFDNLGRPYHFLFYTARFSSKTPNPPDKPNEPSE-LAKETANI 181
+ +D F N +P + + PN PD PN P E + N
Sbjct: 197 FINENVRNFLKQNIEDINFANDDQPNNPDNPDNPNNPDNPNNPDNPNNPDEPNNPDNPNN 256
Query: 182 PETPH 186
P+ P
Sbjct: 257 PDNPD 261
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 0.134 0.401
Gapped
Lambda K H
0.267 0.0649 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,683,969
Number of extensions: 542253
Number of successful extensions: 1318
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1294
Number of HSP's successfully gapped: 55
Length of query: 539
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 441
Effective length of database: 3,965,535
Effective search space: 1748800935
Effective search space used: 1748800935
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: 60 (27.1 bits)