RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 025329
(254 letters)
>1h3d_A ATP-phosphoribosyltransferase; hisitidine biosynthesis,
glycosyltransferase; HET: AMP TLA; 2.7A {Escherichia
coli} SCOP: c.94.1.1 d.58.5.3 PDB: 1q1k_A*
Length = 299
Score = 155 bits (395), Expect = 1e-46
Identities = 41/175 (23%), Positives = 81/175 (46%), Gaps = 20/175 (11%)
Query: 79 SERDEIRLGLPSKGRMAADTLDLLKDCQLSVKQVNPRQYVAQIPQLSNLEVWFQRPKDIV 138
++ +R+ + GR++ D+ +LL C + + ++ ++ +A + +++ R DI
Sbjct: 2 TDNTRLRIAMQKSGRLSDDSRELLARCGIKIN-LHTQRLIAMAENM-PIDILRVRDDDIP 59
Query: 139 RKLLSGDLDLGIVGLDTVSEFG-----QGNEDLIIVHDALDYGDCRLSLAIPKYGIFENI 193
++ G +DLGI+G + + E QG + LD+G CRLSLA P ++
Sbjct: 60 GLVMDGVVDLGIIGENVLEEELLNRRAQGEDPRYFTLRRLDFGGCRLSLATPVDEAWDGP 119
Query: 194 NSLRELAQMPQWTAEKPLRVATGFTYLGPKFMKDNGLKHVVFSTADGALEAAPAV 248
SL R+AT + +L +++ G+ +G++E AP
Sbjct: 120 LSLNG------------KRIATSYPHLLKRYLDQKGISFKSC-LLNGSVEVAPRA 161
>2vd3_A ATP phosphoribosyltransferase; metal-binding, glycosyltransferase,
HISG, histidine, magnesi transferase; HET: HIS; 2.45A
{Methanobacterium thermoautotrophicum}
Length = 289
Score = 148 bits (375), Expect = 1e-43
Identities = 46/169 (27%), Positives = 76/169 (44%), Gaps = 19/169 (11%)
Query: 81 RDEIRLGLPSKGRMAADTLDLLKDCQLSVKQVNPRQYVAQIPQLSNLEVWFQRPKDIVRK 140
+IR+ +PSKGR++ + LL++ + +K R+ ++ +EV F R DI
Sbjct: 2 VPKIRIAVPSKGRISEPAIRLLENAGVGLKDTVNRKLFSKTQHP-QIEVMFSRAADIPEF 60
Query: 141 LLSGDLDLGIVGLDTVSEFGQGNEDLIIVHDALDYGDCRLSLAIPKYGIFENINSLRELA 200
+ G DLGI G D + E G D+ I+ D L YG L LA P+ +
Sbjct: 61 VADGAADLGITGYDLIVERG---SDVEILED-LKYGRASLVLAAPEDSTIRGPEDIPR-- 114
Query: 201 QMPQWTAEKPLRVATGFTYLGPKFMKDNGLK-HVVFSTADGALEAAPAV 248
+AT F + +++++G+ VV G+ E AP +
Sbjct: 115 ---------GAVIATEFPGITENYLREHGIDAEVVEL--TGSTEIAPFI 152
>1nh8_A ATP phosphoribosyltransferase; prtase, de novo His biosynthesis,
PRPP, structural genomics, PSI, protei structure
initiative; HET: AMP HIS; 1.80A {Mycobacterium
tuberculosis H37RV} SCOP: c.94.1.1 d.58.5.3 PDB: 1nh7_A*
Length = 304
Score = 143 bits (362), Expect = 1e-41
Identities = 42/174 (24%), Positives = 74/174 (42%), Gaps = 20/174 (11%)
Query: 75 DNRISERDEIRLGLPSKGRMAADTLDLLKDCQLSVKQVNPRQYVAQIPQLSNLEVWFQRP 134
+ S +R+ +P+KG ++ ++L + + + + P N+E +F RP
Sbjct: 13 HHHHSSGMMLRVAVPNKGALSEPATEILAEAGYRRR-TDSKDLTVIDPVN-NVEFFFLRP 70
Query: 135 KDIVRKLLSGDLDLGIVGLDTVSEFGQGNEDLIIVHDALDYGDCRLSLAIPKYGIFENIN 194
KDI + SG+LD GI G D V + G + L +G A P +
Sbjct: 71 KDIAIYVGSGELDFGITGRDLVCDSG---AQVRERLA-LGFGSSSFRYAAPAGRNW---- 122
Query: 195 SLRELAQMPQWTAEKPLRVATGFTYLGPKFMKDNGLKHVVFSTADGALEAAPAV 248
+ +LA +R+AT + L K + G++ V DGA+E + +
Sbjct: 123 TTADLA---------GMRIATAYPNLVRKDLATKGIEATVI-RLDGAVEISVQL 166
>1ve4_A ATP phosphoribosyltransferase; riken structural genomics/proteomics
initiative structural genomics; 1.20A {Thermus
thermophilus} SCOP: c.94.1.1
Length = 206
Score = 104 bits (261), Expect = 1e-27
Identities = 41/170 (24%), Positives = 66/170 (38%), Gaps = 27/170 (15%)
Query: 80 ERDEIRLGLPSKGRMAADTLDLLKDCQLSVKQVNPRQYVAQIPQLSNLEVWFQRPKDIVR 139
R + + LP KGRM + ++LK L + +V + + + + + R KD+
Sbjct: 2 RRFALTVALP-KGRMFREAYEVLKRAGLDLPEVEGERTLLHGKEG-GVALLELRNKDVPI 59
Query: 140 KLLSGDLDLGIVGLDTVSEFGQGNEDLIIVHDALDYGDCRLSLAIPKYGIFENINSLREL 199
+ G ++G+VG D + + G DL D L +G CRLSL
Sbjct: 60 YVDLGIAEIGVVGKDVLLDSG---RDLFEPVD-LGFGACRLSLIRRPGDTGPI------- 108
Query: 200 AQMPQWTAEKPLRVATGFTYLGPKFMKDNGLK-HVVFSTADGALEAAPAV 248
RVAT + + +K+ G VV G +E A
Sbjct: 109 -----------RRVATKYPNFTARLLKERGWAADVVEL--SGNIELAAVT 145
>1z7m_E ATP phosphoribosyltransferase; ATP-PRT, histidine biosynthesis,
hiszg, alloste evolution; 2.90A {Lactococcus lactis}
SCOP: c.94.1.1 PDB: 1z7n_E*
Length = 208
Score = 98.0 bits (245), Expect = 3e-25
Identities = 34/168 (20%), Positives = 69/168 (41%), Gaps = 25/168 (14%)
Query: 84 IRLGLPSKGRMAADTLDLLKDCQLSVKQV--NPRQYVAQIPQLSNLEVWFQRPKDIVRKL 141
I++ + KGR+ LL++ V+ + R+ + +L++ F +P D++ L
Sbjct: 2 IKIAIT-KGRIQKQVTKLLENADYDVEPILNLGRELQIKTKD--DLQIIFGKPNDVITFL 58
Query: 142 LSGDLDLGIVGLDTVSEFGQGNEDLIIVHDALDYGDCRLSLAIPKYGIFENINSLRELAQ 201
G +D+G VG DT+ E +D + L G C +LA + ++
Sbjct: 59 EHGIVDIGFVGKDTLDE--NDFDDYYELLY-LKIGQCIFALASYP-----DFSNKNFQRH 110
Query: 202 MPQWTAEKPLRVATGFTYLGPKFMKDNGLK-HVVFSTADGALEAAPAV 248
R+A+ + + K+ ++ +G++E P V
Sbjct: 111 K---------RIASKYPRVTKKYFAQKQEDIEIIKL--EGSVELGPVV 147
>2vd2_A ATP phosphoribosyltransferase; HISG, glycosyltransferase, histidine
biosynthes amino-acid biosynthesis; 2.85A {Bacillus
subtilis}
Length = 214
Score = 98.0 bits (245), Expect = 3e-25
Identities = 34/168 (20%), Positives = 71/168 (42%), Gaps = 27/168 (16%)
Query: 84 IRLGLPSKGRMAADTLDLLKDCQLSVKQV--NPRQYVAQIPQLSNLEVWFQRPKDIVRKL 141
+ + +P KGR+ + LL+ + + + R+ + +P+ NL +P D+ +
Sbjct: 6 LTMAMP-KGRIFEEAAGLLRQAGYRLPEEFEDSRKLIIDVPEE-NLRFILAKPMDVTTYV 63
Query: 142 LSGDLDLGIVGLDTVSEFGQGNEDLIIVHDALDYGDCRLSLAIPKYGIFENINSLRELAQ 201
G D+GI G D + E D+ V D L+ C L++A + +
Sbjct: 64 EHGVADVGIAGKDVMLEEE---RDVYEVLD-LNISKCHLAVAGLPNTDWSGVA------- 112
Query: 202 MPQWTAEKPLRVATGFTYLGPKFMKDNGLK-HVVFSTADGALEAAPAV 248
R+AT + + + ++ G + ++ +G++E AP +
Sbjct: 113 ---------PRIATKYPNVASSYFREQGEQVEIIKL--NGSIELAPLI 149
>1o63_A ATP phosphoribosyltransferase; structural genomics; 2.00A
{Thermotoga maritima} SCOP: c.94.1.1 PDB: 1o64_A 1usy_E*
1usy_H*
Length = 219
Score = 97.7 bits (244), Expect = 5e-25
Identities = 34/166 (20%), Positives = 60/166 (36%), Gaps = 29/166 (17%)
Query: 84 IRLGLPSKGRMAADTLDLLKDCQLSVKQVNPRQYVAQIPQLSNLEVWFQRPKDIVRKLLS 143
++L +P KGR+ + LK + + R+ ++ + RP D+ L+
Sbjct: 3 LKLAIP-KGRLEEKVMTYLKKTGVIFE----RESSILREGK-DIVCFMVRPFDVPTYLVH 56
Query: 144 GDLDLGIVGLDTVSEFGQGNEDLIIVHDALDYGDCRLSLAIPKYGIFENINSLRELAQMP 203
G D+G G D + E LI + R+ LA PK
Sbjct: 57 GVADIGFCGTDVLLEKE---TSLIQPFF-IPTNISRMVLAGPKGRGIPEGE--------- 103
Query: 204 QWTAEKPLRVATGFTYLGPKFMKDNGLK-HVVFSTADGALEAAPAV 248
R+AT F + ++ + G ++ G++E AP
Sbjct: 104 -------KRIATKFPNVTQRYCESKGWHCRIIPL--KGSVELAPIA 140
>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 = 42.7 bits (100), Expect = 9e-05
Identities = 51/294 (17%), Positives = 83/294 (28%), Gaps = 129/294 (43%)
Query: 17 CPSLSPSGLSFFCPLSS-----FHISVAS---GPTTATNKPAAAVTCCVSSSQQFESHVS 68
+ + S SFF + F I V P T+ P + + + +++ S +
Sbjct: 282 AIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSL--PPSILEDSLENNEGVPSPML 339
Query: 69 VVNGNIDNRISER-DEIRLGLPSKGRMAADTLDLLKDCQLSVKQVN-PRQYV-AQIPQ-L 124
++ ++ + ++ LP+ Q+ + VN + V + PQ L
Sbjct: 340 SISNLTQEQVQDYVNKTNSHLPA-------------GKQVEISLVNGAKNLVVSGPPQSL 386
Query: 125 SNLEVWFQRPKDIVRKLLSGDLDLGIVGLDTVSEFGQGNEDLIIVHDALDYGDCRLSLAI 184
L + RK + GLD Q R I
Sbjct: 387 YGLNLTL-------RKAKAPS------GLD------Q----------------SR----I 407
Query: 185 PKYGIFENINSLRELAQMPQWTAEKP------LRVATGF--TYLGP---KFMKDNGLKHV 233
P F S R K L VA+ F L P KD +V
Sbjct: 408 P----F----SER-----------KLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNV 448
Query: 234 ----------VFSTADGA------------L-----------EAAPAVRITHLL 254
V+ T DG+ + E + TH+L
Sbjct: 449 SFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHIL 502
Score = 40.8 bits (95), Expect = 3e-04
Identities = 57/285 (20%), Positives = 90/285 (31%), Gaps = 94/285 (32%)
Query: 8 LFL-----QPYFRQCPSLSPSGLSFFCPLSSFHISVASGPTTATNKPAAAVTCCVSSSQQ 62
LF + SL PS L S+ + + P +++ + +Q
Sbjct: 303 LFFIGVRCYEAYPNT-SLPPSILE---------DSLENNEGVPS--PMLSISNL--TQEQ 348
Query: 63 FESHV---------------SVVNGNIDNR-ISERDEIRLGLPSKGRMAADTLDLLKDCQ 106
+ +V S+VNG N +S G P +L L +
Sbjct: 349 VQDYVNKTNSHLPAGKQVEISLVNGA-KNLVVS-------GPPQ-------SLYGL-NLT 392
Query: 107 LSVKQVNPRQYVAQIPQLSNLEVWF-QR-PKDIVR----------KLLSGDLDLGIVGLD 154
L + ++IP F +R K R LL DL L
Sbjct: 393 LRKAKAPSGLDQSRIP--------FSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLV 444
Query: 155 TVSEFGQGNEDLII-VHDALDYGDCR-LSLAIPKYGIFENINSLRELAQMP-QWTAEKPL 211
+ +D+ I V+D D D R LS +I E I + + ++P +W
Sbjct: 445 KNNVSFNA-KDIQIPVYDTFDGSDLRVLSGSIS-----ERI--VDCIIRLPVKWETTTQF 496
Query: 212 RVATGFTYLGPKFMKDNGLKHVVFSTADG---------ALEAAPA 247
+ AT GP +GL + DG L+ P
Sbjct: 497 K-ATHILDFGPG--GASGLGVLTHRNKDGTGVRVIVAGTLDINPD 538
Score = 38.5 bits (89), Expect = 0.002
Identities = 25/126 (19%), Positives = 36/126 (28%), Gaps = 51/126 (40%)
Query: 55 CCVSSSQQFESHVSVVN--GNIDNRISERDEIRLGLPSKGRMAADTLDLLKDCQLSVKQV 112
++ ES V VV G RDE S M A +
Sbjct: 1771 ASLADVMSIESLVEVVFYRGMTMQVAVPRDE---LGRSNYGMIA---------------I 1812
Query: 113 NP------------RQYVAQIPQLSNLEVW---F-----QRPKDIVRKLLSGDLDLGIVG 152
NP + V ++ + + V + Q V +GDL
Sbjct: 1813 NPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQ----YV---AAGDL----RA 1861
Query: 153 LDTVSE 158
LDTV+
Sbjct: 1862 LDTVTN 1867
Score = 31.9 bits (72), Expect = 0.22
Identities = 16/98 (16%), Positives = 41/98 (41%), Gaps = 23/98 (23%)
Query: 36 ISVASGPTTATNKPAAAVTCCVSSSQQFESHVSVVNGNIDNR---ISERDEIRLGLPSKG 92
I++ G A+ A ++ V +VN N++N+ + G
Sbjct: 1810 IAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAA------------G 1857
Query: 93 RMAA-DTL-DLLKDCQLSVKQVNPRQYVAQIPQLSNLE 128
+ A DT+ ++L + +++++ + ++ + +LE
Sbjct: 1858 DLRALDTVTNVLN--FIKLQKID----IIELQKSLSLE 1889
Score = 27.7 bits (61), Expect = 4.4
Identities = 40/225 (17%), Positives = 74/225 (32%), Gaps = 51/225 (22%)
Query: 1 MSVSSASLFLQPYFRQCPSLSPSGLSFFCP-LSSFHISVASGPTTAT---NKPAAAVTCC 56
+++S SL + L P+ F L + PT ++P
Sbjct: 9 LTLSHGSL-------EHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELV 61
Query: 57 VSSSQQFESHVS-VVNGNIDNRISERDEI-RLGLPS------KGR---MAADTLDLLKDC 105
+F +VS +V +++ + D++ L L +G A L D
Sbjct: 62 G----KFLGYVSSLVE---PSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDT 114
Query: 106 QLSVKQVNPRQYVAQIPQLSNLEVWFQRPKDIVRKLLSGDLDLGIVGLDTVSEF-GQGN- 163
L + + Y+ ++ + + R + G+ L V+ F GQGN
Sbjct: 115 TLVKTKELIKNYITAR-IMAKRPFDKKSNSALFRAVGEGNAQL-------VAIFGGQGNT 166
Query: 164 ----EDLIIVHDALDYGDCRLSLAIPKYGIFENINSLRELAQMPQ 204
E+L ++ Y L I + +L EL +
Sbjct: 167 DDYFEELRDLYQ--TYHVLVGDL------IKFSAETLSELIRTTL 203
>3qsl_A Putative exported protein; unknown, structural genomics,
PSI-biology, midwest center FO structural genomics,
MCSG, unknown function; HET: MSE CIT; 2.00A {Bordetella
bronchiseptica}
Length = 346
Score = 32.2 bits (73), Expect = 0.13
Identities = 13/109 (11%), Positives = 27/109 (24%), Gaps = 19/109 (17%)
Query: 129 VWFQRPKDIVRKLLSGDLDLGIVGLD-TVSEFGQGNEDLIIVHDALDYGDCRLSLAIPKY 187
F ++ ++ G D+ + T+S +G
Sbjct: 69 ADFAGGSKALQAVVGGSADVVSGAFEHTLSLQAKGQFYRAFALQGRAPMIGVGVSKKNLP 128
Query: 188 GIFENINSLRELAQMPQWTAEKPLRVATGF-----TYLGPKFMKDNGLK 231
G +L K ++ + F+ +GLK
Sbjct: 129 GYK----GPADL---------KGRKIGVTAPGSSTNMVVNFFLAKHGLK 164
>1qzm_A ATP-dependent protease LA; oligomerization domain, AAA+ protein,
hydrolase; 1.90A {Escherichia coli} SCOP: c.37.1.20
Length = 94
Score = 29.4 bits (67), Expect = 0.29
Identities = 8/24 (33%), Positives = 13/24 (54%)
Query: 219 YLGPKFMKDNGLKHVVFSTADGAL 242
+L PK ++ N LK + D A+
Sbjct: 15 HLLPKQIERNALKKGELTVDDSAI 38
>1al3_A Cys regulon transcriptional activator CYSB; LYSR family, cysteine
biosynthesis, transcription regulation; 1.80A
{Klebsiella aerogenes} SCOP: c.94.1.1
Length = 324
Score = 29.1 bits (66), Expect = 1.2
Identities = 8/39 (20%), Positives = 17/39 (43%), Gaps = 1/39 (2%)
Query: 115 RQYVAQIPQLSNLEVWFQRPKDIVRKLLSGDLDLGIVGL 153
+ ++ + P++S L + P I + G+ D I
Sbjct: 113 KGFIERYPRVS-LHMHQGSPTQIAEAVSKGNADFAIATE 150
>3ku3_A Hemagglutinin HA1 chain; viral envelope protein, viral fusion
protein, protein, viral protein; HET: NAG; 1.60A
{Influenza a virus} PDB: 3qqb_A* 3qqe_A* 3qqo_A* 3ku6_A*
3ku5_A* 1jsm_A* 1jsn_A* 1jso_A* 3qqi_A*
Length = 327
Score = 28.5 bits (63), Expect = 1.9
Identities = 15/111 (13%), Positives = 35/111 (31%), Gaps = 11/111 (9%)
Query: 111 QVNPRQYVAQIPQLSNLEVWFQRPKDIVRKLLSGDLDLGIVGLDTVSEFGQGNEDLIIVH 170
++ R V D + +G ++ + + + I+
Sbjct: 213 EIATRPKVNGQGGRMEFSWTLLDMWDTINFESTG----NLIAPEYGFKISKRGSSGIMKT 268
Query: 171 DALDYGDCRLSLAIPKYGI-----FENINSLRELAQMPQWTAEKPLRVATG 216
+ +C P I F N++ + + P++ + L +ATG
Sbjct: 269 E-GTLENCETKCQTPLGAINTTLPFHNVHP-LTIGECPKYVKSEKLVLATG 317
>2hxr_A HTH-type transcriptional regulator CYNR; CYNR transcriptional
regulator LYSR struc genomics, PSI-2, protein structure
initiative; 2.05A {Escherichia coli} PDB: 3hfu_A
Length = 238
Score = 27.9 bits (63), Expect = 2.5
Identities = 14/81 (17%), Positives = 25/81 (30%), Gaps = 18/81 (22%)
Query: 80 ERDEIRLGLPSKGRMAADTL--DLLKDCQLSVKQVNPRQYVAQIPQLSNLEVWFQRPKDI 137
R +R+ + L+ D +Y P + L++ + I
Sbjct: 28 TRGSLRIAVTP---TFTSYFIGPLMADFY--------ARY----PSI-TLQLQEMSQEKI 71
Query: 138 VRKLLSGDLDLGIVGLDTVSE 158
L +LD+GI S
Sbjct: 72 EDMLCRDELDVGIAFAPVHSP 92
>2x7q_A Ca3427, possible thiamine biosynthesis enzyme; unknown function;
2.00A {Candida albicans} PDB: 2x7p_A
Length = 321
Score = 28.1 bits (62), Expect = 2.9
Identities = 11/67 (16%), Positives = 31/67 (46%), Gaps = 4/67 (5%)
Query: 134 PKDIVRKLLSGDLDLGIVGLD-TVSEFGQGNEDLIIVHDALDYGDCRLSLAIPKYGIFEN 192
++ L S ++D+ I + +++ +GNE++ ++ Y L A+ ++
Sbjct: 55 SGRLINLLNSNEVDIAIGLTEAFIADIAKGNENIHVL---DTYVKSPLLWAVSTGSNRDD 111
Query: 193 INSLREL 199
+ ++L
Sbjct: 112 VTDAKQL 118
>2fyi_A HTH-type transcriptional regulator CBL; Lys-R family,
cofactor-binding DO cysteine biosynthesis; 2.80A
{Escherichia coli K12} SCOP: c.94.1.1
Length = 228
Score = 27.6 bits (62), Expect = 3.2
Identities = 10/39 (25%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 115 RQYVAQIPQLSNLEVWFQRPKDIVRKLLSGDLDLGIVGL 153
+ + P++ LE+ P++I L +G+ D+GI
Sbjct: 34 KAFRELFPEVR-LELIQGTPQEIATLLQNGEADIGIASE 71
>2wm3_A NMRA-like family domain containing protein 1; unknown function;
HET: NAP NFL; 1.85A {Homo sapiens} PDB: 2wmd_A* 2exx_A*
3dxf_A 3e5m_A
Length = 299
Score = 27.7 bits (62), Expect = 3.4
Identities = 5/21 (23%), Positives = 10/21 (47%)
Query: 226 KDNGLKHVVFSTADGALEAAP 246
+ GL +VV+S + +
Sbjct: 103 RRLGLHYVVYSGLENIKKLTA 123
>3ubq_A Hemagglutinin HA1; viral envelope protein, viral fusion protein,
protein-immune system complex; HET: NAG SIA GAL; 2.00A
{Influenza a virus} PDB: 3ubj_A* 3ubn_A* 3ube_A* 3lzg_A*
3ztn_A* 3al4_A* 3lyj_A* 3m6s_A* 4f3z_A* 3gbn_A* 3lzf_A*
3r2x_A* 4eef_A* 1ruy_H* 1rd8_A* 1rvt_H* 1rv0_H* 2wrg_H*
1ruz_H* 3hto_A* ...
Length = 329
Score = 27.8 bits (61), Expect = 4.0
Identities = 15/54 (27%), Positives = 24/54 (44%), Gaps = 6/54 (11%)
Query: 168 IVHDALDYGDCRLSLAIPKYGI-----FENINSLRELAQMPQWTAEKPLRVATG 216
I+ DC + PK I F+NI+ + + P++ LR+ATG
Sbjct: 267 IIISDTPVHDCNTTCQTPKGAINTSLPFQNIHP-ITIGKCPKYVKSTKLRLATG 319
>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase,
nucleotide-binding, Pro serine protease, stress
response; HET: ADP; 3.40A {Bacillus subtilis} PDB:
1x37_A
Length = 543
Score = 27.9 bits (63), Expect = 4.3
Identities = 12/46 (26%), Positives = 22/46 (47%), Gaps = 2/46 (4%)
Query: 198 ELAQMPQWTAEKPLRVATGFTYLGPKFMKDNGLKHVVFSTADGALE 243
E+ + +T + L + +L PK +K++GLK D A+
Sbjct: 246 EIINIAGYTEIEKLEIVK--DHLLPKQIKEHGLKKSNLQLRDQAIL 289
>3ho7_A OXYR; beta-alpha-barrels, DNA-binding, transcription, transcriptio
regulation; 1.58A {Porphyromonas gingivalis}
Length = 232
Score = 27.2 bits (61), Expect = 4.6
Identities = 8/32 (25%), Positives = 15/32 (46%), Gaps = 1/32 (3%)
Query: 122 PQLSNLEVWFQRPKDIVRKLLSGDLDLGIVGL 153
L + V + + LLSG++D+ I+
Sbjct: 38 AGL-EIHVSEMQTSRCLASLLSGEIDMAIIAS 68
>3hn0_A Nitrate transport protein; ABC transporter, structural genomics,
joint center for struc genomics, JCSG, protein structure
initiative; 1.75A {Parabacteroides distasonis}
Length = 283
Score = 26.8 bits (59), Expect = 6.5
Identities = 3/41 (7%), Positives = 12/41 (29%)
Query: 129 VWFQRPKDIVRKLLSGDLDLGIVGLDTVSEFGQGNEDLIIV 169
P L+ + D+ ++ + + + +
Sbjct: 38 KVVDSPDLAQALLIKQETDIAVLPMINAANLYNKGIKIKLA 78
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl RED
beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces
cerevisiae}
Length = 1688
Score = 27.1 bits (60), Expect = 7.1
Identities = 14/97 (14%), Positives = 28/97 (28%), Gaps = 23/97 (23%)
Query: 159 FGQGNEDLIIVHDALDYGDCRLSLAIPKYGIFENINSLRELAQMPQWTAEKPLRVATGFT 218
FGQ I+VH P Y + + ++ A+ R + +
Sbjct: 1447 FGQKGGQAIVVH--------------PDY-----LYGAITEDRYNEYVAKVSAREKSAYK 1487
Query: 219 YLGPKFMKDNGLKHVVFSTADGALEAA----PAVRIT 251
+ + + + LE P R++
Sbjct: 1488 FFHNGMIYNKLFVSKEHAPYTDELEEDVYLDPLARVS 1524
>3jv9_A OXYR, transcriptional regulator, LYSR family; LYSR-type
transcriptional regulator, LTTR, redox, structural
genomics, OPPF; 2.39A {Neisseria meningitidis}
Length = 219
Score = 26.5 bits (59), Expect = 7.5
Identities = 8/32 (25%), Positives = 13/32 (40%), Gaps = 1/32 (3%)
Query: 122 PQLSNLEVWFQRPKDIVRKLLSGDLDLGIVGL 153
P++ L + + L GD+D IV
Sbjct: 31 PKM-PLMLEENYTHTLTESLKRGDVDAIIVAE 61
>1i6a_A OXYR, hydrogen peroxide-inducible genes activator; OXYR regulatory
domain, oxidized form, transcription; 2.30A {Escherichia
coli} SCOP: c.94.1.1 PDB: 1i69_A
Length = 219
Score = 26.4 bits (59), Expect = 7.6
Identities = 9/39 (23%), Positives = 17/39 (43%), Gaps = 1/39 (2%)
Query: 115 RQYVAQIPQLSNLEVWFQRPKDIVRKLLSGDLDLGIVGL 153
P+L + + + ++ +L SG LD I+ L
Sbjct: 25 PMLHQTFPKL-EMYLHEAQTHQLLAQLDSGKLDAVILAL 62
>1su8_A CODH 2, carbon monoxide dehydrogenase 2; nickel, cluster C,
oxidoreductase; HET: NFS; 1.10A {Carboxydothermus
hydrogenoformans} SCOP: e.26.1.2 PDB: 1su6_A* 1su7_A*
1suf_A* 2yiv_X* 3b51_X 3b52_X 3b53_X 3i39_X
Length = 636
Score = 26.9 bits (59), Expect = 8.1
Identities = 11/55 (20%), Positives = 19/55 (34%), Gaps = 6/55 (10%)
Query: 173 LDYGDC----RLS-LAIPKYGIFE-NINSLRELAQMPQWTAEKPLRVATGFTYLG 221
L G C R L +++ L +A + EK + + T +G
Sbjct: 521 LHMGSCVDNSRAVALVAALANRLGVDLDRLPVVASAAEAMHEKAVAIGTWAVTIG 575
>1xgk_A Nitrogen metabolite repression regulator NMRA; rossmann fold,
transcriptional regulation, short chain dehyd reductase,
NADP binding; 1.40A {Emericella nidulans} SCOP: c.2.1.2
PDB: 1k6x_A* 1k6j_A 1k6i_A* 1ti7_A* 2vus_A 2vut_A*
2vuu_A*
Length = 352
Score = 26.7 bits (59), Expect = 8.3
Identities = 3/24 (12%), Positives = 9/24 (37%)
Query: 229 GLKHVVFSTADGALEAAPAVRITH 252
++H ++S+ P +
Sbjct: 104 TIQHYIYSSMPDHSLYGPWPAVPM 127
>4ab5_A Transcriptional regulator, LYSR family; transcription factors;
2.51A {Neisseria meningitidis serogroup B} PDB: 4ab6_A
Length = 222
Score = 26.5 bits (59), Expect = 8.9
Identities = 11/38 (28%), Positives = 16/38 (42%), Gaps = 1/38 (2%)
Query: 115 RQYVAQIPQLSNLEVWFQRPKDIVRKLLSGDLDLGIVG 152
++ PQ+ L++ D V LL DL IV
Sbjct: 28 GEFRPMWPQV-ELDIVSGFQADPVGLLLQHRADLAIVS 64
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
0.320 0.135 0.399
Gapped
Lambda K H
0.267 0.0824 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,794,284
Number of extensions: 220950
Number of successful extensions: 426
Number of sequences better than 10.0: 1
Number of HSP's gapped: 404
Number of HSP's successfully gapped: 35
Length of query: 254
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 163
Effective length of database: 4,160,982
Effective search space: 678240066
Effective search space used: 678240066
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 (21.8 bits)
S2: 56 (25.2 bits)