RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254781122|ref|YP_003065535.1| putative thiamine
pyrophosphokinase [Candidatus Liberibacter asiaticus str. psy62]
(222 letters)
>3lm8_A Thiamine pyrophosphokinase; structural genomics, PSI-2, protein
structure initiative, northeast structural genomics
consortium, NESG; HET: VIB; 2.60A {Bacillus subtilis}
Length = 222
Score = 142 bits (360), Expect = 5e-35
Identities = 58/215 (26%), Positives = 96/215 (44%), Gaps = 8/215 (3%)
Query: 12 FAILLNGDIRVTNRLLCAIESCK-VIAADGGICHASQLKVVPELWIGDFDSVDRTLLQQW 70
I+ G + L + I D G ++P GDFDS+ ++
Sbjct: 4 INIVAGGPKNLIPDLTGYTDEHTLWIGVDKGTVTLLDAGIIPVEAFGDFDSITEQERRRI 63
Query: 71 SS--IKRIFYPNDKDMADGEIAVHKALQSGARNIILVGSISGQRFDYALQHITLATSLKK 128
Y +KD D ++A+ AL+ I + G I+G R D+ L +I L K
Sbjct: 64 EKAAPALHVYQAEKDQTDLDLALDWALEKQPDIIQIFG-ITGGRADHFLGNIQLLYKGVK 122
Query: 129 KNINVTLTSGIEEVFILVPGKHSFDLPENS--VFSIVCLEDIENITITGAKYTLSHHSLS 186
NI + L + + PG++ + EN + I EDI +T+TG KY L++ ++
Sbjct: 123 TNIKIRLIDKQNHIQMFPPGEYDIEKDENKRYISFIPFSEDIHELTLTGFKYPLNNCHIT 182
Query: 187 LGSSRAVSNVVTKN-LTIMLDQGLAILISRPYDLQ 220
LGS+ +SN + + T +G+ I+I R DL+
Sbjct: 183 LGSTLCISNELIHSRGTFSFVKGILIMI-RSTDLE 216
>3l8m_A Probable thiamine pyrophosphokinase; thiamin diphosphate
biosynthetic process, ATP binding, structural genomics,
PSI-2; 2.40A {Staphylococcus saprophyticus}
Length = 212
Score = 137 bits (347), Expect = 1e-33
Identities = 51/206 (24%), Positives = 96/206 (46%), Gaps = 6/206 (2%)
Query: 13 AILLNGDIRVTNRLLCAIESCKVIAADGGICHASQLKVVPELWIGDFDSVDRTLLQQ-WS 71
A LL G+ + +L + I D G + + P+ +GDFDS+ +
Sbjct: 3 ANLLCGNRNLPKHILVEHKHEHWIGIDRGTLILLESGITPQFAVGDFDSISDSERNFIQQ 62
Query: 72 SIKRIFYPNDKDMADGEIAVHKALQSGARNIILVGSISGQRFDYALQHITL--ATSLKKK 129
I+ Y ++KD D + + +A++ G RNI + G +G R D+ + + + K
Sbjct: 63 QIEINPYNSEKDDTDLALGIDQAVKRGYRNIDVYG-ATGGRLDHFMGALQILEKPEYAKM 121
Query: 130 NINVTLTSGIEEVFILVPGKHSFDLPEN-SVFSIVCLEDIENITITGAKYTLSHHSLSLG 188
NIN+ L E+ + G+ + E S + + I++ G KY L + +L LG
Sbjct: 122 NINIKLIDDTNEIQFIQKGQFNVTYSEQFPYISFIPVIYPTVISLKGFKYNLQNETLKLG 181
Query: 189 SSRAVSNVVTKN-LTIMLDQGLAILI 213
S+ +SN ++++ I + +G ++I
Sbjct: 182 STLTISNELSQSCGNIEIIEGSVLMI 207
>1ig3_A Thiamin pyrophosphokinase; beta barrel, alpha/beta/alpha sandwich,
transferase; HET: VIB; 1.90A {Mus musculus} SCOP:
b.82.6.1 c.100.1.1 PDB: 2f17_A*
Length = 263
Score = 128 bits (322), Expect = 1e-30
Identities = 43/220 (19%), Positives = 84/220 (38%), Gaps = 24/220 (10%)
Query: 14 ILLNGDIRVTNRLLCAI--ESCKVIAADGGICHASQL------KVVPELWIGDFDSVDRT 65
++LN + + + ++ ADGG H L +PE GDFDS+
Sbjct: 42 VVLNQPL---DARFRHLWKKALLRACADGGANHLYDLTEGERESFLPEFVSGDFDSIRPE 98
Query: 66 LLQQWSS-IKRIFYPNDKDMADGEIAVHKALQ------SGARNIILVGSISGQRFDYALQ 118
+ + ++ + D+D D + + I+ +G G RFD +
Sbjct: 99 VKEYYTKKGCDLISTPDQDHTDFTKCLQVLQRKIEEKELQVDVIVTLG-GLGGRFDQIMA 157
Query: 119 HI-TLATSLKKKNINVTLTSGIEEVFILVPGKHSFDLPENSVFSIVCL----EDIENITI 173
+ TL + + + + +++L PGKH + S L + +T
Sbjct: 158 SVNTLFQATHITPVPIIIIQKDSLIYLLQPGKHRLHVDTGMEGSWCGLIPVGQPCNQVTT 217
Query: 174 TGAKYTLSHHSLSLGSSRAVSNVVTKNLTIMLDQGLAILI 213
TG K+ L++ L G+ + SN + + ++ +L
Sbjct: 218 TGLKWNLTNDVLGFGTLVSTSNTYDGSGLVTVETDHPLLW 257
>3mel_A Thiamin pyrophosphokinase family protein; structural genomics,
PSI-2, protein structure initiative, no structural
genomics consortium; HET: TPP; 2.79A {Enterococcus
faecalis}
Length = 222
Score = 127 bits (319), Expect = 3e-30
Identities = 43/206 (20%), Positives = 86/206 (41%), Gaps = 8/206 (3%)
Query: 14 ILLNGDIRVTNRLLCAIESCKVIAADGGICHASQLKVVPELWIGDFDSVDRTLLQQ--WS 71
++ G+ + A + D G H + + +L +GDFDS+ R +
Sbjct: 6 LVAGGNPSDWPTIEPATYDY-FVGIDRGCLHLLEADLPLQLAVGDFDSLSREEYHFVQET 64
Query: 72 SIKRIFYPNDKDMADGEIAVHKALQSGARNIILVGSISGQRFDYALQHITLATSLKKKNI 131
+ I P +KD D ++A+ +ALQ + + + +G R D+ L ++ L + + +
Sbjct: 65 TETLIQAPAEKDDTDTQLALQEALQRFPQAEMTIIGATGGRIDHLLANLWLPFEPRFQGV 124
Query: 132 --NVTLTSGIEEVFILVPGKHSF-DLPENSVFSIVCLEDIENITITGAKYTLSHHSLSLG 188
+ L + PG + P+ + CL +EN+T+ +KY L++ +
Sbjct: 125 LRQIRLCDRQNSIQYYAPGSYIVPKEPDKEYLAYCCLTPVENLTLRRSKYLLTNQDVPYP 184
Query: 189 SSRAVSNVVTKN-LTIMLDQGLAILI 213
+ SN + D G+ +I
Sbjct: 185 -TSYASNEFIEEAAAFSFDAGMIAVI 209
>3cq9_A Uncharacterized protein LP_1622; Q88WK7_lacpl, transferase,
thiamine pyrophosphokinase, NESG, LPR114, structural
genomics, PSI-2; 2.20A {Lactobacillus plantarum WCFS1}
Length = 227
Score = 125 bits (314), Expect = 1e-29
Identities = 40/207 (19%), Positives = 77/207 (37%), Gaps = 7/207 (3%)
Query: 12 FAILLNGDIRVTNRLLCAIESCKVIAADGGICHASQLKVVPELWIGDFDSVDRTLLQ--Q 69
+L+ G L I + AD G + + P + +GDFDS+D LQ +
Sbjct: 5 VNLLVGGPTANYPADLTTIPG-PWVGADRGALRLVKRGIQPVMVVGDFDSIDAAELQTVK 63
Query: 70 WSSIKRIFYPNDKDMADGEIAVHKALQSGARNIILVGSISGQRFDYALQHITLATS--LK 127
+ + I D+D D ++A+ + + + + +G R D+ L ++ L +
Sbjct: 64 DALVGAIVVKPDQDHTDTQLAIKSIFEQLQPDEVHLYGATGGRLDHLLANMWLVLDPVFR 123
Query: 128 KKNINVTLTSGIEEVFILVPGKHSFDLPENSVFSIVCLEDIENITITGAKYTLSHHSLSL 187
+ + L V +PG + + + ++T+ KY L +
Sbjct: 124 QWAPQIKLIDKQNSVRFFLPGDYQITKEADKRYLAFVPLMPMHLTLPDEKYQLDAAYNA- 182
Query: 188 GSSRAVSNVVTKN-LTIMLDQGLAILI 213
SN + N D G+ +I
Sbjct: 183 YPISWASNEFSGNTGHFSFDAGVLAVI 209
>3k94_A Thiamin pyrophosphokinase; structural genomics, PSI-2, protein
structure initiative; 2.10A {Geobacillus
thermodenitrificans ng80-2}
Length = 223
Score = 123 bits (309), Expect = 4e-29
Identities = 49/206 (23%), Positives = 86/206 (41%), Gaps = 9/206 (4%)
Query: 14 ILLNGDIRVTNRLLCAIESCK-VIAADGGICHASQLKVVPELWIGDFDSVDRTLLQQWSS 72
I+ G + L + D G + P GDFDS+ + +
Sbjct: 5 IVGGGPRELLPDLRFYDGEDVCWVGVDRGTMTLLEAGFRPVRAFGDFDSLPAEDVVKLQQ 64
Query: 73 --IKRIFYPNDKDMADGEIAVHKALQSGARNIILVGSISGQRFDYALQHITLATSLKKKN 130
+P +KD D EIA+ A++ AR I L G+ G R D+ ++ L +
Sbjct: 65 AFPDLDVWPAEKDKTDMEIALDWAVEQTARCIRLFGATGG-RLDHLFGNVELLLKYADRP 123
Query: 131 INVTLTSGIEEVFILVPGKHSF--DLPENSVFSIVCLEDIENITITGAKYTLSHHSLSLG 188
I + + + +PG ++ D V I E + T+TG KY L++ +S G
Sbjct: 124 IEIVDRQ--NVLTVHLPGTYTVMYDARYCYVSYIPVSETVAEFTLTGFKYPLTNCHISRG 181
Query: 189 SSRAVSNVVTKN-LTIMLDQGLAILI 213
S+ +SN + ++ T +G+ ++I
Sbjct: 182 STLCISNELIQSSGTFSFSEGILMMI 207
>3ihk_A Thiamin pyrophosphokinase; structural genomics, PSI-2, protein
structure initiative, northeast structural genomics
consortium, NESG, SMR83; HET: TPP; 3.00A {Streptococcus
mutans}
Length = 218
Score = 120 bits (302), Expect = 2e-28
Identities = 45/206 (21%), Positives = 77/206 (37%), Gaps = 11/206 (5%)
Query: 13 AILLNGDIRVTNRLLCAIESCKVIAADGGICHASQLKVVPELWIGDFDSVDRTLLQQWS- 71
A+ GD+ R + + D G + ++ +L IGDFDSV +Q
Sbjct: 5 ALFSGGDLTYFTR-----DFDYFVGIDKGSSFLLKNQLPLDLAIGDFDSVSAEEFKQIKA 59
Query: 72 -SIKRIFYPNDKDMADGEIAVHKALQSGARNIILVGSISGQRFDYALQHITLA--TSLKK 128
+ K + P +K+ D E+A+ R I+V G R D+ L +I L L
Sbjct: 60 KAKKLVMAPAEKNDTDTELALKTIFDCFGRVEIIVFGAFGGRIDHMLSNIFLPSDPDLAP 119
Query: 129 KNINVTLTSGIEEVFILVPGKHSFDLPENSVFSIVCLEDIENITITGAKYTLSHHSLSLG 188
L V G+H + + V+ + +++I AKY L+ +
Sbjct: 120 FMRCFKLRDEQNLVEFFPAGQHQIEQATDMVYISFMAANGAHLSIQDAKYELTEENYF-Q 178
Query: 189 SSRAVSNVVTKN-LTIMLDQGLAILI 213
SN + + G ++I
Sbjct: 179 KKIYSSNEFKDKPICFSVASGYVVVI 204
>2omk_A Hypothetical protein; succinimide, thiamin pyrophosphokinase,
structural genomics, PSI-2, protein structure
initiative; 1.80A {Bacteroides thetaiotaomicron
vpi-5482}
Length = 231
Score = 113 bits (284), Expect = 3e-26
Identities = 49/212 (23%), Positives = 81/212 (38%), Gaps = 11/212 (5%)
Query: 6 TNKFIDFA-ILLNGDIRVTNRLLCAIESCK-VIAADGGICHASQLKVVPELWIGDFDSVD 63
+I A IL NG+ L + + V+ P++ IGD DS+
Sbjct: 27 NEHYIPQAIILANGEYPAHELPLRLLAEAQFVVCCXXAANEYISRGHTPDVIIGDGDSLL 86
Query: 64 RTLLQQWSSIKRIFYPNDKDMADGEIAVHKALQSGARNIILVGSISGQRFDYALQHITLA 123
+++SSI I +D++ D AVH G R I +VG+ G+R D+ L +I+L
Sbjct: 87 PEYKKRFSSI--ILQISDQETNDQTKAVHYLQSKGIRKIAIVGAT-GKREDHTLGNISLL 143
Query: 124 TSLKKKNINVTLTSGIEEVFILVPGKHSFDLPENSVFSIVCLEDIENITITGAKYTLSHH 183
+ + V + FI V SF SI+ + + G Y LS
Sbjct: 144 VEYMRSGMEVRTVT-DYGTFIPVSDTQSFASYPGQQVSIINFGA-KGLKAEGLFYPLSDF 201
Query: 184 SLSLGSSRAVSNVVTKN-LTIMLDQGLAILIS 214
+ + N + TI + ++
Sbjct: 202 TN---WWQGTLNEAIADEFTIHCTGEYLVFLA 230
>2g9z_A Thiamine pyrophosphokinase; thiamin-PNP, TPK, thiamin
pyrophosphokinase, structural genomics, profun,
bacterial targets at IGS-CNRS, france; HET: VNP; 1.96A
{Candida albicans} PDB: 2hh9_A*
Length = 348
Score = 101 bits (253), Expect = 1e-22
Identities = 38/280 (13%), Positives = 83/280 (29%), Gaps = 75/280 (26%)
Query: 14 ILLNGDIRVTNRLLCAIESCKV-IAADGG----------------ICHASQLKVVPELWI 56
++LN I + L + C++ + ADGG + + +P+ +
Sbjct: 67 LILNQKITIDLISL--WKKCEIIVCADGGANSLYEYFNDNNXXXXXENLQRSDYIPDYIV 124
Query: 57 GDFDSVDRTLLQQWSS-IKRIFYPNDKDMADGEIAVH----------------------- 92
GDFDS+ + + S +I + + D ++H
Sbjct: 125 GDFDSISPDVKTYYESHGSKIIRQSSQYYNDFTKSIHCIQLHYQLNHTKENWFESIDEVD 184
Query: 93 -------------KALQSGARNIILVGSISGQRFDYALQHITLATSLKKK--NINVTLTS 137
+ I ++ G RFD +Q I + + + V +
Sbjct: 185 GLAKLWNGLNNSSDVVVDIDITIYVLN-AIGGRFDQTVQSINQLYIMNEDYPKVTVFFIT 243
Query: 138 GIEEVFILVPGKH------------SFDLPENSVFSIVCLEDIE--NITITGAKYTLSHH 183
+ +F+L G + ++ L + + G KY + +
Sbjct: 244 TNDIIFLLKKGVNYISYKNRLMFHKDNGSSPTPTCGLLPLSNKTPIILNSYGLKYDMRNW 303
Query: 184 SLSLGSSRAVSNVVTKN--LTIMLDQGLAILISRPYDLQR 221
+ + SN ++ + + + I L
Sbjct: 304 KTEMLGQVSSSNRISGETGFIVECSDDIVMNIEIDVQLDG 343
>1ig0_A Thiamin pyrophosphokinase; protein-substrate complex, compound
active site, alpha-beta- alpha, beta sandwich,
transferase; HET: VIB; 1.80A {Saccharomyces cerevisiae}
SCOP: b.82.6.1 c.100.1.1
Length = 319
Score = 75.1 bits (184), Expect = 1e-14
Identities = 35/253 (13%), Positives = 73/253 (28%), Gaps = 67/253 (26%)
Query: 14 ILLNGDIRVTNRLLCAI-ESCKV-IAADGG---------ICHASQLKVVPELWIGDFDSV 62
++LN I + L I + + + ADG ++K +P IGD DS+
Sbjct: 42 LILNQKIDIPRPLFYKIWKLHDLKVCADGAANRLYDYLDDDETLRIKYLPNYIIGDLDSL 101
Query: 63 DRTLLQQWSSIK-RIFYPNDKDMADGEIAV------------------------------ 91
+ + + K I + D V
Sbjct: 102 SEKVYKYYRKNKVTIIKQTTQYSTDFTKCVNLISLHFNSPEFRSLISNKDNLQSNHGIEL 161
Query: 92 --------------HKALQSGARNIILVGSISGQRFDYALQHITLATSLKKK--NINVTL 135
+ +++ +G I G RFD + IT +L + +
Sbjct: 162 EKGIHTLYNTMTESLVFSKVTPISLLALGGIGG-RFDQTVHSITQLYTLSENASYFKLCY 220
Query: 136 TSGIEEVFILVPGKH------SFDLPENSVFSIVCL-EDIENITITGAKYTLSH-HSLSL 187
+ + +F++ F ++ + E G K+ + + + +
Sbjct: 221 MTPTDLIFLIKKNGTLIEYDPQFRNTCIGNCGLLPIGEATLVKETRGLKWDVKNWPTSVV 280
Query: 188 GSSRAVSNVVTKN 200
+ SN +
Sbjct: 281 TGRVSSSNRFVGD 293
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl reductase,
beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 2006
Score = 45.3 bits (107), Expect = 1e-05
Identities = 44/255 (17%), Positives = 77/255 (30%), Gaps = 112/255 (43%)
Query: 44 HASQLKVVPEL--WIG-----DF-----------DSVD----------------RTLLQQ 69
S K + + +IG + DS++ + +Q
Sbjct: 293 FVSVRKAI-TVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQ- 350
Query: 70 WSSIKRI-----FYPNDKDMADGEIAVHKALQSGARNIILVGSISGQRFDYALQHITLAT 124
+ P K V +L +GA+N+++ G +L L
Sbjct: 351 ----DYVNKTNSHLPAGK-------QVEISLVNGAKNLVVSGPPQ------SLYG--LNL 391
Query: 125 SLKKKNINVTLTSGIEEVFILVPGK-------HSFDLPENSVF---------SIVCLEDI 168
+L+K SG+++ I P + F LP S F ++ +D+
Sbjct: 392 TLRK----AKAPSGLDQSRI--PFSERKLKFSNRF-LPVASPFHSHLLVPASDLI-NKDL 443
Query: 169 --ENITITGAK-----Y-TLSHHSL-SLGSS---RAVSNVVTKNL----------TIMLD 206
N++ Y T L L S R V ++ + T +LD
Sbjct: 444 VKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILD 503
Query: 207 ------QGLAILISR 215
GL +L R
Sbjct: 504 FGPGGASGLGVLTHR 518
Score = 29.5 bits (66), Expect = 0.55
Identities = 15/74 (20%), Positives = 33/74 (44%), Gaps = 11/74 (14%)
Query: 152 FDLPENSVFSIVCLEDIENITITGAKYTLSHHSL-------SLGSSRAVSNVVTKNLTIM 204
F P ++ ED+++ + A T + HSL SL ++ ++V ++
Sbjct: 1731 FTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLV----EVV 1786
Query: 205 LDQGLAILISRPYD 218
+G+ + ++ P D
Sbjct: 1787 FYRGMTMQVAVPRD 1800
Score = 26.8 bits (59), Expect = 4.4
Identities = 11/46 (23%), Positives = 18/46 (39%), Gaps = 14/46 (30%)
Query: 123 ATSLKKKNINVTLTSG-IEEVFILVPGKHSFDLPENSVFSIVCLED 167
A S + +TL+ G +E H +P S F L++
Sbjct: 3 AYSTRP----LTLSHGSLE---------HVLLVPTASFFIASQLQE 35
Score = 26.1 bits (57), Expect = 7.0
Identities = 39/271 (14%), Positives = 75/271 (27%), Gaps = 110/271 (40%)
Query: 2 SLSHTNKFIDFAILLNGDIRVTNRLLCAIESCKVIAADGGICHASQLK------------ 49
+LSH + ++ +L V ASQL+
Sbjct: 10 TLSHGS--LEHVLL------VPTASFF---------------IASQLQEQFNKILPEPTE 46
Query: 50 ---------VVPELW---------------IGDFDSVDRTLLQQWSSIKRIFYPNDKDMA 85
EL +G FD V L + + + +
Sbjct: 47 GFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTE---FENCY------LE 97
Query: 86 DGEIAVHKALQS---------GARNIILV-----GSISGQRFDYALQHITLATSLKKKNI 131
+I H ++ ++ + FD L ++ + N
Sbjct: 98 GNDI--HALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSA-LFRAVGEGNA 154
Query: 132 NV-TLTSG---IEEVFILVPGKHSFDLPENSVFSI--VCLEDIENITITGAKYTLSHHSL 185
+ + G ++ F +L + ++ V + D+ I + TLS L
Sbjct: 155 QLVAIFGGQGNTDDYFE--------ELRD--LYQTYHVLVGDL--IKFSAE--TLSE--L 198
Query: 186 SLGSSRAVSNVVTKNLTIMLDQGLAILISRP 216
+ A V T+ L I+ + L + P
Sbjct: 199 IRTTLDA-EKVFTQGLNIL--EWLENPSNTP 226
>1x0c_A Isopullulanase; glycoside hydrolase family 49, glycoprotein; HET:
NAG; 1.70A {Aspergillus niger} PDB: 1wmr_A* 2z8g_A*
Length = 549
Score = 28.5 bits (63), Expect = 1.4
Identities = 8/71 (11%), Positives = 21/71 (29%), Gaps = 6/71 (8%)
Query: 139 IEEVFILVPGKHSFDLPENSVFSIVCLEDI--ENITITGAKYTLSH----HSLSLGSSRA 192
F + + ++++ E+ T S + L+ G
Sbjct: 448 WSNFRAEGSSSALFRINPIQNLDNISIKNVSIESFEPLSINTTESWMPVWYDLNNGKQIT 507
Query: 193 VSNVVTKNLTI 203
V++ + T+
Sbjct: 508 VTDFSIEGFTV 518
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.4 bits (62), Expect = 1.5
Identities = 11/55 (20%), Positives = 21/55 (38%), Gaps = 16/55 (29%)
Query: 42 ICHASQLKVVPEL---W-------IGDFDSVDRTLLQQWSSIKRIFYPNDKDMAD 86
I A +L PE W + + D+ + + Q+W + KD+ +
Sbjct: 74 IAQADRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAK------KDLEE 122
>3nnp_A Xometc, cystathionine gamma-lyase-like protein; native, Cys-Met
metabolism PLP-dependent ENZY family,
pyridoxal-phosphate (PLP; HET: PLP; 2.29A {Xanthomonas
oryzae PV} PDB: 3e6g_A*
Length = 400
Score = 28.3 bits (63), Expect = 1.6
Identities = 17/64 (26%), Positives = 27/64 (42%), Gaps = 6/64 (9%)
Query: 67 LQQWSSIKRIFYPNDKDMADGEIAVHKALQSGARNII---LVGSI-SGQRFDYALQHITL 122
L+ +I+++ YP + K SG I+ L G + +RF + TL
Sbjct: 282 LETHPAIEKVIYPGLASHPQHVL--AKRQMSGFGGIVSIVLKGGFDAAKRFCEKTELFTL 339
Query: 123 ATSL 126
A SL
Sbjct: 340 AESL 343
>2uz0_A Esterase, tributyrin esterase; alpha/beta hydrolase, hydrolase, A
virulence factor for LUNG infection; HET: MSE; 1.7A
{Streptococcus pneumoniae}
Length = 263
Score = 28.2 bits (61), Expect = 1.6
Identities = 11/130 (8%), Positives = 28/130 (21%), Gaps = 8/130 (6%)
Query: 24 NRLLCAIESCKVIAADGGICHASQLKVVPELWIGDFDSVDRTLLQQWSSIKRIFYPNDKD 83
+ + + F + S +
Sbjct: 118 KTFIAGLSMGGYGCFKLALTTNRFSHAASFSGALSFQNFSPESQNLGSPAYWRGVFGEIR 177
Query: 84 MADGEIAVHKALQSGARNIILVGSISGQRFDYALQHITLATSLKKKNINVTLTSGIEEVF 143
++L + + + G++ + +LKK +VT +
Sbjct: 178 DWTTSPYSLESLAKKSDKKTKLWAWCGEQDFLYEANNLAVKNLKKLGFDVT--------Y 229
Query: 144 ILVPGKHSFD 153
G H +
Sbjct: 230 SHSAGTHEWY 239
>2kco_A 30S ribosomal protein S8E; ribosomal protein of unknown function,
ribonucleoprotein, PSI-2, protein structure initiative;
NMR {Sulfolobus solfataricus P2}
Length = 133
Score = 28.1 bits (63), Expect = 1.9
Identities = 7/22 (31%), Positives = 13/22 (59%)
Query: 195 NVVTKNLTIMLDQGLAILISRP 216
++ + I + GLA++ SRP
Sbjct: 94 GIIIRGAKIRTEAGLAVVTSRP 115
>2dg5_A Gamma-glutamyltranspeptidase; gamma-glutamyltransferase, GGT,
gamma-GT, glutathione; HET: GLU; 1.60A {Escherichia coli
K12} SCOP: d.153.1.6 PDB: 2dbu_A 2dbw_A* 2dbx_A* 2e0x_A
2e0y_A 2z8i_A* 2z8j_A* 2z8k_A*
Length = 366
Score = 27.8 bits (61), Expect = 2.1
Identities = 11/63 (17%), Positives = 20/63 (31%)
Query: 41 GICHASQLKVVPELWIGDFDSVDRTLLQQWSSIKRIFYPNDKDMADGEIAVHKALQSGAR 100
A +V + D + +L + K IF+ + + G+ V L
Sbjct: 149 AFKLARDGFIVNDALADDLKTYGSEVLPNHENSKAIFWKEGEPLKKGDTLVQANLAKSLE 208
Query: 101 NII 103
I
Sbjct: 209 MIA 211
>3lyl_A 3-oxoacyl-(acyl-carrier-protein) reductase; alpha and beta protein,
NAD(P)-binding rossmann fold, csgid, oxidoreductase;
1.95A {Francisella tularensis subsp}
Length = 247
Score = 27.6 bits (62), Expect = 2.2
Identities = 18/114 (15%), Positives = 38/114 (33%), Gaps = 21/114 (18%)
Query: 34 KVIAADGGICHASQLKVVPELWIGDFDSVDRTLLQQWSSIKRIFYPNDKDMADGEIAVHK 93
++ A + I +V I + + R +W + + N + +
Sbjct: 75 EIKAENLAIDI-----LVNNAGITRDNLMMRMSEDEW---QSVINTNLSSIFRMSKECVR 126
Query: 94 A-LQSGARNIILVGSISGQR-----FDY-----ALQHIT--LATSLKKKNINVT 134
++ II +GS+ G +Y + + LA + +NI V
Sbjct: 127 GMMKKRWGRIISIGSVVGSAGNPGQTNYCAAKAGVIGFSKSLAYEVASRNITVN 180
>1qgn_A Protein (cystathionine gamma-synthase); methionine biosynthesis,
pyridoxal 5'-phosphate, gamma- family, lyase; HET: PLP;
2.90A {Nicotiana tabacum} SCOP: c.67.1.3 PDB: 1i41_A*
1i48_A* 1i43_A*
Length = 445
Score = 27.7 bits (61), Expect = 2.2
Identities = 12/64 (18%), Positives = 26/64 (40%), Gaps = 6/64 (9%)
Query: 67 LQQWSSIKRIFYPNDKDMADGEIAVHKALQSGARNIILV----GSISGQRFDYALQHITL 122
L+ ++ ++YP + + IA K +G + ++ +F AL+ +
Sbjct: 328 LEAHPKVRHVYYPGLQSHPEHHIA--KKQMTGFGGAVSFEVDGDLLTTAKFVDALKIPYI 385
Query: 123 ATSL 126
A S
Sbjct: 386 APSF 389
>3cog_A Cystathionine gamma-lyase; CTH, PLP, propargylglycine, SGC,
inhibitor, structural genomics, SGC stockholm,
structural genomics consortium; HET: PLP; 2.00A {Homo
sapiens} PDB: 2nmp_A* 3elp_B
Length = 403
Score = 27.7 bits (61), Expect = 2.3
Identities = 12/63 (19%), Positives = 24/63 (38%), Gaps = 2/63 (3%)
Query: 66 LLQQWSSIKRIFYPNDKDMADGEIAVHKALQSGARN-IILVGSIS-GQRFDYALQHITLA 123
L+ ++++ YP E+ + + G++ + F L+ TLA
Sbjct: 280 FLESNPWVEKVIYPGLPSHPQHELVKRQCTGCTGMVTFYIKGTLQHAEIFLKNLKLFTLA 339
Query: 124 TSL 126
SL
Sbjct: 340 ESL 342
>2kcp_A 30S ribosomal protein S8E; RPS8E, beta, NESG, ribonucleoprotein,
structural genomics, PSI-2; NMR {Methanothermobacter
thermautotrophicusstr} PDB: 2kcy_A
Length = 98
Score = 27.6 bits (62), Expect = 2.5
Identities = 6/22 (27%), Positives = 12/22 (54%)
Query: 195 NVVTKNLTIMLDQGLAILISRP 216
N++T+ + + G + SRP
Sbjct: 56 NIITRGAVVETNLGNVRVTSRP 77
>2e0w_A Gamma-glutamyltranspeptidase; NTN hydrolase, precursor, gamma-GTP,
post-translational processing, maturation, transferase;
2.55A {Escherichia coli K12} SCOP: d.153.1.6
Length = 556
Score = 27.5 bits (60), Expect = 2.5
Identities = 10/54 (18%), Positives = 19/54 (35%)
Query: 50 VVPELWIGDFDSVDRTLLQQWSSIKRIFYPNDKDMADGEIAVHKALQSGARNII 103
+V + D + +L + K IF+ + + G+ V L I
Sbjct: 158 IVNDALADDLKTYGSEVLPNHENSKAIFWKEGEPLKKGDTLVQANLAKSLEMIA 211
>1e5e_A MGL, methionine gamma-lyase; methionine biosynthesis, PLP-dependent
enzymes, C-S gamma lyase, propargylglycine; HET: PPJ;
2.18A {Trichomonas vaginalis} SCOP: c.67.1.3 PDB:
1e5f_A*
Length = 404
Score = 27.6 bits (61), Expect = 2.6
Identities = 16/63 (25%), Positives = 30/63 (47%), Gaps = 2/63 (3%)
Query: 66 LLQQWSSIKRIFYPNDKDMADGEIAVHKALQSGAR-NIILVGSIS-GQRFDYALQHITLA 123
L+ ++++++YP +D +IA + G+ IL ++ L+ ITLA
Sbjct: 277 YLKSHPAVEKVYYPGFEDHEGHDIAKKQMRMYGSMITFILKSGFEGAKKLLDNLKLITLA 336
Query: 124 TSL 126
SL
Sbjct: 337 VSL 339
>1xu9_A Corticosteroid 11-beta-dehydrogenase, isozyme 1; hydroxysteroid,
SDR, oxidoreductase; HET: NDP CPS MES; 1.55A {Homo
sapiens} SCOP: c.2.1.2 PDB: 1xu7_A* 3bzu_A* 3czr_A*
3d3e_A* 3d4n_A* 3frj_A* 3hfg_A* 3d5q_A* 2rbe_A* 3byz_A*
3ey4_A* 3ch6_A* 2irw_A* 2ilt_A* 2bel_A* 1y5m_A* 1y5r_A*
1xse_A* 3g49_A* 3dwf_A*
Length = 286
Score = 26.2 bits (57), Expect = 5.3
Identities = 13/91 (14%), Positives = 30/91 (32%), Gaps = 19/91 (20%)
Query: 70 WSSIKRIFYPNDKDMADGEIAVHKALQSGARNIILVGSISGQRFD----------YALQH 119
+++ N +A L+ +I++V S++G+ +AL
Sbjct: 127 IHHVRKSMEVNFLSYVVLTVAALPMLKQSNGSIVVVSSLAGKVAYPMVAAYSASKFALDG 186
Query: 120 IT--LATSLKKKNINVTLTSGIEEVFILVPG 148
+ +NV+ + + V G
Sbjct: 187 FFSSIRKEYSVSRVNVS-------ITLCVLG 210
>3nyw_A Putative oxidoreductase; fatty acid synthesis,3-oxoacyl-[ACP]
reductase, NADP+ bindin rossman fold, PSI-II, nysgxrc;
2.16A {Bacteroides thetaiotaomicron}
Length = 250
Score = 26.4 bits (59), Expect = 5.4
Identities = 25/144 (17%), Positives = 45/144 (31%), Gaps = 22/144 (15%)
Query: 3 LSHTNKFIDFAILLNGDIRVTNRLLCAIESCKVIAADGGICHASQLKVVPELWIGDFDSV 62
+ +NK + I+L DI + I+ + G + +V + S+
Sbjct: 51 IMRSNKHVQEPIVLPLDITDCTKADTEIK--DIHQKYGAVDI-----LVNAAAMFMDGSL 103
Query: 63 DRTLLQQWSSIKRIFYPNDKDMADGEIAVHKALQSGARNIILVGSISGQR-----FDY-- 115
+ + I I + + K ++G I V S + + Y
Sbjct: 104 SEPV-DNFRKIMEINVIAQYGILKTVTEIMKVQKNGY--IFNVASRAAKYGFADGGIYGS 160
Query: 116 ---ALQHIT--LATSLKKKNINVT 134
AL + L L I VT
Sbjct: 161 TKFALLGLAESLYRELAPLGIRVT 184
>2rfv_A Methionine gamma-lyase; pyridoxal-5'-phosphate, PLP-dependent
enzyme; HET: LLP; 1.35A {Citrobacter freundii} PDB:
1y4i_A*
Length = 398
Score = 26.2 bits (57), Expect = 5.8
Identities = 15/62 (24%), Positives = 28/62 (45%), Gaps = 2/62 (3%)
Query: 67 LQQWSSIKRIFYPNDKDMADGEIAVHKALQSGAR-NIILVGSI-SGQRFDYALQHITLAT 124
L+ SI R++YP E+ + G + + G + +G+R +++ LA
Sbjct: 279 LEGHPSITRVYYPGLSSHPQYELGQRQMSLPGGIISFEIAGGLEAGRRMINSVELCLLAV 338
Query: 125 SL 126
SL
Sbjct: 339 SL 340
>1k5c_A Endopolygalacturonase; beta helical structure, glycoside hydrolase,
silver-LEAF inducing substance; HET: NAG; 0.96A
{Chondrostereum purpureum} SCOP: b.80.1.3 PDB: 1kcc_A*
1kcd_A*
Length = 335
Score = 25.7 bits (56), Expect = 7.6
Identities = 18/65 (27%), Positives = 29/65 (44%), Gaps = 5/65 (7%)
Query: 158 SVFSIVCLEDIENITITGAKYTLSHHSLSLGSSR-----AVSNVVTKNLTIMLDQGLAIL 212
S+ SI + + N+ I G T S + + + + R +VS V TI +L
Sbjct: 198 SIGSIATGKHVSNVVIKGNTVTRSMYGVRIKAQRTATSASVSGVTYDANTISGIAKYGVL 257
Query: 213 ISRPY 217
IS+ Y
Sbjct: 258 ISQSY 262
>2him_A L-asparaginase 1; hydrolase; 1.82A {Escherichia coli} PDB: 2p2d_A
2p2n_A 2ocd_A
Length = 358
Score = 25.9 bits (56), Expect = 7.8
Identities = 13/70 (18%), Positives = 28/70 (40%), Gaps = 17/70 (24%)
Query: 120 ITLATSLKKKNINVTLTSG-----------------IEEVFILVPGKHSFDLPENSVFSI 162
+ + ++KK+I V T G ++ L+P H ++P+ ++
Sbjct: 15 VPRGSHMQKKSIYVAYTGGTIGMQRSEQGYIPVSGHLQRQLALMPEFHRPEMPDFTIHEY 74
Query: 163 VCLEDIENIT 172
L D ++T
Sbjct: 75 TPLMDSSDMT 84
>3bch_A 40S ribosomal protein SA; laminin receptor, P40 ribosomal protein,
acetylation, cytoplasm, phosphorylation, polymorphism;
2.15A {Homo sapiens}
Length = 253
Score = 25.3 bits (55), Expect = 9.8
Identities = 11/55 (20%), Positives = 25/55 (45%)
Query: 1 MSLSHTNKFIDFAILLNGDIRVTNRLLCAIESCKVIAADGGICHASQLKVVPELW 55
+ +++D AI N + L+ + + +V+ G I +V+P+L+
Sbjct: 181 CNTDSPLRYVDIAIPCNNKGAHSVGLMWWMLAREVLRMRGTISREHPWEVMPDLY 235
Database: pdb70
Posted date: Jan 26, 2011 11:21 AM
Number of letters in database: 5,693,230
Number of sequences in database: 24,244
Lambda K H
0.322 0.137 0.393
Gapped
Lambda K H
0.267 0.0813 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,876,870
Number of extensions: 83782
Number of successful extensions: 261
Number of sequences better than 10.0: 1
Number of HSP's gapped: 238
Number of HSP's successfully gapped: 39
Length of query: 222
Length of database: 5,693,230
Length adjustment: 89
Effective length of query: 133
Effective length of database: 3,535,514
Effective search space: 470223362
Effective search space used: 470223362
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: 55 (24.8 bits)