RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 024349
(269 letters)
>3b1j_A Glyceraldehyde 3-phosphate dehydrogenase (NADP+); alpha/beta fold,
oxidoreductase-protein binding complex; HET: NAD; 2.20A
{Synechococcus elongatus} PDB: 3b1k_A* 3b20_A*
Length = 339
Score = 307 bits (788), Expect = e-105
Identities = 101/172 (58%), Positives = 132/172 (76%), Gaps = 1/172 (0%)
Query: 86 KLKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDSGGVKNASHLLKYDSLLGTFKADVK 145
++VAINGFGRIGRNFLRCW GR+++ L+VV +N++ + A+HLL+YDS+LG F AD+
Sbjct: 2 TIRVAINGFGRIGRNFLRCWFGRQNTDLEVVAINNTSDARTAAHLLEYDSVLGRFNADIS 61
Query: 146 IVDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKKVI 205
D +I+V+GK +K+V +R+PL LPW E ID+VIE TGVFV GA KHIQAGAKKV+
Sbjct: 62 -YDENSITVNGKTMKIVCDRNPLNLPWKEWDIDLVIESTGVFVTAEGASKHIQAGAKKVL 120
Query: 206 ITAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELG 257
ITAP KG + TYV+GVN+ +Y HE ++SNASCTTNCLAP KV+ + G
Sbjct: 121 ITAPGKGEGVGTYVIGVNDSEYRHEDFAVISNASCTTNCLAPVAKVLHDNFG 172
>2d2i_A Glyceraldehyde 3-phosphate dehydrogenase; rossmann fold,
protein-NADP+ complex, oxidoreductase; HET: NAP; 2.50A
{Synechococcus SP} PDB: 2duu_A
Length = 380
Score = 307 bits (789), Expect = e-104
Identities = 100/172 (58%), Positives = 131/172 (76%), Gaps = 1/172 (0%)
Query: 86 KLKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDSGGVKNASHLLKYDSLLGTFKADVK 145
++VAINGFGRIGRNFLRCW GR+++ L+VV +N++ + A+HLL+YDS+LG F AD+
Sbjct: 2 TIRVAINGFGRIGRNFLRCWFGRQNTDLEVVAINNTSDARTAAHLLEYDSVLGRFNADIS 61
Query: 146 IVDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKKVI 205
D +I+V+GK +K+V +R+PL LPW E ID+VIE TGVFV GA KHIQAGAKKV+
Sbjct: 62 -YDENSITVNGKTMKIVCDRNPLNLPWKEWDIDLVIESTGVFVTAEGASKHIQAGAKKVL 120
Query: 206 ITAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELG 257
ITAP K + TYV+GVN+ +Y HE ++SNASCTTNCLAP KV+ + G
Sbjct: 121 ITAPGKAEGVGTYVIGVNDSEYRHEDFAVISNASCTTNCLAPVAKVLHDNFG 172
>1rm4_O Glyceraldehyde 3-phosphate dehydrogenase A; rossmann fold,
GAPDH-NADP complex, oxidoreductase; HET: NDP; 2.00A
{Spinacia oleracea} SCOP: c.2.1.3 d.81.1.1 PDB: 1nbo_O*
2hki_A 2pkq_P* 1rm5_O* 1rm3_O* 2pkr_O* 1jn0_O* 3qv1_A*
3k2b_A* 3rvd_A* 2pkq_O*
Length = 337
Score = 302 bits (776), Expect = e-103
Identities = 132/172 (76%), Positives = 150/172 (87%), Gaps = 2/172 (1%)
Query: 86 KLKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDSGGVKNASHLLKYDSLLGTFKADVK 145
KLKVAINGFGRIGRNFLRCWHGRKDSPLDVVV+ND+GGVK ASHLLKYDS+LGTF ADVK
Sbjct: 1 KLKVAINGFGRIGRNFLRCWHGRKDSPLDVVVINDTGGVKQASHLLKYDSILGTFDADVK 60
Query: 146 IVDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKKVI 205
+ ISVDGK+IKVVS+R+P+ LPW ++GID+VIEGTGVFVD GAGKH+QAGAKKV+
Sbjct: 61 TAGDSAISVDGKVIKVVSDRNPVNLPWGDMGIDLVIEGTGVFVDRDGAGKHLQAGAKKVL 120
Query: 206 ITAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELG 257
ITAP KG PTYVVGVNE+ Y H I+SNASCTTNCLAPFVKV+D++ G
Sbjct: 121 ITAPGKGDI-PTYVVGVNEEGYTHA-DTIISNASCTTNCLAPFVKVLDQKFG 170
>4dib_A GAPDH, glyceraldehyde 3-phosphate dehydrogenase; niaid, structural
genomics, national institute of allergy AN infectious
diseases; 2.55A {Bacillus anthracis}
Length = 345
Score = 292 bits (750), Expect = 5e-99
Identities = 84/175 (48%), Positives = 115/175 (65%), Gaps = 4/175 (2%)
Query: 83 TVAKLKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDSGGVKNASHLLKYDSLLGTFKA 142
+ A +VAINGFGRIGR R ++V +N S + +HL+KYD++ G F
Sbjct: 1 SNAMTRVAINGFGRIGRMVFRQAIKESA--FEIVAINASYPSETLAHLIKYDTVHGKFDG 58
Query: 143 DVKIVDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAK 202
V+ + + VDGK+I++++NRDP +LPW +LG+++VIE TG F A H++AGAK
Sbjct: 59 TVE-AFEDHLLVDGKMIRLLNNRDPKELPWTDLGVEVVIEATGKFNSKEKAILHVEAGAK 117
Query: 203 KVIITAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELG 257
KVI+TAP K D+ T VVGVNE D ++SNASCTTNCLAP VKV+DE+ G
Sbjct: 118 KVILTAPGKNEDV-TIVVGVNEDQLDITKHTVISNASCTTNCLAPVVKVLDEQFG 171
>3doc_A Glyceraldehyde 3-phosphate dehydrogenase; ssgcid, structural
genomics, PSI, protein structure initiative; HET: NAD;
2.40A {Brucella melitensis biovar ABORTUS2308} PDB:
3l0d_A*
Length = 335
Score = 291 bits (748), Expect = 7e-99
Identities = 81/172 (47%), Positives = 113/172 (65%), Gaps = 3/172 (1%)
Query: 86 KLKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDSGGVKNASHLLKYDSLLGTFKADVK 145
++VAINGFGRIGRN LR + + VV +ND G V+ +HLL+YDS+ G F +V+
Sbjct: 2 AVRVAINGFGRIGRNILRAIVESGRTDIQVVAINDLGPVETNAHLLRYDSVHGRFPKEVE 61
Query: 146 IVDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKKVI 205
V +TI V IKV + R+P +LPW E +DI +E TG+F A H++AGAK+VI
Sbjct: 62 -VAGDTIDVGYGPIKVHAVRNPAELPWKEENVDIALECTGIFTSRDKAALHLEAGAKRVI 120
Query: 206 ITAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELG 257
++APA GAD+ T V GVN + ++SNASCTTNCLAP +V+++ +G
Sbjct: 121 VSAPADGADL-TVVYGVNNDKLTKD-HLVISNASCTTNCLAPVAQVLNDTIG 170
>1hdg_O Holo-D-glyceraldehyde-3-phosphate dehydrogenase; oxidoreductase
(aldehy(D)-NAD(A)); HET: NAD; 2.50A {Thermotoga
maritima} SCOP: c.2.1.3 d.81.1.1
Length = 332
Score = 291 bits (748), Expect = 7e-99
Identities = 90/170 (52%), Positives = 112/170 (65%), Gaps = 3/170 (1%)
Query: 88 KVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDSGGVKNASHLLKYDSLLGTFKADVKIV 147
+VAINGFGRIGR R + RK+ ++VV +ND K +HLLKYDS+ F V+
Sbjct: 2 RVAINGFGRIGRLVYRIIYERKNPDIEVVAINDLTDTKTLAHLLKYDSVHKKFPGKVE-Y 60
Query: 148 DNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKKVIIT 207
++ VDGK IKV + DP +LPW +LG+D VIE TGVF + A H+QAGAKKVIIT
Sbjct: 61 TENSLIVDGKEIKVFAEPDPSKLPWKDLGVDFVIESTGVFRNREKAELHLQAGAKKVIIT 120
Query: 208 APAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELG 257
APAKG DI T V+G NE E I+S ASCTTN +AP VKV+ E+ G
Sbjct: 121 APAKGEDI-TVVIGCNEDQLKPE-HTIISCASCTTNSIAPIVKVLHEKFG 168
>3cmc_O GAPDH, glyceraldehyde-3-phosphate dehydrogenase;
microspectrophotometry, reaction intermediate,
dehydrogenase phosphate binding site; HET: G3H NAD;
1.77A {Bacillus stearothermophilus} SCOP: c.2.1.3
d.81.1.1 PDB: 2gd1_O 1gd1_O* 1npt_O* 1nqa_O* 1nqo_O*
1nq5_O* 2dbv_O* 1dbv_O* 3dbv_O* 4dbv_O*
Length = 334
Score = 290 bits (744), Expect = 3e-98
Identities = 89/171 (52%), Positives = 113/171 (66%), Gaps = 4/171 (2%)
Query: 87 LKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDSGGVKNASHLLKYDSLLGTFKADVKI 146
+KV INGFGRIGRN R D ++VV VND +HLLKYDS+ G A+V
Sbjct: 2 VKVGINGFGRIGRNVFRAALKNPD--IEVVAVNDLTDANTLAHLLKYDSVHGRLDAEVS- 58
Query: 147 VDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKKVII 206
V+ + V+GK I V + RDP L W E+G+DIV+E TG F A KH++AGAKKVII
Sbjct: 59 VNGNNLVVNGKEIIVKAERDPENLAWGEIGVDIVVESTGRFTKREDAAKHLEAGAKKVII 118
Query: 207 TAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELG 257
+APAK D T V+GVN+ YD + +++SNASCTTNCLAPF KV+ E+ G
Sbjct: 119 SAPAKNED-ITIVMGVNQDKYDPKAHHVISNASCTTNCLAPFAKVLHEQFG 168
>2ep7_A GAPDH, glyceraldehyde-3-phosphate dehydrogenase; oxidoreductase,
structural genomics, NPPSFA; HET: NAD; 2.30A {Aquifex
aeolicus}
Length = 342
Score = 290 bits (744), Expect = 3e-98
Identities = 97/172 (56%), Positives = 126/172 (73%), Gaps = 4/172 (2%)
Query: 86 KLKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDSGGVKNASHLLKYDSLLGTFKADVK 145
+KV INGFGRIGR+F R GR++ +++V +ND K+ +HLLKYDS+ G FK V+
Sbjct: 2 AIKVGINGFGRIGRSFFRASWGREE--IEIVAINDLTDAKHLAHLLKYDSVHGIFKGSVE 59
Query: 146 IVDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKKVI 205
+++I VDGK IKV + +DP Q+PW +LG+D+VIE TGVF D A KH+Q GAKKVI
Sbjct: 60 -AKDDSIVVDGKEIKVFAQKDPSQIPWGDLGVDVVIEATGVFRDRENASKHLQGGAKKVI 118
Query: 206 ITAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELG 257
ITAPAK D T V+GVNE+ Y+ + NI+SNASCTTNCLAP VKV++E G
Sbjct: 119 ITAPAKNPD-ITVVLGVNEEKYNPKEHNIISNASCTTNCLAPCVKVLNEAFG 169
>2g82_O GAPDH, glyceraldehyde-3-phosphate dehydrogenase; G3PDH, glycolysis,
oxidoreductase, NAD, rossmann fold; HET: NAD PGE; 1.65A
{Thermus aquaticus} SCOP: c.2.1.3 d.81.1.1 PDB: 1cer_O*
1vc2_A*
Length = 331
Score = 288 bits (740), Expect = 9e-98
Identities = 88/171 (51%), Positives = 115/171 (67%), Gaps = 5/171 (2%)
Query: 87 LKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDSGGVKNASHLLKYDSLLGTFKADVKI 146
+KV INGFGRIGR R H R ++V ++ND K +HLLKYDS+ F +V
Sbjct: 1 MKVGINGFGRIGRQVFRILHSRG---VEVALINDLTDNKTLAHLLKYDSIYHRFPGEVA- 56
Query: 147 VDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKKVII 206
D++ + VDGK I+ + +DP ++PWAE G+ +VIE TGVF D A H++ GAKKVII
Sbjct: 57 YDDQYLYVDGKAIRATAVKDPKEIPWAEAGVGVVIESTGVFTDADKAKAHLEGGAKKVII 116
Query: 207 TAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELG 257
TAPAKG DI T V+GVN + YD +I+SNASCTTN LAP +KV++E G
Sbjct: 117 TAPAKGEDI-TIVMGVNHEAYDPSRHHIISNASCTTNSLAPVMKVLEEAFG 166
>2x5j_O E4PDH, D-erythrose-4-phosphate dehydrogenase; oxidoreductase,
hydride transfer, aldehyde dehydrogenase, PY
biosynthesis; 2.30A {Escherichia coli} PDB: 2xf8_A*
2x5k_O*
Length = 339
Score = 282 bits (723), Expect = 4e-95
Identities = 70/173 (40%), Positives = 101/173 (58%), Gaps = 3/173 (1%)
Query: 86 KLKVAINGFGRIGRNFLRCWHGR-KDSPLDVVVVNDSGGVKNASHLLKYDSLLGTFKADV 144
++VAINGFGRIGRN +R + + + + VV +N+ +HLLKYD+ G F +V
Sbjct: 2 TVRVAINGFGRIGRNVVRALYESGRRAEITVVAINELADAAGMAHLLKYDTSHGRFAWEV 61
Query: 145 KIVDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKKV 204
+ + + + V I+V+ R LPW ELG+D+V++ TGV+ HI AGAKKV
Sbjct: 62 R-QERDQLFVGDDAIRVLHERSLQSLPWRELGVDVVLDCTGVYGSREHGEAHIAAGAKKV 120
Query: 205 IITAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELG 257
+ + P T V GVN+ E IVSNASCTTNC+ P +K++D+ G
Sbjct: 121 LFSHPGSNDLDATVVYGVNQDQLRAE-HRIVSNASCTTNCIIPVIKLLDDAYG 172
>1obf_O Glyceraldehyde 3-phosphate dehydrogenase; glycolytic pathway,
oxidoreductase, free-NAD GAPDH; HET: PG4; 1.7A
{Achromobacter xylosoxidans} SCOP: c.2.1.3 d.81.1.1 PDB:
3gnq_A*
Length = 335
Score = 281 bits (722), Expect = 6e-95
Identities = 80/172 (46%), Positives = 108/172 (62%), Gaps = 3/172 (1%)
Query: 87 LKVAINGFGRIGRNFLRC-WHGRKDSPLDVVVVNDSGGVKNASHLLKYDSLLGTFKADVK 145
++VAING+GRIGRN LR + G K +++V +ND G K +HL +YD+ G F V
Sbjct: 2 IRVAINGYGRIGRNILRAHYEGGKSHDIEIVAINDLGDPKTNAHLTRYDTAHGKFPGTVS 61
Query: 146 IVDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKKVI 205
V+ + V+G I+V +NR+P QLPW L +D+V+E TG F AG HI+ GAKKVI
Sbjct: 62 -VNGSYMVVNGDKIRVDANRNPAQLPWGALKVDVVLECTGFFTTKEKAGAHIKGGAKKVI 120
Query: 206 ITAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELG 257
I+AP T V GVN ++SNASCTTNCLAP VK ++++LG
Sbjct: 121 ISAPGGADVDATVVYGVNHGTLKST-DTVISNASCTTNCLAPLVKPLNDKLG 171
>3hja_A GAPDH, glyceraldehyde-3-phosphate dehydrogenase; niaid, ssgcid,
decode, UW, SBRI, LYME disease, non-hodgkin lymphomas,
cytoplasm; HET: NAD; 2.20A {Borrelia burgdorferi B31}
Length = 356
Score = 277 bits (710), Expect = 8e-93
Identities = 88/190 (46%), Positives = 115/190 (60%), Gaps = 11/190 (5%)
Query: 73 AAGSVPVKKETVAKLKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDSGGVKNASHLLK 132
G++ + + +K+AINGFGRIGRN + R +D+V +ND K +HLLK
Sbjct: 8 HMGTLEAQTQGPGSMKLAINGFGRIGRNVFKIAFERG---IDIVAINDLTDPKTLAHLLK 64
Query: 133 YDSLLGTFKADVKIVDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGP- 191
YDS G + V+ + I VDG+ IK+++ RDP LPWA+LGID+VIE TGVF
Sbjct: 65 YDSTFGVYNKKVE-SRDGAIVVDGREIKIIAERDPKNLPWAKLGIDVVIESTGVFSSATS 123
Query: 192 ---GAGKHI-QAGAKKVIITAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAP 247
G H+ AGAKKVI+T PAK T V+GVN+ D + + VSNASCTTNCLAP
Sbjct: 124 DKGGYLDHVNHAGAKKVILTVPAKDEI-KTIVLGVNDHDINSD-LKAVSNASCTTNCLAP 181
Query: 248 FVKVMDEELG 257
KV+ E G
Sbjct: 182 LAKVLHESFG 191
>3lvf_P GAPDH 1, glyceraldehyde-3-phosphate dehydrogenase 1;
oxidoreductase, glycolysis, rossmann fold; HET: NAD;
1.70A {Staphylococcus aureus} PDB: 3l6o_Q 3k73_Q 3lc2_O*
3lc7_O 3lc1_P* 3hq4_R* 3kv3_O* 3l4s_Q* 3k9q_Q* 3ksd_Q*
3ksz_O*
Length = 338
Score = 253 bits (649), Expect = 6e-84
Identities = 78/171 (45%), Positives = 104/171 (60%), Gaps = 5/171 (2%)
Query: 87 LKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDSGGVKNASHLLKYDSLLGTFKADVKI 146
+KVAINGFGRIGR R + L+VV VND +HLLKYD++ G F +V+
Sbjct: 5 VKVAINGFGRIGRLAFRRIQEVEG--LEVVAVNDLTDDDMLAHLLKYDTMQGRFTGEVE- 61
Query: 147 VDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKKVII 206
V + V+GK +K S D +LPW +L ID+V+E TG + D A HI+AGAKKV+I
Sbjct: 62 VVDGGFRVNGKEVKSFSEPDASKLPWKDLNIDVVLECTGFYTDKDKAQAHIEAGAKKVLI 121
Query: 207 TAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELG 257
+APA G T V N ++ D +VS ASCTTN LAP KV++++ G
Sbjct: 122 SAPATGDL-KTIVFNTNHQELDGS-ETVVSGASCTTNSLAPVAKVLNDDFG 170
>3cps_A Glyceraldehyde 3-phosphate dehydrogenase; GAPDH, glycolysis,
malaria, structural genomics; HET: NAD; 1.90A
{Cryptosporidium parvum iowa II} PDB: 1vsv_A* 1vsu_A*
3chz_A 3cie_A* 3cif_A* 3sth_A*
Length = 354
Score = 240 bits (616), Expect = 1e-78
Identities = 79/179 (44%), Positives = 111/179 (62%), Gaps = 5/179 (2%)
Query: 80 KKETVAKLKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDS-GGVKNASHLLKYDSLLG 138
++ + + INGFGRIGR LR R D + VV +ND V+ ++LLKYDS+ G
Sbjct: 11 RENLYFQGTLGINGFGRIGRLVLRACMERND--ITVVAINDPFMDVEYMAYLLKYDSVHG 68
Query: 139 TFKADVKIVDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQ 198
F V+ V + + ++GK++KV +DP ++PW G IV E TGVF A H++
Sbjct: 69 NFNGTVE-VSGKDLCINGKVVKVFQAKDPAEIPWGASGAQIVCESTGVFTTEEKASLHLK 127
Query: 199 AGAKKVIITAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELG 257
GAKKVII+AP K P YV+GVN +YD N++SNASCTTNCLAP K+++++ G
Sbjct: 128 GGAKKVIISAPPKDNV-PMYVMGVNNTEYDPSKFNVISNASCTTNCLAPLAKIINDKFG 185
>1gad_O D-glyceraldehyde-3-phosphate dehydrogenase; oxidoreductase
(aldehyde(D)-NAD+(A)); HET: NAD; 1.80A {Escherichia
coli} SCOP: c.2.1.3 d.81.1.1 PDB: 1dc4_A* 1dc3_A 1dc6_A*
1dc5_A* 1s7c_A* 1gae_O* 2vyn_A* 2vyv_A*
Length = 330
Score = 237 bits (606), Expect = 2e-77
Identities = 79/171 (46%), Positives = 107/171 (62%), Gaps = 6/171 (3%)
Query: 87 LKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDSGGVKNASHLLKYDSLLGTFKADVKI 146
+KV INGFGRIGR R R D +++V +ND +++LKYDS G F V+
Sbjct: 2 IKVGINGFGRIGRIVFRAAQKRSD--IEIVAINDLLDADYMAYMLKYDSTHGRFDGTVE- 58
Query: 147 VDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKKVII 206
V + + V+GK I+V + RDP L W E+G+D+V E TG+F+ A KHI AGAKKV++
Sbjct: 59 VKDGHLIVNGKKIRVTAERDPANLKWDEVGVDVVAEATGLFLTDETARKHITAGAKKVVM 118
Query: 207 TAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELG 257
T P+K P +V G N Y + +IVSNASCTTNCLAP KV+++ G
Sbjct: 119 TGPSKDNT-PMFVKGANFDKYAGQ--DIVSNASCTTNCLAPLAKVINDNFG 166
>3h9e_O Glyceraldehyde-3-phosphate dehydrogenase, testis-; oxidoreductase,
structural genomics, structural genomics CON SGC,
glycolysis, NAD; HET: NAD; 1.72A {Homo sapiens} PDB:
3pfw_O* 2vyn_D* 2vyv_D*
Length = 346
Score = 234 bits (600), Expect = 2e-76
Identities = 78/173 (45%), Positives = 103/173 (59%), Gaps = 7/173 (4%)
Query: 86 KLKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDS-GGVKNASHLLKYDSLLGTFKADV 144
+L V INGFGRIGR LR + + VV VND + ++ KYDS G +K V
Sbjct: 7 ELTVGINGFGRIGRLVLRACMEKG---VKVVAVNDPFIDPEYMVYMFKYDSTHGRYKGSV 63
Query: 145 KIVDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKKV 204
+ N + VD I V ++P Q+PW +G V+E TGV++ A HI AGA++V
Sbjct: 64 E-FRNGQLVVDNHEISVYQCKEPKQIPWRAVGSPYVVESTGVYLSIQAASDHISAGAQRV 122
Query: 205 IITAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELG 257
+I+AP+ D P +V+GVNE DY+ NIVSNASCTTNCLAP KV+ E G
Sbjct: 123 VISAPSP--DAPMFVMGVNENDYNPGSMNIVSNASCTTNCLAPLAKVIHERFG 173
>2b4r_O Glyceraldehyde-3-phosphate dehydrogenase; SGPP, structural
genomics, PSI, structural genomi pathogenic protozoa
consortium; HET: NAD AES; 2.25A {Plasmodium falciparum}
SCOP: c.2.1.3 d.81.1.1 PDB: 2b4t_O* 1ywg_O*
Length = 345
Score = 232 bits (595), Expect = 1e-75
Identities = 78/179 (43%), Positives = 109/179 (60%), Gaps = 6/179 (3%)
Query: 80 KKETVAKLKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDS-GGVKNASHLLKYDSLLG 138
+A K+ INGFGRIGR R GRKD ++VV +ND + + +LLKYDS+ G
Sbjct: 5 HHHHMAATKLGINGFGRIGRLVFRAAFGRKD--IEVVAINDPFMDLNHLCYLLKYDSVHG 62
Query: 139 TFKADVKIVDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQ 198
F +V + + + K + V + +DP Q+PW + +D+V E TGVF+ A H++
Sbjct: 63 QFPCEVT-HADGFLLIGEKKVSVFAEKDPSQIPWGKCQVDVVCESTGVFLTKELASSHLK 121
Query: 199 AGAKKVIITAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELG 257
GAKKVI++AP K P YV+G+N YD + IVSNASCTTNCLAP KV+++ G
Sbjct: 122 GGAKKVIMSAPPKDDT-PIYVMGINHHQYDTK-QLIVSNASCTTNCLAPLAKVINDRFG 178
>3pym_A GAPDH 3, glyceraldehyde-3-phosphate dehydrogenase 3; NAD(P)-binding
rossmann-fold domain, alpha and beta protein,
oxidoreductase; HET: NAD; 2.00A {Saccharomyces
cerevisiae} PDB: 2i5p_O*
Length = 332
Score = 230 bits (590), Expect = 5e-75
Identities = 82/172 (47%), Positives = 108/172 (62%), Gaps = 7/172 (4%)
Query: 87 LKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDS-GGVKNASHLLKYDSLLGTFKADVK 145
++VAINGFGRIGR +R R + ++VV +ND A+++ KYDS G + +V
Sbjct: 2 VRVAINGFGRIGRLVMRIALSRPN--VEVVALNDPFITNDYAAYMFKYDSTHGRYAGEVS 59
Query: 146 IVDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKKVI 205
D++ I VDGK I RDP LPW +DI I+ TGVF + A KHI AGAKKV+
Sbjct: 60 -HDDKHIIVDGKKIATYQERDPANLPWGSSNVDIAIDSTGVFKELDTAQKHIDAGAKKVV 118
Query: 206 ITAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELG 257
ITAP+ P +V+GVNE+ Y + IVSNASCTTNCLAP KV+++ G
Sbjct: 119 ITAPSS--TAPMFVMGVNEEKYTSD-LKIVSNASCTTNCLAPLAKVINDAFG 167
>3ids_C GAPDH, glyceraldehyde-3-phosphate dehydrogenase, glycoso;
irreversible inhibitor, protein-ligand complex,X-RAY,
glycol NAD, oxireductase; HET: NAD; 1.80A {Trypanosoma
cruzi} PDB: 1ml3_A* 1qxs_C* 3dmt_A* 1k3t_A* 2x0n_A*
1gga_O* 1i32_A* 1a7k_A* 1i33_A* 1gyp_A* 1gyq_A*
Length = 359
Score = 230 bits (590), Expect = 9e-75
Identities = 74/180 (41%), Positives = 108/180 (60%), Gaps = 12/180 (6%)
Query: 87 LKVAINGFGRIGRNFLR--CWHGRKDSPLDVVVVND-SGGVKNASHLLKYDSLLGTFKAD 143
+KV INGFGRIGR + C G + +DVV V D + + ++ ++YD++ G FK +
Sbjct: 3 IKVGINGFGRIGRMVFQALCEDGLLGTEIDVVAVVDMNTDAEYFAYQMRYDTVHGKFKYE 62
Query: 144 VKIV-------DNETISVDGKLIKVVSN-RDPLQLPWAELGIDIVIEGTGVFVDGPGAGK 195
V ++T+ V+G I V R+P LPW +LG++ VIE TG+F A
Sbjct: 63 VTTTKSSPSVAKDDTLVVNGHRILCVKAQRNPADLPWGKLGVEYVIESTGLFTAKAAAEG 122
Query: 196 HIQAGAKKVIITAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEE 255
H++ GA+KV+I+APA T V+GVN +Y+ ++VSNASCTTNCLAP V V+ +E
Sbjct: 123 HLRGGARKVVISAPAS-GGAKTLVMGVNHHEYNPSEHHVVSNASCTTNCLAPIVHVLVKE 181
>3e5r_O PP38, glyceraldehyde-3-phosphate dehydrogenase, cytosolic; GAPDH,
RICE, oxidoreductase, cytoplasm, glycolysis, NAD; HET:
NAD; 2.30A {Oryza sativa subsp} PDB: 3e6a_O
Length = 337
Score = 230 bits (588), Expect = 9e-75
Identities = 79/175 (45%), Positives = 113/175 (64%), Gaps = 7/175 (4%)
Query: 85 AKLKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDS-GGVKNASHLLKYDSLLGTFK-A 142
K+K+ INGFGRIGR R +D +++V VND +++ KYD++ G +K +
Sbjct: 2 GKIKIGINGFGRIGRLVARVALQSED--VELVAVNDPFITTDYMTYMFKYDTVHGQWKHS 59
Query: 143 DVKIVDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAK 202
D+KI D++T+ + K + V R+P ++PWAE G + V+E TGVF D A H++ GAK
Sbjct: 60 DIKIKDSKTLLLGEKPVTVFGIRNPDEIPWAEAGAEYVVESTGVFTDKEKAAAHLKGGAK 119
Query: 203 KVIITAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELG 257
KV+I+AP+K D P +V GVNE Y + +IVSNASCTTNCLAP KV+ + G
Sbjct: 120 KVVISAPSK--DAPMFVCGVNEDKYTSD-IDIVSNASCTTNCLAPLAKVIHDNFG 171
>1u8f_O GAPDH, glyceraldehyde-3-phosphate dehydrogenase, liver; rossmann
fold, oxidoreductase, mammalian GAPDH; HET: NAD; 1.75A
{Homo sapiens} SCOP: c.2.1.3 d.81.1.1 PDB: 1znq_O*
1j0x_O* 3gpd_R* 1dss_G* 1crw_G* 1szj_G* 1ihx_A* 1ihy_A*
1gpd_G* 4gpd_1
Length = 335
Score = 225 bits (577), Expect = 4e-73
Identities = 73/174 (41%), Positives = 104/174 (59%), Gaps = 7/174 (4%)
Query: 85 AKLKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDS-GGVKNASHLLKYDSLLGTFKAD 143
K+KV +NGFGRIGR R +D+V +ND + ++ +YDS G F
Sbjct: 2 GKVKVGVNGFGRIGRLVTRAAFNSGK--VDIVAINDPFIDLNYMVYMFQYDSTHGKFHGT 59
Query: 144 VKIVDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKK 203
VK +N + ++G I + RDP ++ W + G + V+E TGVF AG H+Q GAK+
Sbjct: 60 VK-AENGKLVINGNPITIFQERDPSKIKWGDAGAEYVVESTGVFTTMEKAGAHLQGGAKR 118
Query: 204 VIITAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELG 257
VII+AP+ D P +V+GVN + YD+ + I+SNASCTTNCLAP KV+ + G
Sbjct: 119 VIISAPSA--DAPMFVMGVNHEKYDNSL-KIISNASCTTNCLAPLAKVIHDNFG 169
>2czc_A Glyceraldehyde-3-phosphate dehydrogenase; glycolysis, NAD,
oxidoreductase, structural genomics; HET: NAD; 2.00A
{Pyrococcus horikoshii} SCOP: c.2.1.3 d.81.1.1
Length = 334
Score = 164 bits (416), Expect = 4e-49
Identities = 28/173 (16%), Positives = 59/173 (34%), Gaps = 15/173 (8%)
Query: 86 KLKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDSGGVKNASHLLKYDSLLGTFKADVK 145
K+KV +NG+G IG+ + D ++++ + + ++ K + ++
Sbjct: 2 KVKVGVNGYGTIGKRVAYAVTKQDD--MELIGITKTK-PDFEAYRAKELGIPVYAASEEF 58
Query: 146 IVDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKKVI 205
I E + L +DI+++ T + + +AG K +
Sbjct: 59 IPRFEKEGFE----------VAGTLNDLLEKVDIIVDATPGGIGAKNKPLYEKAGVKAIF 108
Query: 206 ITAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELGK 258
++V N + + N V SC T L + + E
Sbjct: 109 QGGEKADVAEVSFVAQANYEAALGK--NYVRVVSCNTTGLVRTLSAIREYADY 159
>2yyy_A Glyceraldehyde-3-phosphate dehydrogenase; glyceraldehyde
3-phosphate binding, alpha and beta proteins (A/B)
class, MJ1146; HET: NAP; 1.85A {Methanocaldococcus
jannaschii}
Length = 343
Score = 162 bits (412), Expect = 2e-48
Identities = 31/173 (17%), Positives = 58/173 (33%), Gaps = 14/173 (8%)
Query: 86 KLKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDSGGVKNASHLLKYDSLLGTFKADVK 145
KV ING+G IG+ + D ++V+ V + ++ +K V
Sbjct: 2 PAKVLINGYGSIGKRVADAVSMQDD--MEVIGVTKT-----KPDFEARLAVEKGYKLFVA 54
Query: 146 IVDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKKVI 205
I DNE + + + L + DIV++G + + K I
Sbjct: 55 IPDNERV-KLFEDAGIPVEGTILDIIE---DADIVVDGAPKKIGKQNLENIYKPHKVKAI 110
Query: 206 ITAPAKGADI-PTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELG 257
+ K D+ + + + + V SC T L + ++
Sbjct: 111 LQGGEKAKDVEDNFNALWSYNRCYGK--DYVRVVSCNTTGLCRILYAINSIAD 161
>1cf2_P Protein (glyceraldehyde-3-phosphate dehydrogenase); oxydoreductase,
oxidoreductase; HET: NAP; 2.10A {Methanothermus
fervidus} SCOP: c.2.1.3 d.81.1.1
Length = 337
Score = 153 bits (389), Expect = 5e-45
Identities = 32/171 (18%), Positives = 59/171 (34%), Gaps = 17/171 (9%)
Query: 88 KVAINGFGRIGRNFLRCWHGRKDSPLDVVVVND-SGGVKNASHLLKYDSLLGTFKADVKI 146
VAING+G +G+ + D + V+ V+ + L K L VK+
Sbjct: 3 AVAINGYGTVGKRVADAIAQQDD--MKVIGVSKTRPDFEARMALKKGYDLYVAIPERVKL 60
Query: 147 VDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKKVII 206
+ I V G + ++ D IVI+ T + + + G K +
Sbjct: 61 FEKAGIEVAGTVDDMLDEAD------------IVIDCTPEGIGAKNLKMYKEKGIKAIFQ 108
Query: 207 TAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELG 257
++ N ++ + + SC T L +K + + G
Sbjct: 109 GGEKHEDIGLSFNSLSNYEESYGK--DYTRVVSCNTTGLCRTLKPLHDSFG 157
>1b7g_O Protein (glyceraldehyde 3-phosphate dehydrogenase; archaea,
hyperthermophIle, GAPDH, hyperthermophilic dehydrog
oxidoreductase; 2.05A {Sulfolobus solfataricus} SCOP:
c.2.1.3 d.81.1.1
Length = 340
Score = 124 bits (313), Expect = 6e-34
Identities = 26/183 (14%), Positives = 55/183 (30%), Gaps = 17/183 (9%)
Query: 88 KVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDSGGVKNASHLLKYDSLLGTFKADVKIV 147
VA+NG+G IG+ + D + +V V + A + + + +K
Sbjct: 3 NVAVNGYGTIGKRVADAIIKQPD--MKLVGVAKTSPNYEAFIAHRRGIRIYVPQQSIKKF 60
Query: 148 DNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKKVIIT 207
+ I V G + DIV++ T V ++Q +
Sbjct: 61 EESGIPVAGTVE------------DLIKTSDIVVDTTPNGVGAQYKPIYLQLQRNAIFQG 108
Query: 208 APAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELG-KQSDLLNDH 266
++ N + + + SC T L + +++ ++
Sbjct: 109 GEKAEVADISFSALCNYNEALGK--KYIRVVSCNTTALLRTICTVNKVSKVEKVRATIVR 166
Query: 267 SVN 269
Sbjct: 167 RAA 169
>3bio_A Oxidoreductase, GFO/IDH/MOCA family; structural genomics, MCSG,
PSI-2, GFO/IDH/MO family, protein structure initiative;
HET: MSE EPE; 1.80A {Porphyromonas gingivalis}
Length = 304
Score = 38.7 bits (90), Expect = 0.001
Identities = 19/151 (12%), Positives = 47/151 (31%), Gaps = 36/151 (23%)
Query: 86 KLKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDSGGVKNASHLLKYDSLLGTFKADVK 145
K++ AI G+G IGR L+ D ++ +
Sbjct: 9 KIRAAIVGYGNIGRYALQALREAPD--FEIAGIVRR------------------------ 42
Query: 146 IVDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKKVI 205
+ + + + +VVS+ + L+ +D+ + + A + ++ G
Sbjct: 43 --NPAEVPFELQPFRVVSDIEQLE------SVDVALVCSPSREVERTALEILKKG-ICTA 93
Query: 206 ITAPAKGADIPTYVVGVNEKDYDHEVANIVS 236
+ I + + A +++
Sbjct: 94 DSFDIH-DGILALRRSLGDAAGKSGAAAVIA 123
>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 = 38.5 bits (89), Expect = 0.002
Identities = 32/183 (17%), Positives = 63/183 (34%), Gaps = 67/183 (36%)
Query: 13 PAIT--------------RIPSKTT---HSFPTQCSTKRLDVAEFAGLRANAGATYATGA 55
PA+T IP+ T HS + E+A L + A
Sbjct: 1734 PALTLMEKAAFEDLKSKGLIPADATFAGHS-----------LGEYAALASLADVM----- 1777
Query: 56 RDASFFDAVTAQLTP---KVAAGSVPVKKETVAKLK-VAINGFGRIGRNF----LR--CW 105
S V ++ +VP + + +AIN GR+ +F L+
Sbjct: 1778 ---SIESLV--EVVFYRGMTMQVAVPRDELGRSNYGMIAINP-GRVAASFSQEALQYVVE 1831
Query: 106 HGRKDSPLDVVVVND---------SG---GVKNASHLLKYDSLLGTFKADVKIVD-NETI 152
K + V +VN +G + +++L + + K + I++ +++
Sbjct: 1832 RVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNF---IKLQK--IDIIELQKSL 1886
Query: 153 SVD 155
S++
Sbjct: 1887 SLE 1889
>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 = 35.6 bits (81), Expect = 0.015
Identities = 23/146 (15%), Positives = 38/146 (26%), Gaps = 45/146 (30%)
Query: 56 RDASFFDAVTAQ-------------LTPK-----------VAAGSVPVKKETVAKLKVAI 91
R D ++A LTP +P + T +++I
Sbjct: 273 RFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSI 332
Query: 92 NGFGRIGRNFLRCWHGRKDSPLDVV--VVNDSGGVKNASHLLKYDSLLGTFKADVKIVDN 149
R+ L W K D + ++ S V + K L F I
Sbjct: 333 --IAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHI--- 387
Query: 150 ETISVDGKLIKVVSNRDPLQLPWAEL 175
+ L L W ++
Sbjct: 388 -PTIL-------------LSLIWFDV 399
>3c8m_A Homoserine dehydrogenase; structural genomics, APC89447, PS protein
structure initiative, midwest center for structural
genomics; HET: MSE; 1.90A {Thermoplasma volcanium GSS1}
PDB: 3jsa_A*
Length = 331
Score = 33.4 bits (77), Expect = 0.058
Identities = 27/130 (20%), Positives = 44/130 (33%), Gaps = 22/130 (16%)
Query: 86 KLKVAINGFGRIGRNFLRCWHGRKDS-----PLDVVVVNDSGGVKNASHLLKYDSLLGTF 140
+ ++I G G +G N LR + +VV V DS + +
Sbjct: 6 TINLSIFGLGNVGLNLLRIIRSFNEENRLGLKFNVVFVADSLHSYYNERIDIGKVISYKE 65
Query: 141 KADVKIVDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQA- 199
K + ++ E+IS RD DIV++ T DG +
Sbjct: 66 KGSLDSLEYESISAS-----EALARD----------FDIVVDATPASADGKKELAFYKET 110
Query: 200 -GAKKVIITA 208
K ++TA
Sbjct: 111 FENGKDVVTA 120
>1f06_A MESO-diaminopimelate D-dehydrogenase; enzyme-NADPH-inhibitor
ternary complex, oxidoreductase; HET: NDP 2NP; 2.10A
{Corynebacterium glutamicum} SCOP: c.2.1.3 d.81.1.3 PDB:
1dap_A* 2dap_A* 3dap_A*
Length = 320
Score = 33.0 bits (75), Expect = 0.081
Identities = 12/63 (19%), Positives = 26/63 (41%), Gaps = 2/63 (3%)
Query: 86 KLKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDSGGVKNASHLLKYDSLLGTF-KADV 144
++VAI G+G +GR+ + + D L V + + + + + + DV
Sbjct: 3 NIRVAIVGYGNLGRSVEKLIAKQPDMDL-VGIFSRRATLDTKTPVFDVADVDKHADDVDV 61
Query: 145 KIV 147
+
Sbjct: 62 LFL 64
>1lc0_A Biliverdin reductase A; oxidoreductase, tetrapyrrole, bIle pigment,
heme, bilirubin, NADH; 1.20A {Rattus norvegicus} SCOP:
c.2.1.3 d.81.1.4 PDB: 1lc3_A* 1gcu_A 2h63_A*
Length = 294
Score = 32.9 bits (75), Expect = 0.092
Identities = 11/51 (21%), Positives = 19/51 (37%)
Query: 86 KLKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDSGGVKNASHLLKYDSL 136
K V + G GR G LR + + ++ S + ++ SL
Sbjct: 7 KFGVVVVGVGRAGSVRLRDLKDPRSAAFLNLIGFVSRRELGSLDEVRQISL 57
>1qme_A Penicillin-binding protein 2X; peptidoglycan synthesis, resistance,
cell WALL, transmembrane; 2.4A {Streptococcus
pneumoniae} SCOP: d.11.1.1 d.11.1.1 d.175.1.1 e.3.1.1
PDB: 1qmf_A* 1pyy_A* 1rp5_A 1pmd_A 1k25_A 2zc3_B*
2z2l_B* 2z2m_B* 2zc4_B* 2zc3_A* 2z2l_A* 2z2m_A* 2zc4_A*
2zc3_C* 2z2l_C* 2z2m_C* 2zc4_C*
Length = 702
Score = 30.1 bits (68), Expect = 0.78
Identities = 18/107 (16%), Positives = 38/107 (35%), Gaps = 21/107 (19%)
Query: 109 KDSPLDVVVVNDSGGVKNASHLLKYDSLLGTFKADVKIVDNETISVDGKLIKVV------ 162
+ + + +VV +KN+S + + N+ + + + V
Sbjct: 606 RRNLVQPIVVGTGTKIKNSSA-----------EEGKNLAPNQQVLILSDKAEEVPDMYGW 654
Query: 163 SNRDPLQLPWAELGIDIVIEGTGVFVDG--PGAGKHIQAGAKKVIIT 207
+ L L I++ +G+G V A I+ KK+ +T
Sbjct: 655 TKETAETL-AKWLNIELEFQGSGSTVQKQDVRANTAIKDI-KKITLT 699
>1nvm_B Acetaldehyde dehydrogenase (acylating), 4-hydroxy-2-oxovalerate
aldolase; sequestered tunnel, substrate channeling; HET:
NAD; 1.70A {Pseudomonas SP} SCOP: c.2.1.3 d.81.1.1
Length = 312
Score = 28.8 bits (64), Expect = 1.7
Identities = 36/160 (22%), Positives = 55/160 (34%), Gaps = 29/160 (18%)
Query: 86 KLKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDSGGVKNASHLLKYDSLLGTFKADVK 145
KLKVAI G G IG + + R L++ + G+ AS L +G V
Sbjct: 4 KLKVAIIGSGNIGTDLMIKVL-RNAKYLEMGAM---VGIDAASDGLARAQRMG-----VT 54
Query: 146 IVDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGT--GVFVDGPGAGKHIQAGAKK 203
V+G + ID V + T V + + G +
Sbjct: 55 TTYA---GVEGLIKLPEFA-----------DIDFVFDATSASAHVQNEALLRQAKPGIRL 100
Query: 204 VIITAPAKGADIPTYVVGVNEKD-YDHEVANIVSNASCTT 242
+ +T A G P V VN ++ N+V+ T
Sbjct: 101 IDLTPAAIG---PYCVPVVNLEEHLGKLNVNMVTCGGQAT 137
>2rkv_A Trichothecene 3-O-acetyltransferase; BAHD superfamily, deoxyniv
T-2, acetyl COA, fusarium; HET: COA MPO ZBA; 1.60A
{Gibberella zeae} PDB: 3b2s_A* 3b30_A* 2rkt_A* 2zba_A*
Length = 451
Score = 28.8 bits (64), Expect = 2.0
Identities = 10/79 (12%), Positives = 21/79 (26%), Gaps = 3/79 (3%)
Query: 18 IPSKTTHSFPTQCSTK--RLDVAEFAGLRANAGATYATGARDASFFDAVTAQL-TPKVAA 74
+ P S + L+ A T + S DA++A +
Sbjct: 217 VAGGDAVLTPVSASWAFFTFSPKAMSELKDAATKTLDASTKFVSTDDALSAFIWKSASRV 276
Query: 75 GSVPVKKETVAKLKVAING 93
+ + A++
Sbjct: 277 RLERIDGSAPTEFCRAVDA 295
>3c1a_A Putative oxidoreductase; ZP_00056571.1, oxidoreductase FAM binding
rossmann fold, structural genomics; HET: MSE PG4 PGE;
1.85A {Magnetospirillum magnetotacticum}
Length = 315
Score = 28.5 bits (64), Expect = 2.2
Identities = 9/33 (27%), Positives = 19/33 (57%)
Query: 85 AKLKVAINGFGRIGRNFLRCWHGRKDSPLDVVV 117
+ +++A+ G GR G+N++R G + L +
Sbjct: 9 SPVRLALIGAGRWGKNYIRTIAGLPGAALVRLA 41
>1vq8_E 50S ribosomal protein L6P; ribosome 50S, protein-protein complex,
RNA-RNA complex, PROT complex, peptidyl transferase
reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A
{Haloarcula marismortui} SCOP: d.141.1.1 d.141.1.1 PDB:
1vq4_E* 1vq5_E* 1vq6_E* 1vq7_E* 1s72_E* 1vq9_E* 1vqk_E*
1vql_E* 1vqm_E* 1vqn_E* 1vqo_E* 1vqp_E* 1yhq_E* 1yi2_E*
1yij_E* 1yit_E* 1yj9_E* 1yjn_E* 1yjw_E* 2otj_E* ...
Length = 178
Score = 27.9 bits (63), Expect = 2.6
Identities = 8/59 (13%), Positives = 22/59 (37%)
Query: 141 KADVKIVDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQA 199
+ +++I ++ D I V + + ID+ ++G V ++ +
Sbjct: 3 RVELEIPEDVDAEQDHLDITVEGDNGSVTRRLWYPDIDVSVDGDTVVIESDEDNAKTMS 61
>3ing_A Homoserine dehydrogenase; NP_394635.1, structural genomics, center
for structural genomics, JCSG, protein structure INI
PSI-2; HET: NDP; 1.95A {Thermoplasma acidophilum}
Length = 325
Score = 28.0 bits (63), Expect = 3.0
Identities = 21/129 (16%), Positives = 43/129 (33%), Gaps = 22/129 (17%)
Query: 86 KLKVAINGFGRIGRNFLRCWHGRKDS----PLDVVVVNDSGGVKNASHLLKYDSLLGTFK 141
++++ + G G +G N LR + VV V+DS + +L + K
Sbjct: 4 EIRIILMGTGNVGLNVLRIIDASNRRRSAFSIKVVGVSDSRSYASGRNLDISSIISNKEK 63
Query: 142 ADVKIVDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQA-- 199
+ + S L+ D++++ T DG +
Sbjct: 64 TG--RISDRAFSGPEDLMGE--------------AADLLVDCTPASRDGVREYSLYRMAF 107
Query: 200 GAKKVIITA 208
+ ++TA
Sbjct: 108 ESGMNVVTA 116
>3dmq_A RNA polymerase-associated protein RAPA; SWF2/SNF2, transcription
factor, RNA polymerase recycling, activator,
ATP-binding, DNA-binding; 3.20A {Escherichia coli K12}
Length = 968
Score = 27.7 bits (61), Expect = 4.4
Identities = 11/33 (33%), Positives = 15/33 (45%), Gaps = 11/33 (33%)
Query: 189 DGPGAGKHIQAG-----------AKKVIITAPA 210
D G GK I+AG A++V+I P
Sbjct: 177 DEVGLGKTIEAGMILHQQLLSGAAERVLIIVPE 209
>3fhl_A Putative oxidoreductase; NAD-binding domain, PSI-2, NYSGXRC,
structur genomics, protein structure initiative; 1.93A
{Bacteroides fragilis nctc 9343}
Length = 362
Score = 27.7 bits (62), Expect = 4.5
Identities = 5/19 (26%), Positives = 10/19 (52%)
Query: 83 TVAKLKVAINGFGRIGRNF 101
++ +K + FG G+ F
Sbjct: 2 SLEIIKTGLAAFGMSGQVF 20
>2ixa_A Alpha-N-acetylgalactosaminidase; NAD, A-ECO conversion, hydrolase;
HET: NAD; 2.3A {Flavobacterium meningosepticum} PDB:
2ixb_A*
Length = 444
Score = 27.8 bits (61), Expect = 4.8
Identities = 6/25 (24%), Positives = 11/25 (44%)
Query: 86 KLKVAINGFGRIGRNFLRCWHGRKD 110
K+++A G G+ + R D
Sbjct: 20 KVRIAFIAVGLRGQTHVENMARRDD 44
>3qy9_A DHPR, dihydrodipicolinate reductase; rossmann fold, NADH, NADPH,
oxidoreductase; 1.80A {Staphylococcus aureus}
Length = 243
Score = 27.2 bits (61), Expect = 5.0
Identities = 12/62 (19%), Positives = 26/62 (41%), Gaps = 4/62 (6%)
Query: 85 AKLKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDSGGVKNASHLLKYDSLLGTFKADV 144
A +K+ + G+G + + R ++ ++V V ++ + Y + ADV
Sbjct: 2 ASMKILLIGYGAMNQRVARL---AEEKGHEIVGVIENTPKATTPYQQ-YQHIADVKGADV 57
Query: 145 KI 146
I
Sbjct: 58 AI 59
>1c1d_A L-phenylalanine dehydrogenase; amino acid dehydrogenase, oxidative
deamination mechanism, oxidoreductase; HET: PHE NAD;
1.25A {Rhodococcus SP} SCOP: c.2.1.7 c.58.1.1 PDB:
1bw9_A* 1c1x_A* 1bw9_B* 1c1d_B* 1c1x_B* 1bxg_B* 1bxg_A*
Length = 355
Score = 27.5 bits (62), Expect = 5.0
Identities = 12/75 (16%), Positives = 23/75 (30%), Gaps = 20/75 (26%)
Query: 81 KETVAKLKVAINGFGRIGRNFLRCWH--GRKDSPLDVVVVNDS-GGVKNASHLLKYDSLL 137
++ L V + G G +G + G + ++V + V +A L
Sbjct: 170 LGSLDGLTVLVQGLGAVGGSLASLAAEAGAQ-----LLVADTDTERVAHAVAL------- 217
Query: 138 GTFKADVKIVDNETI 152
V E +
Sbjct: 218 -----GHTAVALEDV 227
>3ijp_A DHPR, dihydrodipicolinate reductase; ssgcid, SBRI, decode
biostructures, niaid, amino-acid biosynthesis,
cytoplasm; HET: NAP; 2.30A {Bartonella henselae}
Length = 288
Score = 27.2 bits (61), Expect = 5.1
Identities = 19/79 (24%), Positives = 36/79 (45%), Gaps = 9/79 (11%)
Query: 74 AGSVPVKKETVAKLKVAING-FGRIGRNFLRCWHGRKDSPLDVVVVNDSGGVKNASHLLK 132
G++ + + +++ + G GR+GR + RKD L V+V S +
Sbjct: 9 MGTLEAQTQGPGSMRLTVVGANGRMGRELITAIQRRKDVELCAVLVRKG------SSFVD 62
Query: 133 YDS--LLGTFKADVKIVDN 149
D+ L+G+ V+I D+
Sbjct: 63 KDASILIGSDFLGVRITDD 81
>2zpa_A Uncharacterized protein YPFI; RNA modification enzyme, RNA
helicase, acetyltransferase, GCN5 acetyltransferase;
HET: ACO ADP; 2.35A {Escherichia coli K12}
Length = 671
Score = 27.7 bits (61), Expect = 5.4
Identities = 12/37 (32%), Positives = 15/37 (40%), Gaps = 6/37 (16%)
Query: 183 GTGVFVDGPGAGKH------IQAGAKKVIITAPAKGA 213
G G GK I A + I+TAPAK +
Sbjct: 193 GVAAVTAARGRGKSALAGQLISRIAGRAIVTAPAKAS 229
>3gdo_A Uncharacterized oxidoreductase YVAA; structural genomics, putative
oxidoreductase YVAA, oxidoredu PSI-2, protein structure
initiative; 2.03A {Bacillus subtilis subsp} PDB: 3gfg_A
Length = 358
Score = 27.3 bits (61), Expect = 5.5
Identities = 7/19 (36%), Positives = 11/19 (57%)
Query: 83 TVAKLKVAINGFGRIGRNF 101
++ +KV I G+G G F
Sbjct: 2 SLDTIKVGILGYGLSGSVF 20
>2aeu_A Hypothetical protein MJ0158; selenocysteine synthase, PLP,
pyridoxal phosphate, HOMO- oligomerization, unknown
function; 1.70A {Methanocaldococcus jannaschii} SCOP:
c.67.1.8 PDB: 2aev_A*
Length = 374
Score = 27.1 bits (60), Expect = 5.9
Identities = 13/39 (33%), Positives = 22/39 (56%), Gaps = 2/39 (5%)
Query: 167 PLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKKVI 205
Q P +LG D+V+ T ++GP G + AG K+++
Sbjct: 189 FNQPPALKLGADLVVTSTDKLMEGPRGG--LLAGKKELV 225
>3m89_A FTSZ/tubulin-related protein; partition, TUBZ, GTP-binding,
nucleotide-BIND structural protein; HET: GSP; 2.00A
{Bacillus thuringiensis} PDB: 3m8k_A 2xka_A* 2xkb_A*
Length = 427
Score = 27.2 bits (59), Expect = 6.7
Identities = 17/149 (11%), Positives = 40/149 (26%), Gaps = 17/149 (11%)
Query: 87 LKVAINGFG----RIGRNFLRCWHGRKDSPLDVVVVN----DSGGVKN--ASHLLKYDSL 136
++ + G G + F + + VN D ++N + +D L
Sbjct: 43 IRWGVIGAGQKGNKEADLFAGYKFSNGTTCYPTLAVNFAESDMMHLQNIIKEDRIHFDGL 102
Query: 137 LGTFKAD---VKIVDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGA 193
G + + D ET + ++ + E + + +
Sbjct: 103 KGAARTPSVVTDLFDPETNPNANGYLDKLAQELGRKFTNEEGEVIVDQ----FLICLGAG 158
Query: 194 GKHIQAGAKKVIITAPAKGADIPTYVVGV 222
G V+ + P ++
Sbjct: 159 GGVGTGWGSLVLQLIREQFFPCPVSMLIS 187
>3cu5_A Two component transcriptional regulator, ARAC FAM; structural
genomics, protein structure initiative; 2.60A
{Clostridium phytofermentans isdg}
Length = 141
Score = 26.0 bits (58), Expect = 8.1
Identities = 11/37 (29%), Positives = 17/37 (45%), Gaps = 9/37 (24%)
Query: 146 IVDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIE 182
IVD+E ++ DG LI + W L D + +
Sbjct: 7 IVDDEKLTRDG-LIANI--------NWKALSFDQIDQ 34
>3euw_A MYO-inositol dehydrogenase; protein structure initiative II (PSI
II), NYSGXRC, MYO-inosi dehydrogenase, oxidoreductase,
tetramer; 2.30A {Corynebacterium glutamicum}
Length = 344
Score = 26.9 bits (60), Expect = 8.2
Identities = 11/35 (31%), Positives = 17/35 (48%), Gaps = 2/35 (5%)
Query: 86 KLKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVND 120
L++A+ G GRIG D ++VV+ D
Sbjct: 4 TLRIALFGAGRIGHVHAANIAANPDL--ELVVIAD 36
>2yzq_A Putative uncharacterized protein PH1780;
sheet/helix/sheet/sheet/helix, structural genomics,
unknown function, NPPSFA; HET: SAM; 1.63A {Pyrococcus
horikoshii} SCOP: d.37.1.1 d.37.1.1
Length = 282
Score = 26.3 bits (58), Expect = 9.8
Identities = 20/123 (16%), Positives = 34/123 (27%), Gaps = 11/123 (8%)
Query: 113 LDVVVVNDSGGVKNASHLLKYDSLLGTFKADVKIVDNETISVDGKLIKVVSNRDPLQLPW 172
V +V + +K A L + V + +G L+ +V D L+
Sbjct: 134 RYVSIVWEGTPLKAALKALLL------SNSMALPVVDS----EGNLVGIVDETDLLRDSE 183
Query: 173 AELGIDIVIEGTGVFVDGPGAGKHIQAGAKKVIITAPAKGADIPTY-VVGVNEKDYDHEV 231
+ + K + A+I T V+ HEV
Sbjct: 184 IVRIMKSTELAASSEEEWILESHPTLLFEKFELQLPNKPVAEIMTRDVIVATPHMTVHEV 243
Query: 232 ANI 234
A
Sbjct: 244 ALK 246
>3e82_A Putative oxidoreductase; NAD, GFO/IDH/MOCA family, PSI-2, NYSGXRC,
11136F, structural genomics, protein structure
initiative; 2.04A {Klebsiella pneumoniae subsp}
Length = 364
Score = 26.5 bits (59), Expect = 9.9
Identities = 5/16 (31%), Positives = 11/16 (68%)
Query: 86 KLKVAINGFGRIGRNF 101
+ +A+ G+G +G+ F
Sbjct: 7 TINIALIGYGFVGKTF 22
>3e18_A Oxidoreductase; dehydrogenase, NAD-binding, structural genom
protein structure initiative, PSI, NEW YORK structural
GENO research consortium; HET: NAD; 1.95A {Listeria
innocua}
Length = 359
Score = 26.6 bits (59), Expect = 10.0
Identities = 6/32 (18%), Positives = 13/32 (40%)
Query: 86 KLKVAINGFGRIGRNFLRCWHGRKDSPLDVVV 117
K ++ I G+G +G + + + V
Sbjct: 5 KYQLVIVGYGGMGSYHVTLASAADNLEVHGVF 36
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
0.316 0.133 0.387
Gapped
Lambda K H
0.267 0.0679 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,125,146
Number of extensions: 260043
Number of successful extensions: 913
Number of sequences better than 10.0: 1
Number of HSP's gapped: 826
Number of HSP's successfully gapped: 90
Length of query: 269
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 177
Effective length of database: 4,133,061
Effective search space: 731551797
Effective search space used: 731551797
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 (21.6 bits)
S2: 56 (25.5 bits)