RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12817
(1201 letters)
>gnl|CDD|240665 cd12189, LKR_SDH_like, bifunctional lysine ketoglutarate reductase
/saccharopine dehydrogenase enzyme. Bifunctional lysine
ketoglutarate reductase /saccharopine dehydrogenase
protein is a pair of enzymes linked on a single
polypeptide chain that catalyze the initial, consecutive
steps of lysine degradation. These proteins are related
to the 2-domain saccharopine dehydrogenases. Along with
formate dehydrogenase and similar enzymes, SDH consists
paired domains resembling Rossmann folds in which the
NAD-binding domain is inserted within the linear
sequence of the catalytic domain. In this bifunctional
enzyme, the LKR domain is N-terminal of the SDH domain.
These proteins have a close match to the active site
motif of SDHs, and an NAD-binding site motif that is a
partial match to that found in SDH and other FDH-related
proteins.
Length = 433
Score = 747 bits (1931), Expect = 0.0
Identities = 266/445 (59%), Positives = 335/445 (75%), Gaps = 14/445 (3%)
Query: 4 VIAIRREDQSVWERRAALAPSNVKRLVRS-GVKVIVQPSNRRAYPVQAYANAGAIIQEDI 62
VI IRRED+++WERRA L PS+V+ LV+ GVKV+VQPSNRRA+P Q Y AGAIIQED+
Sbjct: 1 VIGIRREDKNIWERRAPLTPSHVRELVKKPGVKVLVQPSNRRAFPDQEYEAAGAIIQEDL 60
Query: 63 SEASIIFGVKQVPVDLLLPNKTYCMFSHTIKAQETNMPLLDAILQKNIRLVDYEKLVDDE 122
S+A +I GVK+ P+D LLP+KTY FSHTIKAQ NMPLLDAIL+KNIRL+DYE +VD+
Sbjct: 61 SDADLILGVKEPPIDKLLPDKTYAFFSHTIKAQPYNMPLLDAILEKNIRLIDYELIVDES 120
Query: 123 GNRVVAFGKYAGVAGMVNILHGLGLRLLALGHHTPFMHIGPAHNYRNSMMARQAIRDAGY 182
G R+VAFG +AGVAGM++ILHGLGLRLLALG+ TPF+HIG A+NY + A+QA+RDAGY
Sbjct: 121 GKRLVAFGWFAGVAGMIDILHGLGLRLLALGYSTPFLHIGRAYNYPSLEEAKQAVRDAGY 180
Query: 183 EISLGNMPKSIGPLTIVFTGSGNVSQGAQEIFQELPYEYVPPEMLQKVAEHG-SNTKIYA 241
EI+LG +PKS+GPL VFTGSGNVSQGAQEIF+ELP+EYV P L ++A+ G K+Y
Sbjct: 181 EIALGGLPKSLGPLVFVFTGSGNVSQGAQEIFEELPHEYVEPSDLPELAKSGADRNKVYG 240
Query: 242 CEVRRRNYLERIKGGGYDYQEYNENPSLYRSLFASKIAPYASIIINGIYWAVGSPKLLTL 301
C V +YLER GG +D +Y NP LY S+F KIAPY S++INGIYW P+LLT
Sbjct: 241 CVVTPEDYLERKDGGPFDRADYYANPELYESVFHEKIAPYLSVLINGIYWDPRFPRLLTN 300
Query: 302 PDAKNLLRPNHMPWLPTSDGAPPLPHRLLGICDISADPGGSIEFMNECTTIDTPFCLYDA 361
+ LLRP P PHRLL I DIS D GGSIEF+ + TTID+PF +YD
Sbjct: 301 EQLQALLRP------------PAGPHRLLAIADISCDIGGSIEFLTKATTIDSPFYVYDP 348
Query: 362 DSNKDTKSFKGPGVLVCSIDNMPTQLPMEATDFFGNLVFPYALDILQSDASKPIEEHNFS 421
D++K S G G+LV S+DN+P +LP EA++ FG+ + PY D+ +SDASKP+EE
Sbjct: 349 DTDKIHDSVSGDGILVMSVDNLPAELPREASEHFGDALLPYVPDLAKSDASKPLEESELP 408
Query: 422 PAVQAAIIASNGELTPKFKYIEDLR 446
P ++ A IASNG+LTPK++YI++LR
Sbjct: 409 PVLRRATIASNGKLTPKYEYIQELR 433
Score = 231 bits (591), Expect = 1e-66
Identities = 86/130 (66%), Positives = 106/130 (81%), Gaps = 4/130 (3%)
Query: 897 QKQNTPIDTLSHFLRQKLNIRLVDYEKLVDDEGNRVVAFGKYAGVAGMVNILHGLGLRLL 956
Q N P+ L L + NIRL+DYE +VD+ G R+VAFG +AGVAGM++ILHGLGLRLL
Sbjct: 93 QPYNMPL--LDAILEK--NIRLIDYELIVDESGKRLVAFGWFAGVAGMIDILHGLGLRLL 148
Query: 957 ALGHHTPFMHIGPAHNYRNSMMARQAIRDAGYEISLGNMPKSIGPLTIVFTGSGNVSQGA 1016
ALG+ TPF+HIG A+NY + A+QA+RDAGYEI+LG +PKS+GPL VFTGSGNVSQGA
Sbjct: 149 ALGYSTPFLHIGRAYNYPSLEEAKQAVRDAGYEIALGGLPKSLGPLVFVFTGSGNVSQGA 208
Query: 1017 QEIFQELPYE 1026
QEIF+ELP+E
Sbjct: 209 QEIFEELPHE 218
Score = 63.3 bits (155), Expect = 4e-10
Identities = 23/42 (54%), Positives = 32/42 (76%)
Query: 507 SFVQSDASKPIEEHNFSPAVQAAIIASNGELTPKFKYIEDLR 548
+SDASKP+EE P ++ A IASNG+LTPK++YI++LR
Sbjct: 392 DLAKSDASKPLEESELPPVLRRATIASNGKLTPKYEYIQELR 433
>gnl|CDD|215439 PLN02819, PLN02819, lysine-ketoglutarate reductase/saccharopine
dehydrogenase.
Length = 1042
Score = 700 bits (1808), Expect = 0.0
Identities = 353/964 (36%), Positives = 514/964 (53%), Gaps = 82/964 (8%)
Query: 4 VIAIRREDQSVWERRAALAPSNVKRLVRSGV-----KVIVQPSNRRAYPVQAYANAGAII 58
V+ I E + WERRA L PS+ RL+ SG ++IVQPS++R + Y + G I
Sbjct: 7 VVGILAETVNKWERRAPLTPSHCARLLHSGKDRTVSRIIVQPSSKRIHHDAQYEDVGCEI 66
Query: 59 QEDISEASIIFGVKQVPVDLLLPNKTYCMFSHTIKAQETNMPLLDAILQKNIRLVDYEKL 118
ED+S+ +I GVKQ +++LLP++ Y FSHT KAQ NMPLLD IL++ + L DYE +
Sbjct: 67 SEDLSDCGLILGVKQPKLEMLLPDRAYAFFSHTHKAQPENMPLLDKILEERVSLFDYELI 126
Query: 119 VDDEGNRVVAFGKYAGVAGMVNILHGLGLRLLALGHHTPFMHIGPAHNYRNSMMARQAIR 178
V D G R+VAFGKYAG AGM++ GLG RLL+LG+ TPF+ +G ++ Y + A+ A+
Sbjct: 127 VGDHGKRLVAFGKYAGRAGMIDFFRGLGQRLLSLGYSTPFLSLGSSYMYSSLAAAKAAVI 186
Query: 179 DAGYEISLGNMPKSIGPLTIVFTGSGNVSQGAQEIFQELPYEYVPPEMLQKVAEHGSNT- 237
G EI+ +P I PL VFTGSGNVSQGAQEIF+ LP+ +V P L ++ N
Sbjct: 187 SVGEEIASSGLPLGICPLVFVFTGSGNVSQGAQEIFKLLPHTFVEPSKLPELKGISQNKI 246
Query: 238 ------KIYACEVRRRNYLER-IKGGGYDYQEYNENPSLYRSLFASKIAPYASIIINGIY 290
++Y C V ++ +E +D +Y +P Y +F KIAPYAS+I+N +Y
Sbjct: 247 STKRVYQVYGCVVTSQDMVEHKDPSKQFDKADYYAHPEHYNPVFHEKIAPYASVIVNCMY 306
Query: 291 WAVGSPKLLTLPDAKNLLRPNHMPWLPTSDGAPPLPHRLLGICDISADPGGSIEFMNECT 350
W P+LLT ++L R P L+G+CDI+ D GGSIEF+N+ T
Sbjct: 307 WEKRFPRLLTTKQLQDLTRKGGCP--------------LVGVCDITCDIGGSIEFLNKTT 352
Query: 351 TIDTPFCLYDADSNKDTKSFKGPGVLVCSIDNMPTQLPMEATDFFGNLVFPYALDILQSD 410
+I+ PF Y+ +N G G+L ++D +PT+ EA+ FGN++ P+ + S
Sbjct: 353 SIEKPFFRYNPSNNSYHDDMDGDGILCMAVDILPTEFAKEASQHFGNILSPF----VGSL 408
Query: 411 ASKPIEEHNFSPAVQAAIIASNGELTPKFKYIEDLRQQSVKSRHKADIQTEESRNVLLLG 470
AS E ++ A IA G LTP F+YI +R + + + ++ + N+L+
Sbjct: 409 ASMK-ELAELPSHLRRACIAHRGSLTPLFEYIPRMRNSNAELAQD-TVSSQSTFNILVSL 466
Query: 471 AGYV-SRPLIEYLHRDENIHITLGSLLKEDIDKDKFISFVQSDASKPIEEHNFSPAVQAA 529
+G++ + LI +E + + + + K + +++ +E V
Sbjct: 467 SGHLFDKFLI-----NEALDVIEAAGGSFHLAKCQVGQSADAESYSELEVGADDKEVLDQ 521
Query: 530 IIASNGEL-TPKFKYIE---------DLRQQSVKSRH--KADIQTEESRNVLLLGAGYVS 577
II S L P YI + + + T++S+NVL+LGAG V
Sbjct: 522 IIDSLTRLANPNEDYISPAREANKIFLKIGKVQQENECNEKAEVTKKSQNVLILGAGRVC 581
Query: 578 RPLIEYL-------------HRDENIHITLGSLLKEDIDKVTNEFGRVEATLIDVNNGGS 624
RP EYL ++H+ + SL +D + EA +DV++
Sbjct: 582 RPAAEYLASVKTISYYGDDSEEPTDVHVIVASLYLKDAKETVEGIENAEAVQLDVSDSE- 640
Query: 625 DNLSGLVRSADLVVSLLPYNLHHHVAEFCIQHGKNLVTASYLSPEMMALHERAASAGITV 684
+L V D+V+SLLP + H VA+ CI+ K+LVTASY+S EM AL +A AGIT+
Sbjct: 641 -SLLKYVSQVDVVISLLPASCHAVVAKACIELKKHLVTASYVSEEMSALDSKAKEAGITI 699
Query: 685 LNEVGLDPGIDHLLAMECIDAAHLNGGKVESFVSYCGGLPAPECSENPLRYKFSWSPRGV 744
L E+GLDPGIDH++AM+ ID AH GGKV+SF SYCGGLP+PE + NPL YKFSW+P G
Sbjct: 700 LCEMGLDPGIDHMMAMKMIDDAHERGGKVKSFTSYCGGLPSPEAANNPLAYKFSWNPAGA 759
Query: 745 LLNTLSSAKYLQNSQVVDIPAGGELMRTARP--LDFLPGFSFEGFANRDSLRYAQLYNIA 802
+ + A Y N Q++ + G L +A L LP F+ E NRDSL Y +LY I
Sbjct: 760 IKAGQNPAVYKSNGQIIHVD-GENLFASAVRFRLPNLPAFALECLPNRDSLVYGELYGIE 818
Query: 803 AEAHTVVRGTLRYRGFVDAMQAIQKLGLLDLKEHPALHPSGPEICWRELVCTLL------ 856
EA T+ RGTLRY GF M + KLGL D + HP L G + L+ LL
Sbjct: 819 KEAATIFRGTLRYEGFSMIMATLSKLGLFDSENHPLLST-GKRTTYGALLDALLLQDGHN 877
Query: 857 ---GLSTSDIFYENLKNIVADKVGNTGLEALEA---LGLLNDDIIVQKQNTPIDTLSHFL 910
L+ + + L + K T +A + LGL + + + + D + +
Sbjct: 878 ENGPLAGEEEISKRLAKLGHSKNRETAAKAAKTIVFLGLDEETEVPKSCKSIFDVTCYRM 937
Query: 911 RQKL 914
+KL
Sbjct: 938 EEKL 941
Score = 150 bits (381), Expect = 9e-37
Identities = 64/130 (49%), Positives = 85/130 (65%), Gaps = 4/130 (3%)
Query: 897 QKQNTPIDTLSHFLRQKLNIRLVDYEKLVDDEGNRVVAFGKYAGVAGMVNILHGLGLRLL 956
Q +N P+ L L + + L DYE +V D G R+VAFGKYAG AGM++ GLG RLL
Sbjct: 103 QPENMPL--LDKILEE--RVSLFDYELIVGDHGKRLVAFGKYAGRAGMIDFFRGLGQRLL 158
Query: 957 ALGHHTPFMHIGPAHNYRNSMMARQAIRDAGYEISLGNMPKSIGPLTIVFTGSGNVSQGA 1016
+LG+ TPF+ +G ++ Y + A+ A+ G EI+ +P I PL VFTGSGNVSQGA
Sbjct: 159 SLGYSTPFLSLGSSYMYSSLAAAKAAVISVGEEIASSGLPLGICPLVFVFTGSGNVSQGA 218
Query: 1017 QEIFQELPYE 1026
QEIF+ LP+
Sbjct: 219 QEIFKLLPHT 228
Score = 72.9 bits (179), Expect = 7e-13
Identities = 35/106 (33%), Positives = 65/106 (61%), Gaps = 7/106 (6%)
Query: 1056 TGLEALEA---LGLLNDDIIVQKQNTPIDTLSHFLRQKLVLDDGDRDVIVLRHDIDILWP 1112
T +A + LGL + + + + D + + +KL ++D+++L H++++ +P
Sbjct: 903 TAAKAAKTIVFLGLDEETEVPKSCKSIFDVTCYRMEEKLAYSGNEQDMVLLHHEVEVEFP 962
Query: 1113 -NRSRERKSISLVVYGQ-PNG--TTAMAKTVGLPAAIAAKMILEGE 1154
++ E+ S +L+ +G+ NG TTAMAKTVG+PAAI A ++LEG+
Sbjct: 963 DSKRIEKHSATLLEFGEIKNGRTTTAMAKTVGIPAAIGALLLLEGK 1008
>gnl|CDD|240623 cd05199, SDH_like, Saccharopine Dehydrogenase like proteins.
Saccharopine Dehydrogenase (SDH) and related proteins,
including bifunctional lysine ketoglutarate
reductase/SDH enzymes and N(5)-(carboxyethyl)ornithine
synthases. SDH catalyzes the final step in the
reversible NAD-dependent oxidative deamination of
saccharopine to alpha-ketoglutarate and lysine, in the
alpha-aminoadipate pathway of L-lysine biosynthesis. SDH
is structurally related to formate dehydrogenase and
similar enzymes, having a 2-domain structure in which a
Rossmann-fold NAD(P)-binding domain is inserted within
the linear sequence of a catalytic domain of related
structure. Bifunctional lysine ketoglutarate
reductase/SDH protein is a pair of enzymes linked on a
single polypeptide chain that catalyze the initial,
consecutive steps of lysine degradation. These proteins
are related to the 2-domain saccharopine dehydrogenases.
Length = 319
Score = 297 bits (762), Expect = 1e-91
Identities = 128/406 (31%), Positives = 179/406 (44%), Gaps = 89/406 (21%)
Query: 4 VIAIRREDQSVWERRAALAPSNVKRLVR--SGVKVIVQPSNRRAYPVQAYANAGAIIQED 61
I I RE ++ +RR L P K L GV++ VQPS R + + Y AG + ED
Sbjct: 1 KIGIIREGKTPPDRRVPLTPEQCKELQAKYPGVEIFVQPSPVRCFKDEEYRAAGIEVVED 60
Query: 62 ISEASIIFGVKQVPVDLLLPNKTYCMFSHTIKAQETNMPLLDAILQKNIRLVDYEKLVDD 121
+S+ I+ GVK+VP++ L+PNKTY FSHTIK Q N LL IL+KNI L+DYE LVD+
Sbjct: 61 LSDCDILLGVKEVPIEQLIPNKTYFFFSHTIKKQPYNRKLLQTILEKNITLIDYEVLVDE 120
Query: 122 EGNRVVAFGKYAGVAGMVNILHGLGLRLLALGHHTPFMHIGPAHNYRNSMMARQAIRDAG 181
+G RV+AFG+YAG+ G N L G + T + AH D
Sbjct: 121 QGKRVIAFGRYAGIVGAYNGLRAYGKK-------TGLFDLKRAH----------ECSDLE 163
Query: 182 YEISLGNMPKSIGPLTIVFTGSGNVSQGAQEIFQELPYEYVPPEMLQKVAEHGSNTKIYA 241
I+ + P IV TGSG V GA E+ + L + V PE
Sbjct: 164 ELIAELK-KVGLPPPKIVITGSGRVGSGAAEVLKALGIKEVSPE---------------- 206
Query: 242 CEVRRRNYLERIKGGGYDYQEYNENPSLYRSLFASKIAPYASIIINGIYWAVGSPKLLTL 301
++L A I+ING YW +P+L T
Sbjct: 207 ------DFLT-----------------------------VADILINGHYWDKRAPRLFTK 231
Query: 302 PDAKNLLRPNHMPWLPTSDGAPPLPHRLLGICDISADPGGSIEFMNECTTIDTPFCLYDA 361
D K P+ ++ I D++ D GSI +TI P YD
Sbjct: 232 EDLKK---PD---------------FKIRVIADVTCDIHGSIPSTLRASTIADPVYDYDP 273
Query: 362 DSNKDTKSFKGPGVLVCSIDNMPTQLPMEATDFFGNLVFPYALDIL 407
+NK+ + V ++DN+P +LP +A++ FG + L L
Sbjct: 274 TTNKEVAFSSPDSITVMAVDNLPCELPRDASEDFGEQLIKSVLPEL 319
Score = 96.9 bits (242), Expect = 1e-21
Identities = 44/132 (33%), Positives = 60/132 (45%), Gaps = 22/132 (16%)
Query: 897 QKQNTPIDTLSHFLRQKLNIRLVDYEKLVDDEGNRVVAFGKYAGVAGMVNILHGLGLRLL 956
Q N + L L + NI L+DYE LVD++G RV+AFG+YAG+ G N L G +
Sbjct: 94 QPYNRKL--LQTILEK--NITLIDYEVLVDEQGKRVIAFGRYAGIVGAYNGLRAYGKK-- 147
Query: 957 ALGHHTPFMHIGPAHNYRNSMMARQAIRDAGYEISLGNMPKSIGPLTIVFTGSGNVSQGA 1016
T + AH D I+ + P IV TGSG V GA
Sbjct: 148 -----TGLFDLKRAH----------ECSDLEELIAELK-KVGLPPPKIVITGSGRVGSGA 191
Query: 1017 QEIFQELPYEEL 1028
E+ + L +E+
Sbjct: 192 AEVLKALGIKEV 203
>gnl|CDD|217556 pfam03435, Saccharop_dh, Saccharopine dehydrogenase. This family
comprised of three structural domains that can not be
separated in the linear sequence. In some organisms this
enzyme is found as a bifunctional polypeptide with
lysine ketoglutarate reductase. The saccharopine
dehydrogenase can also function as a saccharopine
reductase.
Length = 380
Score = 243 bits (622), Expect = 2e-71
Identities = 87/276 (31%), Positives = 134/276 (48%), Gaps = 7/276 (2%)
Query: 568 VLLLGAGYVSRPLIEYLHRDENIHITLGSLLKEDIDKVTNEFG--RVEATLIDVNNGGSD 625
VL++GAG V + + L R ++ IT+ E + R A +D +N +
Sbjct: 1 VLIIGAGGVGQGVAPLLARHGDLEITVADRSLEKAQALAAPKLGLRFIAIAVDADN--YE 58
Query: 626 NLSGLVRSADLVVSLLPYNLHHHVAEFCIQHGKNLVTASYLSPEMMALHERAASAGITVL 685
L L++ DLV++L P L V + CI+ G + V SYL +ALHE+A AG+T +
Sbjct: 59 ALVALLKEGDLVINLAPPFLSLTVLKACIETGVHYVDTSYLREAQLALHEKAKDAGVTAV 118
Query: 686 NEVGLDPGIDHLLAMECIDAAHLNGGKVESFVSYCGGLPAPECSENPLRYKFSWSPRGVL 745
G DPG+ L A +D KV S +CGG P P +NPL + +WSP G+L
Sbjct: 119 LGCGFDPGLVSLFAKYALDDLADELAKVLSVKIHCGGRPEP--KDNPLEFANTWSPEGLL 176
Query: 746 LNTLSSAKYLQNSQVVDIPAGGELMRTARPLDFLPGFSFEGFANRDSLRYAQLYNIAAEA 805
+ A+Y +N + V++ G P PG+++E + NR + EA
Sbjct: 177 EELTNPARYWENGKWVEVGWGSHERTIPFPYGIGPGYAYEIYLNRPGTLTRVRSWL-PEA 235
Query: 806 HTVVRGTLRYRGFVDAMQAIQKLGLLDLKEHPALHP 841
V+ GT+R G++ ++ + LGLL H A P
Sbjct: 236 DGVLFGTIRIPGYLTVIKLLGDLGLLRPTVHYAYIP 271
Score = 58.1 bits (141), Expect = 1e-08
Identities = 23/100 (23%), Positives = 38/100 (38%), Gaps = 4/100 (4%)
Query: 1058 LEALEALGLLNDDIIVQKQNTPIDTLSHFLRQKLVLDDGDRDVIVLRHDIDILWPNRSRE 1117
++ L LGLL + P+D L L L ++D + + +++ +
Sbjct: 252 IKLLGDLGLLRPTV-HYAYIPPLDALKSLLESPASLGPEEQDKVRIGVEVEGIDKLGVLL 310
Query: 1118 RKSISLV-VYGQPNGTT--AMAKTVGLPAAIAAKMILEGE 1154
I G AM T G PA +AA ++ GE
Sbjct: 311 TGHIYNAYGSGLSIEEGRSAMPYTTGTPAQVAAALLAGGE 350
Score = 35.7 bits (83), Expect = 0.12
Identities = 10/29 (34%), Positives = 17/29 (58%)
Query: 466 VLLLGAGYVSRPLIEYLHRDENIHITLGS 494
VL++GAG V + + L R ++ IT+
Sbjct: 1 VLIIGAGGVGQGVAPLLARHGDLEITVAD 29
>gnl|CDD|224662 COG1748, LYS9, Saccharopine dehydrogenase and related proteins
[Amino acid transport and metabolism].
Length = 389
Score = 172 bits (437), Expect = 1e-46
Identities = 82/293 (27%), Positives = 129/293 (44%), Gaps = 16/293 (5%)
Query: 566 RNVLLLGAGYVSRPLIEYLHRDENIHITLGSLLKEDIDKVTNEF-GRVEATLIDVNNGGS 624
+L++GAG V + L ++ + +T+ KE ++ G+VEA +D +
Sbjct: 2 MKILVIGAGGVGSVVAHKLAQNGDGEVTIADRSKEKCARIAELIGGKVEALQVDAADV-- 59
Query: 625 DNLSGLVRSADLVVSLLPYNLHHHVAEFCIQHGKNLVTASYLSPEMMALHERAASAGITV 684
D L L++ DLV++ P + + + CI+ G + V SY L E A AGIT
Sbjct: 60 DALVALIKDFDLVINAAPPFVDLTILKACIKTGVDYVDTSYYEEPPWKLDEEAKKAGITA 119
Query: 685 LNEVGLDPGIDHLLAMECIDAAHLNGGKVESFVSYCGGLPAPECSENPLRYKFSWSPRGV 744
+ G DPGI ++LA A L ++ES Y GGL +NPL Y +WSP
Sbjct: 120 VLGCGFDPGITNVLAAY--AAKEL-FDEIESIDIYVGGLGEHG--DNPLGYATTWSPEIN 174
Query: 745 LLNTLSSAKYLQNSQVVDIPAGGELMRTARPLDFLPGFSFEGFANRDSLRYAQLYNIAAE 804
L A+Y +N + V++ E P + G+ D LR + I
Sbjct: 175 LREYTRPARYWENGKWVEVDPLEEREVFEFP---VIGYGDVYAFYHDELRS-LVKTIPGV 230
Query: 805 AHTVVRGTLRYRGFVDAMQAIQKLGLLDLKEHPALHPSGPEICWRELVCTLLG 857
T T RY G ++ ++A++ LGLL + EI E + +L
Sbjct: 231 VRTRFEMTFRYPGHLEVIKALRDLGLLSREPVKV----QQEIVPLEFLKAVLP 279
Score = 43.9 bits (104), Expect = 4e-04
Identities = 29/99 (29%), Positives = 50/99 (50%), Gaps = 3/99 (3%)
Query: 1060 ALEALGLLNDD-IIVQKQNTPIDTLSHFLRQKLVLDDGDRDVIVLRHDIDILWPNRSRER 1118
AL LGLL+ + + VQ++ P++ L L L L +DV V+ ++ R +
Sbjct: 250 ALRDLGLLSREPVKVQQEIVPLEFLKAVLPDPLSLAPDYKDVTVIGVEVKGTKDGRDKTV 309
Query: 1119 KSISLVVYG--QPNGTTAMAKTVGLPAAIAAKMILEGEF 1155
G++A++ T G+PAAI A+++ EGE+
Sbjct: 310 FYNVKDHAEAYSEVGSSAISYTTGVPAAIGAELLAEGEW 348
Score = 31.5 bits (72), Expect = 2.8
Identities = 15/72 (20%), Positives = 29/72 (40%), Gaps = 12/72 (16%)
Query: 464 RNVLLLGAGYVSRPLIEYLHRDENIHITLGSLLKEDIDK-----DKFISFVQSDASKPIE 518
+L++GAG V + L ++ + +T+ KE + + +Q DA+
Sbjct: 2 MKILVIGAGGVGSVVAHKLAQNGDGEVTIADRSKEKCARIAELIGGKVEALQVDAADV-- 59
Query: 519 EHNFSPAVQAAI 530
A+ A I
Sbjct: 60 -----DALVALI 66
>gnl|CDD|240664 cd12188, SDH, Saccharopine Dehydrogenase NAD-binding and catalytic
domains. Saccharopine Dehydrogenase (SDH) catalyzes the
final step in the reversible NAD-dependent oxidative
deamination of saccharopine to alpha-ketoglutarate and
lysine, in the alpha-aminoadipate pathway of L-lysine
biosynthesis. SHD is structurally related to formate
dehydrogenase and similar enzymes, having a 2-domain
structure in which a Rossmann-fold NAD(P)-binding domain
is inserted within the linear sequence of a catalytic
domain of related structure.
Length = 351
Score = 129 bits (326), Expect = 2e-32
Identities = 101/409 (24%), Positives = 150/409 (36%), Gaps = 93/409 (22%)
Query: 16 ERRAALAPSNVKRLVRSGVKVIVQPSNRRAYPVQAYANAGAIIQEDIS-----EASIIFG 70
ERR AL P+ K+L+ +G KV V+ S +R +P + Y G + S + +II G
Sbjct: 13 ERRTALTPTTAKKLLDAGFKVTVERSPQRIFPDEEYEAVGCELVPAGSWVNAPKDAIILG 72
Query: 71 VKQVPVDLLLPNKTYCMFSHTIKAQETNMPLLDAILQKNIRLVDYEKLVDDEGNRVVAFG 130
+K++P D + F+H K Q +L + L+D E LVDD+G RV AFG
Sbjct: 73 LKELPEDTFPLPHRHIYFAHAYKGQAGWKDVLSRFARGGGTLLDLEYLVDDDGRRVAAFG 132
Query: 131 KYAGVAGMVNILHGLGLRLLA--LGHHTPFMHIGPAHNYRNSMMARQAIRDAGYEISLGN 188
+AG AG LGL A P Y N ++ A L
Sbjct: 133 YWAGFAGA-----ALGLLAWAHQQLGPVTL---PPVSPYPNEEALVADVKKA-----LAT 179
Query: 189 MPKSIGPLTIVFTGSGNVSQGAQEIFQELPYEYVPPEMLQKVAEHGSNTKIYACEVRRRN 248
+ P +V G GA ++ + EV + +
Sbjct: 180 GGRK--PRALVIGALGRCGSGAVDLLEAA-----------------------GIEVTKWD 214
Query: 249 YLERIKGGGYDYQEYNENPSLYRSLFASKIAPYASIIINGIYWAVGSPKLLTLPDAKNLL 308
E GG + E + I +N IY + P LT L
Sbjct: 215 MAETKAGG--PFPEILD----------------HDIFVNCIYLSKPIPPFLTPEM---LQ 253
Query: 309 RPNHMPWLPTSDGAPPLPHRLLGICDISADPGGS---IEFMNECTTIDTPFCLYDADSNK 365
P RL I D+S DP I + TT D P
Sbjct: 254 APG---------------RRLRVIGDVSCDPTNPYNPIPIYDVATTFDKPTLRVPTG--- 295
Query: 366 DTKSFKGPGVLVCSIDNMPTQLPMEATDFFGNLVFPYALDILQSDASKP 414
GP + V +ID++P+ LP E+++ F N + P L++ + D +
Sbjct: 296 ------GPPLDVIAIDHLPSLLPRESSEDFSNDLLPSLLELAERDTAGV 338
Score = 42.6 bits (101), Expect = 0.001
Identities = 17/27 (62%), Positives = 20/27 (74%)
Query: 918 LVDYEKLVDDEGNRVVAFGKYAGVAGM 944
L+D E LVDD+G RV AFG +AG AG
Sbjct: 114 LLDLEYLVDDDGRRVAAFGYWAGFAGA 140
>gnl|CDD|218508 pfam05222, AlaDh_PNT_N, Alanine dehydrogenase/PNT, N-terminal
domain. This family now also contains the lysine
2-oxoglutarate reductases.
Length = 135
Score = 113 bits (285), Expect = 3e-29
Identities = 41/140 (29%), Positives = 64/140 (45%), Gaps = 14/140 (10%)
Query: 6 AIRREDQSVWERRAALAPSNVKRLVRSGVKVIVQPSN--RRAYPVQAYANAGAIIQ---- 59
+ +E ERR AL P+ VK+LV+ G +V+V+ + +AY AGA I
Sbjct: 1 GVPKE-IKPGERRVALTPAGVKKLVKLGHEVLVESGAGLGAGFSDEAYEAAGAEIVDTAA 59
Query: 60 EDISEASIIFGVKQVP---VDLLLPNKTYCMFSHTIKAQETNMPLLDAILQKNIRLVDYE 116
E ++A +I VK+ + LL P +T F H N LL+A+ K + + YE
Sbjct: 60 EVWAQADLILKVKEPSPEELALLRPGQTLITFLHPAA----NPELLEALAAKGVTAIAYE 115
Query: 117 KLVDDEGNRVVAFGKYAGVA 136
+ + A A +A
Sbjct: 116 TVPRIRAQSLDALSSMANIA 135
Score = 31.2 bits (72), Expect = 1.3
Identities = 5/28 (17%), Positives = 10/28 (35%)
Query: 915 NIRLVDYEKLVDDEGNRVVAFGKYAGVA 942
+ + YE + + A A +A
Sbjct: 108 GVTAIAYETVPRIRAQSLDALSSMANIA 135
>gnl|CDD|214967 smart01003, AlaDh_PNT_N, Alanine dehydrogenase/PNT, N-terminal
domain. Alanine dehydrogenase catalyzes the
NAD-dependent reversible reductive amination of pyruvate
into alanine.
Length = 133
Score = 104 bits (262), Expect = 4e-26
Identities = 38/136 (27%), Positives = 63/136 (46%), Gaps = 10/136 (7%)
Query: 6 AIRREDQSVWERRAALAPSNVKRLVRSGVKVIVQPSN--RRAYPVQAYANAGAIIQED-- 61
+ +E + ERR AL P+ VK+LV+ G +V+V+ + +AY AGA I +
Sbjct: 1 GVPKEIKP-GERRVALTPAGVKKLVKLGHEVLVESGAGEGAGFSDEAYEAAGAEIVDTAE 59
Query: 62 -ISEASIIFGVKQV-PVDLLLPNKTYCMFSHTIKAQETNMPLLDAILQKNIRLVDYEKLV 119
++A II VK+ P +L L + +F + N LL+A+ K + + YE +
Sbjct: 60 VWADADIILKVKEPSPEELALLREGQILFGY--LHPAANPELLEALAAKGVTAIAYETVP 117
Query: 120 -DDEGNRVVAFGKYAG 134
+ A A
Sbjct: 118 RISRAQSLDALSSMAE 133
>gnl|CDD|216396 pfam01262, AlaDh_PNT_C, Alanine dehydrogenase/PNT, C-terminal
domain. This family now also contains the lysine
2-oxoglutarate reductases.
Length = 150
Score = 96.5 bits (241), Expect = 3e-23
Identities = 34/204 (16%), Positives = 53/204 (25%), Gaps = 54/204 (26%)
Query: 176 AIRDAGYEISLGNMPKSIGPLTIVFTGSGNVSQGAQEIFQELPYEYVPPEMLQKVAEHGS 235
+ G L + P +V G G V GA + L ++ + E
Sbjct: 1 LEKYGGGFGMLLGGAGGVPPAKVVVIGGGVVGLGAAATAKGLGAPVTILDVRPERLEQLD 60
Query: 236 NTKIYACEVRRRNYLERIKGGGYDYQEYNENPSLYRSLFASKIAPYASIIINGIYWAVGS 295
+ E A IA +I + +
Sbjct: 61 SLFAEFVETD---------------------IFSNCEYLAEAIAEADLVIGTVLIPGARA 99
Query: 296 PKLLTLPDAKNLLRPNHMPWLPTSDGAPPLPHRLLGICDISADPGGSIEFMNECTTIDTP 355
PKL+T K + G+ I D++ D GG IE T D
Sbjct: 100 PKLVTREMVKTMKP-----------GSV--------IVDVAIDQGGCIETTRPTTHSD-- 138
Query: 356 FCLYDADSNKDTKSFKGPGVLVCS 379
++ G GV+
Sbjct: 139 ------------PTYVGDGVVHYG 150
Score = 44.8 bits (107), Expect = 4e-05
Identities = 10/43 (23%), Positives = 14/43 (32%)
Query: 982 AIRDAGYEISLGNMPKSIGPLTIVFTGSGNVSQGAQEIFQELP 1024
+ G L + P +V G G V GA + L
Sbjct: 1 LEKYGGGFGMLLGGAGGVPPAKVVVIGGGVVGLGAAATAKGLG 43
>gnl|CDD|240621 cd01620, Ala_dh_like, Alanine dehydrogenase and related
dehydrogenases. Alanine dehydrogenase/Transhydrogenase,
such as the hexameric L-alanine dehydrogenase of
Phormidium lapideum, contain 2 Rossmann fold-like
domains linked by an alpha helical region. Related
proteins include Saccharopine Dehydrogenase (SDH),
bifunctional lysine ketoglutarate reductase
/saccharopine dehydrogenase enzyme,
N(5)-(carboxyethyl)ornithine synthase, and Rubrum
transdehydrogenase. Alanine dehydrogenase (L-AlaDH)
catalyzes the NAD-dependent conversion of pyrucate to
L-alanine via reductive amination. Transhydrogenases
found in bacterial and inner mitochondrial membranes
link NAD(P)(H)-dependent redox reactions to proton
translocation. The energy of the proton electrochemical
gradient (delta-p), generated by the respiratory
electron transport chain, is consumed by
transhydrogenase in NAD(P)+ reduction. Transhydrogenase
is likely involved in the regulation of the citric acid
cycle. Rubrum transhydrogenase has 3 components, dI,
dII, and dIII. dII spans the membrane while dI and dIII
protrude on the cytoplasmic/matirx side. DI contains 2
domains with Rossmann folds, linked by a long alpha
helix, and contains a NAD binding site. Two dI
polypeptides (represented in this sub-family)
spontaneously form a heterotrimer with one dIII in the
absence of dII. In the heterotrimer, both dI chains may
bind NAD, but only one is well-ordered. dIII also binds
a well-ordered NADP, but in a different orientation than
classical Rossmann domains.
Length = 317
Score = 90.5 bits (225), Expect = 2e-19
Identities = 89/413 (21%), Positives = 151/413 (36%), Gaps = 107/413 (25%)
Query: 5 IAIRREDQSVWERRAALAPSNVKRLVRSGVKVIVQ--PSNRRAYPVQAYANAGAII---- 58
+ +E E R AL PS VK+LV +G KV ++ + + + Y AGA I
Sbjct: 2 LGFPKE-TKNNEFRVALTPSFVKKLVANGFKVYIETGAGSGAGFSDEDYLQAGAQIVPAA 60
Query: 59 QEDISEASIIFGVKQVP---VDLLLPNKTYCMFSHTIKAQETNMPLLDAILQKNIRLVDY 115
++ A II +K+ DL+ + F H TN +++ +++K +
Sbjct: 61 SKEAYSADIIVKLKEPEFAEYDLIKKGQLLVTFLHA----ATNRGVVEVLMRKKLTAYAL 116
Query: 116 EKLVDDEGNRVVAFGKYAGVAGMVNILHGLGLRLLALGHHTPFMHIGPAHNYRNSMMARQ 175
E L +D R+ AG AG+ LG L AR
Sbjct: 117 EDLENDFRPRLAPNSNIAGYAGVQ-----LGAYEL----------------------ARI 149
Query: 176 AIRDAGYEISLGNMPKSIGPLTIVFTGSGNVSQGAQEIFQELPYEYVPPEMLQKVAEHGS 235
G + P ++ G+G V GA +I ++L G+
Sbjct: 150 QGGRMGGA-------GGVPPAKVLIIGAGVVGLGAAKIAKKL----------------GA 186
Query: 236 NTKIYACEVRRRNYLERIKGGGYDYQEYNENPSLYRSLFASKIAPYASIIINGIYWAVGS 295
N +Y + + +E + G Y + E K I+IN I
Sbjct: 187 NVLVYDIKEEKLKGVETLGGSRLRYSQKEE---------LEKELKQTDILINAILVDGPR 237
Query: 296 -PKLLTLPDAKNLLRPNHMPWLPTSDGAPPLPHRLLGICDISADPGGSIEFMNECTTIDT 354
P L+ + L+ P + I D++AD GG+ E T+I T
Sbjct: 238 APILIM----EELVGPMK-------------RGAV--IVDLAADQGGNDE-----TSIPT 273
Query: 355 PFCLYDADSNKDTKSFKGPGVLVCSIDNMPTQLPMEATDFFGNLVFPYALDIL 407
+ +++ GV++ +DNMP+ +P EA++ + PY + +
Sbjct: 274 ---------TEGVPTYEVDGVVIYGVDNMPSLVPREASELLSKNLLPYLVKLA 317
>gnl|CDD|214966 smart01002, AlaDh_PNT_C, Alanine dehydrogenase/PNT, C-terminal
domain. Alanine dehydrogenase catalyzes the
NAD-dependent reversible reductive amination of pyruvate
into alanine.
Length = 149
Score = 82.9 bits (206), Expect = 2e-18
Identities = 37/186 (19%), Positives = 57/186 (30%), Gaps = 44/186 (23%)
Query: 176 AIRDAGYEISLGNMPKSIGPLTIVFTGSGNVSQGAQEIFQELPYEYVPPEMLQKVAEHGS 235
+ G L + P +V G+G V GA + L G+
Sbjct: 1 LEKFGGGFGMLLTGAGGVPPAKVVVIGAGVVGLGAAATAKGL----------------GA 44
Query: 236 NTKIYACEVRRRNYLERIKGGGYDYQEYNENPSLYRSLFASKIAPYASIIINGIYW-AVG 294
+ R LE + G + + A ++I +
Sbjct: 45 EVTVLDVRPARLRQLESLLGARFTTLYSQAE-------LLEEAVKEADLVIGAVLIPGAK 97
Query: 295 SPKLLTLPDAKNLLRPNHMPWLPTSDGAPPLPHRLLGICDISADPGGSIEFMNECTTIDT 354
+PKL+T K++ P S I D++AD GG IE TT D
Sbjct: 98 APKLVTREMVKSM--------KPGS-----------VIVDVAADQGGCIETS-RPTTHDD 137
Query: 355 PFCLYD 360
P + D
Sbjct: 138 PTYVVD 143
Score = 40.6 bits (96), Expect = 0.001
Identities = 10/43 (23%), Positives = 15/43 (34%)
Query: 982 AIRDAGYEISLGNMPKSIGPLTIVFTGSGNVSQGAQEIFQELP 1024
+ G L + P +V G+G V GA + L
Sbjct: 1 LEKFGGGFGMLLTGAGGVPPAKVVVIGAGVVGLGAAATAKGLG 43
>gnl|CDD|240629 cd05304, Rubrum_tdh, Rubrum transdehydrogenase NAD-binding and
catalytic domains. Transhydrogenases found in bacterial
and inner mitochondrial membranes link
NAD(P)(H)-dependent redox reactions to proton
translocation. The energy of the proton electrochemical
gradient (delta-p), generated by the respiratory
electron transport chain, is consumed by
transhydrogenase in NAD(P)+ reduction. Transhydrogenase
is likely involved in the regulation of the citric acid
cycle. Rubrum transhydrogenase has 3 components, dI,
dII, and dIII. dII spans the membrane while dI and dIII
protrude on the cytoplasmic/matrix side. DI contains 2
domains in Rossmann-like folds, linked by a long alpha
helix, and contains a NAD binding site. Two dI
polypeptides (represented in this sub-family)
spontaneously form a heterotrimer with dIII in the
absence of dII. In the heterotrimer, both dI chains may
bind NAD, but only one is well-ordered. dIII also binds
a well-ordered NADP, but in a different orientation than
a classical Rossmann domain.
Length = 363
Score = 51.3 bits (124), Expect = 2e-06
Identities = 34/118 (28%), Positives = 55/118 (46%), Gaps = 17/118 (14%)
Query: 3 KVIAIRREDQSVWERRAALAPSNVKRLVRSGVKVIVQP-SNRRA-YPVQAYANAGAII-- 58
I + +E ERR AL P VK+LV+ G +V+V+ + A + +AY AGA I
Sbjct: 1 MTIGVPKETAPG-ERRVALTPETVKKLVKLGFEVLVESGAGEAAGFSDEAYEEAGAEIVS 59
Query: 59 -QEDISEASIIFGVKQVP----VDLLLPNKTY-CMFSHTIKAQETNMPLLDAILQKNI 110
E++++A I+ V + P V LL N L++A+ +K +
Sbjct: 60 DAEELAQADIVLKV-RPPSEEEVALLKEGAVLIGFLDPA-----QNPELVEALAKKGV 111
>gnl|CDD|240658 cd12181, ceo_syn, N(5)-(carboxyethyl)ornithine synthase.
N(5)-(carboxyethyl)ornithine synthase (ceo_syn)
catalyzes the NADP-dependent conversion of
N5-(L-1-carboxyethyl)-L-ornithine to L-ornithine +
pyruvate. Ornithine plays a key role in the urea cycle,
which in mammals is used in arginine biosynthesis, and
is a precursor in polyamine synthesis. ceo_syn is
related to the NAD-dependent L-alanine dehydrogenases.
Like formate dehydrogenase and related enzymes, ceo_syn
is comprised of 2 domains connected by a long alpha
helical stretch, each resembling a Rossmann fold
NAD-binding domain. The NAD-binding domain is inserted
within the linear sequence of the more divergent
catalytic domain. These ceo_syn proteins have a
partially conserved NAD-binding motif and active site
residues that are characteristic of related enzymes such
as Saccharopine Dehydrogenase.
Length = 295
Score = 50.3 bits (121), Expect = 2e-06
Identities = 76/396 (19%), Positives = 129/396 (32%), Gaps = 131/396 (33%)
Query: 16 ERRAALAPSNVKRL-VRSGVKVIVQPS--NRRAYPVQAYANAGAII---QEDISEASIIF 69
E+R L P++++R+ +R ++ + R + YA GA I +E +++ +I
Sbjct: 13 EKRVPLLPADLERIPLRE--QLYFEEGYGERLGISDEEYAALGAGIVSREEILAKCDVIC 70
Query: 70 GVKQVPVDL--LLPNKTYCMFSHTIKAQETNMPLLDAILQKNIRLVDYEKLVDDEGNRVV 127
K D +L + + H ++ +E +D K + L+ +E + +
Sbjct: 71 DPKPGDADYLEILEGQILWGWVHCVQDKEITQLAID----KKLTLIAWEDMFEWSKIGRH 126
Query: 128 AFGKYAGVAGMVNILHGLGLRLLALGHHTPFMHIGPAHNYRNSMMARQAIRDAGYEISLG 187
F K +AG +LH L L G
Sbjct: 127 VFYKNNELAGYAAVLHALQLY--------------------------------------G 148
Query: 188 NMPKSIGPLTIVFTGSGNVSQGAQEIFQELPYEYVPPEMLQKVAEHGSNTKIYACEVRRR 247
P + G GN ++GA I A
Sbjct: 149 ITPYR--QTKVAVLGFGNTARGA----------------------------IRA------ 172
Query: 248 NYLERIKGGGYDYQEYNENPSLYRSLFASKIAPYASIIINGIYWAVGSPK-LLTLPDAKN 306
+K GG D Y +LF +++ Y II+N I P ++ D K
Sbjct: 173 -----LKLGGADVTVYTRRTE---ALFKEELSEY-DIIVNCILQDTDRPDHIIYEEDLKR 223
Query: 307 LLRPNHMPWLPTSDGAPPLPHRLLGICDISADPGGSIEFMNECTTIDTPFCLYDADSNKD 366
L +P + I D+S D G IEF + TT D P
Sbjct: 224 L-KPGAL------------------IIDVSCDEGMGIEF-AKPTTFDDP----------- 252
Query: 367 TKSFKGPGVLVCSIDNMPTQLPMEATDFFGNLVFPY 402
+K G+ ++D+ P+ A+ + PY
Sbjct: 253 --IYKVDGIDYYAVDHTPSLFYRSASRSISKALAPY 286
>gnl|CDD|240630 cd05305, L-AlaDH, Alanine dehydrogenase NAD-binding and catalytic
domains. Alanine dehydrogenase (L-AlaDH) catalyzes the
NAD-dependent conversion of pyruvate to L-alanine via
reductive amination. Like formate dehydrogenase and
related enzymes, L-AlaDH is comprised of 2 domains
connected by a long alpha helical stretch, each
resembling a Rossmann fold NAD-binding domain. The
NAD-binding domain is inserted within the linear
sequence of the more divergent catalytic domain. Ligand
binding and active site residues are found in the cleft
between the subdomains. L-AlaDH is typically hexameric
and is critical in carbon and nitrogen metabolism in
micro-organisms.
Length = 359
Score = 48.2 bits (116), Expect = 2e-05
Identities = 36/122 (29%), Positives = 63/122 (51%), Gaps = 23/122 (18%)
Query: 16 ERRAALAPSNVKRLVRSGVKVIVQ-----PSNRRAYPVQAYANAGAII---QEDI-SEAS 66
E R AL P+ V LV +G +V+V+ S + + Y+ AGA I E++ ++A
Sbjct: 13 ENRVALTPAGVAELVAAGHEVLVEKGAGLGSG---FSDEEYSEAGAEIVPTAEEVWAKAD 69
Query: 67 IIFGVKQVPV----DLLLPNKT-YCMFSHTIKAQETNMPLLDAILQKNIRLVDYEKLVDD 121
+I VK+ P+ DLL + + H + A + L +A+L+K + + YE + D+
Sbjct: 70 LIVKVKE-PLPEEYDLLREGQILFTYL-H-LAADK---ELTEALLEKKVTAIAYETIEDE 123
Query: 122 EG 123
+G
Sbjct: 124 DG 125
Score = 33.9 bits (79), Expect = 0.54
Identities = 29/106 (27%), Positives = 43/106 (40%), Gaps = 19/106 (17%)
Query: 332 ICDISADPGGSIEFMNECTTIDTPFCLYDADSNKDTKSFKGPGVLVCSIDNMPTQLPMEA 391
I D++ D GG E TT D P ++ GV+ + NMP +P +
Sbjct: 264 IVDVAIDQGGCFETS-RPTTHDNP-------------TYVVHGVIHYCVPNMPGAVPRTS 309
Query: 392 TDFFGNLVFPYALDILQSDASKPIEEH-NFSPAVQAAIIASNGELT 436
T N PY L + A+K +EE P + + G+LT
Sbjct: 310 TLALTNATLPYLLKL----ANKGLEEALLEDPGLAKGLNTYKGKLT 351
>gnl|CDD|223758 COG0686, Ald, Alanine dehydrogenase [Amino acid transport and
metabolism].
Length = 371
Score = 42.7 bits (101), Expect = 9e-04
Identities = 30/116 (25%), Positives = 54/116 (46%), Gaps = 9/116 (7%)
Query: 16 ERRAALAPSNVKRLVRSGVKVIVQPS--NRRAYPVQAYANAGAIIQED----ISEASIIF 69
E R AL P++V+ LV G +V+V+ + Y AGA I +EA ++
Sbjct: 13 ENRVALTPASVRELVNHGHEVLVETGAGAGSGFDDDDYEAAGAKIVATAAEVWAEADMVV 72
Query: 70 GVKQ-VPVDLLLPNKTYCMFSHTIKAQETNMPLLDAILQKNIRLVDYEKLVDDEGN 124
VK+ +P + + +F++ A L +A+L+ + + YE + +GN
Sbjct: 73 KVKEPLPSEYPYLREGQILFTYLHLAASP--ELTEALLKSGVTAIAYETVQLPDGN 126
Score = 35.0 bits (81), Expect = 0.25
Identities = 29/105 (27%), Positives = 46/105 (43%), Gaps = 17/105 (16%)
Query: 332 ICDISADPGGSIEFMNECTTIDTPFCLYDADSNKDTKSFKGPGVLVCSIDNMPTQLPMEA 391
I D++ D GG E + TT D P Y+ D GV+ + NMP +P +
Sbjct: 264 IVDVAIDQGGCFETSHP-TTHDDP--TYEVD-----------GVVHYGVANMPGAVPRTS 309
Query: 392 TDFFGNLVFPYALDILQSDASKPIEEHNFSPAVQAAIIASNGELT 436
T N PY L + K +++ +PA+ + NG++T
Sbjct: 310 TQALTNATLPYILQLADKGLLKALKD---NPALAKGLNTYNGKVT 351
>gnl|CDD|225826 COG3288, PntA, NAD/NADP transhydrogenase alpha subunit [Energy
production and conversion].
Length = 356
Score = 41.6 bits (98), Expect = 0.002
Identities = 25/71 (35%), Positives = 36/71 (50%), Gaps = 5/71 (7%)
Query: 5 IAIRREDQSVWERRAALAPSNVKRLVRSGVKVIVQP--SNRRAYPVQAYANAGAII--QE 60
I + +E E R A P VK+LV+ G V+V+ R ++P AY AGA I +
Sbjct: 2 IGVPKE-SLANETRVAATPETVKKLVKLGFDVVVESGAGLRASFPDAAYVAAGATIGAAD 60
Query: 61 DISEASIIFGV 71
+ +A II V
Sbjct: 61 AVWQADIILKV 71
>gnl|CDD|236507 PRK09424, pntA, NAD(P) transhydrogenase subunit alpha; Provisional.
Length = 509
Score = 38.7 bits (91), Expect = 0.019
Identities = 31/113 (27%), Positives = 49/113 (43%), Gaps = 12/113 (10%)
Query: 5 IAIRREDQSVWERRAALAPSNVKRLVRSGVKVIVQPS--NRRAYPVQAYANAGAII--QE 60
I I RE E R A P V++L++ G +V+V+ ++ AY AGA I
Sbjct: 3 IGIPRERLP-GETRVAATPKTVEQLLKLGFEVVVESGAGQLASFDDAAYREAGAEIVDGA 61
Query: 61 DISEASIIFGVKQVP---VDLLLPNKTYCMFSHTIKAQETNMPLLDAILQKNI 110
+ ++ II V + LL T + S AQ N LL+ + + +
Sbjct: 62 AVWQSDIILKVNAPSDDEIALLREGAT--LVSFIWPAQ--NPELLEKLAARGV 110
>gnl|CDD|129609 TIGR00518, alaDH, alanine dehydrogenase. The family of known
L-alanine dehydrogenases includes representatives from
the Proteobacteria, Firmicutes, and Cyanobacteria, all
with about 50 % identity or better. An outlier to this
group in both sequence and gap pattern is the homolog
from Helicobacter pylori, an epsilon division
Proteobacteria, which must be considered a putative
alanine dehydrogenase. Related proteins include
saccharopine dehydrogenase and the N-terminal half of
the NAD(P) transhydrogenase alpha subunit. All of these
related proteins bind NAD and/or NADP [Energy
metabolism, Amino acids and amines].
Length = 370
Score = 38.0 bits (88), Expect = 0.024
Identities = 24/105 (22%), Positives = 38/105 (36%), Gaps = 17/105 (16%)
Query: 332 ICDISADPGGSIEFMNECTTIDTPFCLYDADSNKDTKSFKGPGVLVCSIDNMPTQLPMEA 391
I D++ D GG +E TT D P ++ V+ + NMP +P +
Sbjct: 263 IVDVAIDQGGCVETS-RPTTHDQP-------------TYAVHDVVHYCVANMPGAVPKTS 308
Query: 392 TDFFGNLVFPYALDILQSDASKPIEEHNFSPAVQAAIIASNGELT 436
T N PY L++ +PA+ + G L
Sbjct: 309 TYALTNATMPYVLELANHGWRAACRS---NPALAKGLNTHEGALL 350
Score = 34.9 bits (80), Expect = 0.25
Identities = 28/107 (26%), Positives = 45/107 (42%), Gaps = 8/107 (7%)
Query: 16 ERRAALAPSNVKRLVRSGVKVIVQPSN--RRAYPVQAYANAGAIIQEDISE---ASIIFG 70
E R AL P+ V L G +V+V+ + AY AGA + + A ++
Sbjct: 13 EFRVALTPAGVAELTSRGHEVLVEAGAGEGSGFTDAAYKAAGAELVATAKQVWDAELVLK 72
Query: 71 VKQ-VPVDLLLPNKTYCMFSHTIKAQETNMPLLDAILQKNIRLVDYE 116
VK+ +P + +F++ A E L DA+L + YE
Sbjct: 73 VKEPLPEEYGYLRHGQILFTYLHLAAERA--LTDALLDSGTTAIAYE 117
>gnl|CDD|240262 PTZ00088, PTZ00088, adenylate kinase 1; Provisional.
Length = 229
Score = 35.2 bits (81), Expect = 0.16
Identities = 20/62 (32%), Positives = 33/62 (53%), Gaps = 3/62 (4%)
Query: 568 VLLLGAGYVSR-PLIEYLHRDENI-HITLGSLLKEDIDKVTNEFGRVEATLIDVNNGGSD 625
++L GA V + E L + EN+ HI +G++L+E+I T G+ ++ N D
Sbjct: 9 IVLFGAPGVGKGTFAEILSKKENLKHINMGNILREEIKAKTT-IGKEIQKVVTSGNLVPD 67
Query: 626 NL 627
NL
Sbjct: 68 NL 69
>gnl|CDD|107260 cd01575, PBP1_GntR, Ligand-binding domain of DNA transcription
repressor GntR specific for gluconate, a member of the
LacI-GalR family of bacterial transcription regulators.
This group represents the ligand-binding domain of DNA
transcription repressor GntR specific for gluconate, a
member of the LacI-GalR family of bacterial
transcription regulators. The ligand-binding domain of
GntR is structurally homologous to the periplasmic
sugar-binding domain of ABC-type transporters and both
domains contain the type I periplasmic binding
protein-like fold. The LacI-GalR family repressors are
composed of two functional domains: an N-terminal HTH
(helix-turn-helix) domain, which is responsible for the
DNA-binding specificity, and a C-terminal ligand-binding
domain, which is homologous to the type I periplasmic
binding proteins. As also observed in the periplasmic
binding proteins, the C-terminal domain of the bacterial
transcription repressor undergoes a conformational
change upon ligand binding, which in turn changes the
DNA binding affinity of the repressor.
Length = 268
Score = 34.4 bits (80), Expect = 0.29
Identities = 31/118 (26%), Positives = 44/118 (37%), Gaps = 22/118 (18%)
Query: 738 SWSPRGVLL----NTLSSAKYLQNS--QVVDIPAGGELMRTAR-PLDFLPGFSFEGFANR 790
S P G++L +T + + L+ + VV E+M P+D GFS A R
Sbjct: 53 SRRPAGLILTGLEHTERTRQLLRAAGIPVV------EIMDLPPDPIDMAVGFSHAE-AGR 105
Query: 791 DSLRY--AQLY-NIA--AEAHTVVRGTLRYRGFVDAMQAIQKLGLLDLKEHPALHPSG 843
R+ A+ Y I R R GF A++A GL PS
Sbjct: 106 AMARHLLARGYRRIGFLGARMDDTRAQQRLEGFRAALRA---AGLDPPLVVTTPEPSS 160
>gnl|CDD|218503 pfam05214, Baculo_p33, Baculovirus P33. This family consists of a
series of Baculovirus P33 protein homologues of unknown
function.
Length = 250
Score = 34.2 bits (79), Expect = 0.33
Identities = 21/85 (24%), Positives = 35/85 (41%), Gaps = 17/85 (20%)
Query: 1021 QELPYEELVCTLLGLSTSDIFYENLKNIVADKVGNTGLEALEA----------------L 1064
QE EEL L L SDI E K++ +K+ L AL+ L
Sbjct: 57 QETEIEELKEWALSLG-SDIKLEQFKDMYIEKLEELNLRALQPKKYSFTFSTIWDSIHFL 115
Query: 1065 GLLNDDIIVQKQNTPIDTLSHFLRQ 1089
L+ DD+++ + + ++ L+
Sbjct: 116 CLIGDDMVLNRDKLDYELVTAQLKN 140
Score = 33.0 bits (76), Expect = 0.78
Identities = 14/68 (20%), Positives = 28/68 (41%), Gaps = 16/68 (23%)
Query: 861 SDIFYENLKNIVADKVGNTGLEALEA----------------LGLLNDDIIVQKQNTPID 904
SDI E K++ +K+ L AL+ L L+ DD+++ + +
Sbjct: 73 SDIKLEQFKDMYIEKLEELNLRALQPKKYSFTFSTIWDSIHFLCLIGDDMVLNRDKLDYE 132
Query: 905 TLSHFLRQ 912
++ L+
Sbjct: 133 LVTAQLKN 140
>gnl|CDD|224350 COG1433, COG1433, Uncharacterized conserved protein [Function
unknown].
Length = 121
Score = 32.3 bits (74), Expect = 0.48
Identities = 23/99 (23%), Positives = 38/99 (38%), Gaps = 16/99 (16%)
Query: 592 ITLGSLLKEDIDKVTNEFGRVEA-TLIDVNNGGSDNLSGLVRSADLVVSLLPYNLHHH-- 648
I + KV+ FGR T++DV +G N+ V+ +
Sbjct: 3 IAIPVSDGGLDSKVSPHFGRAPYFTIVDVEDGEIKNVE--------VIENPAASAEKGAG 54
Query: 649 --VAEFCIQHGKNLVTASYLSPEMMALHERAASAGITVL 685
+AE + G ++V AS + P + +AGI V
Sbjct: 55 IRIAELLVDEGVDVVIASNIGPNAYNALK---AAGIKVY 90
>gnl|CDD|187569 cd05259, PCBER_SDR_a, phenylcoumaran benzylic ether reductase
(PCBER) like, atypical (a) SDRs. PCBER and
pinoresinol-lariciresinol reductases are NADPH-dependent
aromatic alcohol reductases, and are atypical members of
the SDR family. Other proteins in this subgroup are
identified as eugenol synthase. These proteins contain
an N-terminus characteristic of NAD(P)-binding proteins
and a small C-terminal domain presumed to be involved in
substrate binding, but they do not have the conserved
active site Tyr residue typically found in SDRs.
Numerous other members have unknown functions. The
glycine rich NADP-binding motif in this subgroup is of 2
forms: GXGXXG and G[GA]XGXXG; it tends to be atypical
compared with the forms generally seen in classical or
extended SDRs. The usual SDR active site tetrad is not
present, but a critical active site Lys at the usual SDR
position has been identified in various members, though
other charged and polar residues are found at this
position in this subgroup. Atypical SDR-related proteins
retain the Rossmann fold of the SDRs, but have limited
sequence identity and generally lack the catalytic
properties of the archetypical members. Atypical SDRs
include biliverdin IX beta reductase (BVR-B,aka flavin
reductase), NMRa (a negative transcriptional regulator
of various fungi), progesterone 5-beta-reductase like
proteins, phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. In addition to the
Rossmann fold core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 282
Score = 33.0 bits (76), Expect = 0.84
Identities = 16/77 (20%), Positives = 32/77 (41%), Gaps = 4/77 (5%)
Query: 567 NVLLLGA-GYVSRPLIEYLHRDENIHITLGSLLKEDIDKVTNEFGRVEATLIDVNNGGSD 625
+ + GA G + P++ L +T +L +NEF ++ V+ +
Sbjct: 1 KIAIAGATGTLGGPIVSALLASPGFTVT---VLTRPSSTSSNEFQPSGVKVVPVDYASHE 57
Query: 626 NLSGLVRSADLVVSLLP 642
+L ++ D V+S L
Sbjct: 58 SLVAALKGVDAVISALG 74
>gnl|CDD|234595 PRK00048, PRK00048, dihydrodipicolinate reductase; Provisional.
Length = 257
Score = 32.8 bits (76), Expect = 0.99
Identities = 31/124 (25%), Positives = 56/124 (45%), Gaps = 19/124 (15%)
Query: 567 NVLLLGA-GYVSRPLIEYLHRDENIHITLGSLLKEDIDKVTNEFGRVEATLIDVNNGGSD 625
V + GA G + R LIE + E++ + +D+ + A + + +D
Sbjct: 3 KVAVAGASGRMGRELIEAVEAAEDLELVAA------VDRPGSPLVGQGALGVAI----TD 52
Query: 626 NLSGLVRSADLVVSL-LPYNLHHHVAEFCIQHGKNLV---TASYLSPEMMALHERAASAG 681
+L ++ AD+++ P ++ EF ++HGK LV T + E +A E AA
Sbjct: 53 DLEAVLADADVLIDFTTPEATLENL-EFALEHGKPLVIGTTG--FTEEQLAELEEAA-KK 108
Query: 682 ITVL 685
I V+
Sbjct: 109 IPVV 112
>gnl|CDD|236522 PRK09450, cyaA, adenylate cyclase; Provisional.
Length = 830
Score = 32.2 bits (74), Expect = 2.0
Identities = 24/120 (20%), Positives = 41/120 (34%), Gaps = 14/120 (11%)
Query: 167 YRNS---MMAR-----QAIRDAGYEISLGNMPKSIGPLTI-VFTGSGNVSQGAQEIFQEL 217
YRNS + QA+ DA I + P ++ VF S ++ + Q+L
Sbjct: 600 YRNSWNEVRTLHFEGEQALLDALKTILGKMHQDAAPPPSVEVFCYSQHLRGLIRTRVQQL 659
Query: 218 PYEYVPPEMLQKVAEHGSNTKIYACEVRRRNYLERIKGGGYDYQEYNENPSLYRSLFASK 277
E + E+ A V + + + G Q+ Y +L +K
Sbjct: 660 VSECI--ELRLGSTRQ---EPGKALRVAGQTWGLFFERLGVSVQKLENAVEFYGALSENK 714
>gnl|CDD|172450 PRK13940, PRK13940, glutamyl-tRNA reductase; Provisional.
Length = 414
Score = 31.5 bits (71), Expect = 2.6
Identities = 19/75 (25%), Positives = 34/75 (45%), Gaps = 7/75 (9%)
Query: 565 SRNVLLLGAGYVSRPLIEYLHRDENIHITLGSLLKEDIDKVTNEFGRVEATLIDVNNGGS 624
S+NVL++GAG L ++ I L + E K+T+ F A +
Sbjct: 181 SKNVLIIGAGQTGELLFRHVTALAPKQIMLANRTIEKAQKITSAFRNASAHYL------- 233
Query: 625 DNLSGLVRSADLVVS 639
L L++ AD++++
Sbjct: 234 SELPQLIKKADIIIA 248
>gnl|CDD|223552 COG0476, ThiF, Dinucleotide-utilizing enzymes involved in
molybdopterin and thiamine biosynthesis family 2
[Coenzyme metabolism].
Length = 254
Score = 31.2 bits (71), Expect = 2.9
Identities = 26/123 (21%), Positives = 45/123 (36%), Gaps = 29/123 (23%)
Query: 568 VLLLGAGYVSRPLIEYLHRDE--NIHI------TLGSLLK------EDIDK----VT--- 606
VL++GAG + P +YL + I L +L + D+ K V
Sbjct: 33 VLVVGAGGLGSPAAKYLALAGVGKLTIVDFDTVELSNLQRQFLFTEADVGKPKAEVAAKA 92
Query: 607 ----NEFGRVEATLIDVNNGGSDNLSGLVRSADLVVS-LLPYNLHHHVAEFCIQHGKNLV 661
N V A L + +N L+ D+V+ + + + + C++ G LV
Sbjct: 93 LRKLNPLVEVVAYLERL---DEENAEELIAQFDVVLDCTDNFETRYLINDACVKLGIPLV 149
Query: 662 TAS 664
Sbjct: 150 HGG 152
>gnl|CDD|129652 TIGR00561, pntA, NAD(P) transhydrogenase, alpha subunit. This
integral membrane protein is the alpha subunit of alpha
2 beta 2 tetramer that couples the proton transport
across the membrane to the reversible transfer of
hydride ion equivalents between NAD and NADP. An
alternate name is pyridine nucleotide transhydrogenase
alpha subunit. The N-terminal region is homologous to
alanine dehydrogenase. In some species, such as
Rhodospirillum rubrum, the alpha chain is replaced by
two shorter chains, both with some homology to the
full-length alpha chain modeled here. These score below
the trusted cutoff [Energy metabolism, Electron
transport].
Length = 511
Score = 31.4 bits (71), Expect = 2.9
Identities = 32/131 (24%), Positives = 57/131 (43%), Gaps = 12/131 (9%)
Query: 16 ERRAALAPSNVKRLVRSGVKVIVQ--PSNRRAYPVQAYANAGAIIQE--DISEASIIFGV 71
E R A P V++L++ G V+V+ + ++ +A+ +AGA I + ++ II V
Sbjct: 12 ECRVAATPKTVQQLLKLGFDVLVETGAGAKASFADRAFESAGAGIVDGTLFWQSDIILKV 71
Query: 72 KQ-VPVDLLLPNKTYCMFSHTIKAQETNMPLLDAILQKNIRLVDYEKLVDDEGNRVVAFG 130
++ + S AQ N L++ + KNI + L D R+
Sbjct: 72 NAPSDAEIAELPAGKALVSFIWPAQ--NPELMEKLAAKNITV-----LAMDAVPRISRAQ 124
Query: 131 KYAGVAGMVNI 141
K ++ M NI
Sbjct: 125 KLDALSSMANI 135
>gnl|CDD|180548 PRK06380, PRK06380, metal-dependent hydrolase; Provisional.
Length = 418
Score = 31.4 bits (71), Expect = 3.1
Identities = 16/58 (27%), Positives = 33/58 (56%), Gaps = 3/58 (5%)
Query: 862 DIFYENLKNIVADKVGNTGLEALEALGLLNDDIIVQKQNTPIDTLSHFLRQKLNIRLV 919
D++Y ++I+A G+ A + +L+++I QK + P++ +F+R+ N LV
Sbjct: 117 DLYYS--EDIIAKAAEELGIRAFLSWAVLDEEITTQKGD-PLNNAENFIREHRNEELV 171
>gnl|CDD|180749 PRK06920, dnaE, DNA polymerase III DnaE; Reviewed.
Length = 1107
Score = 31.7 bits (72), Expect = 3.1
Identities = 28/102 (27%), Positives = 49/102 (48%), Gaps = 19/102 (18%)
Query: 866 ENLKNIVADKVGNTG-------LEALEALGLLNDDIIVQKQNTPIDTLSHFLRQ----KL 914
E L VA + G+ +ALE LGLL D + + T ++ + F+ Q ++
Sbjct: 502 EPLTGSVAIQEGHNDVYVTQYPADALEELGLLKMDFLGLRNLTLLENIIKFIEQKTGKEI 561
Query: 915 NIRLVDYEKLVDDEGNRVVAFGKYAGV-----AGMVNILHGL 951
+IR + + D++ +++ G GV +GM N+L GL
Sbjct: 562 DIRNLPLQ---DEKTFQLLGRGDTTGVFQLESSGMRNVLRGL 600
>gnl|CDD|233242 TIGR01035, hemA, glutamyl-tRNA reductase. This enzyme, together
with glutamate-1-semialdehyde-2,1-aminomutase
(TIGR00713), leads to the production of
delta-amino-levulinic acid from Glu-tRNA [Biosynthesis
of cofactors, prosthetic groups, and carriers, Heme,
porphyrin, and cobalamin].
Length = 417
Score = 31.2 bits (71), Expect = 4.1
Identities = 16/76 (21%), Positives = 32/76 (42%), Gaps = 8/76 (10%)
Query: 564 ESRNVLLLGAGYVSRPLIEYLHRDENIHITLGSLLKEDIDKVTNEFGRVEATLIDVNNGG 623
+ + LL+GAG + + ++L R I + + E + + E G
Sbjct: 179 KGKKALLIGAGEMGELVAKHLLRKGVGKILIANRTYERAEDLAKELGGEAVKF------- 231
Query: 624 SDNLSGLVRSADLVVS 639
++L + AD+V+S
Sbjct: 232 -EDLEEYLAEADIVIS 246
>gnl|CDD|163244 TIGR03385, CoA_CoA_reduc, CoA-disulfide reductase. Members of this
protein family are CoA-disulfide reductase (EC
1.8.1.14), as characterized in Staphylococcus aureus,
Pyrococcus horikoshii, and Borrelia burgdorferi, and
inferred in several other species on the basis of high
levels of CoA and an absence of glutathione as a
protective thiol [Cellular processes, Detoxification].
Length = 427
Score = 30.5 bits (69), Expect = 5.6
Identities = 20/105 (19%), Positives = 39/105 (37%), Gaps = 17/105 (16%)
Query: 420 FSPAVQAAIIASNGELTPKFKYIEDLRQQSVKSRHKADIQTEESRNVLLLGAGYVSRPLI 479
SP + G + +L K I + NV+++G GY+ +
Sbjct: 97 LSPGASPIVPNIEGINLDIVFTLRNLED---TDAIKQYIDKNKVENVVIIGGGYIGIEMA 153
Query: 480 EYLHRDENIHITL----GSLLKEDIDKDKFISFVQSDASKPIEEH 520
E L R+ ++TL +L + D+ + ++ +EE
Sbjct: 154 EAL-RERGKNVTLIHRSERILNKLFDE---------EMNQIVEEE 188
Score = 30.1 bits (68), Expect = 9.2
Identities = 16/73 (21%), Positives = 28/73 (38%), Gaps = 4/73 (5%)
Query: 522 FSPAVQAAIIASNGELTPKFKYIEDLRQQSVKSRHKADIQTEESRNVLLLGAGYVSRPLI 581
SP + G + +L K I + NV+++G GY+ +
Sbjct: 97 LSPGASPIVPNIEGINLDIVFTLRNLED---TDAIKQYIDKNKVENVVIIGGGYIGIEMA 153
Query: 582 EYLHRDENIHITL 594
E L R+ ++TL
Sbjct: 154 EAL-RERGKNVTL 165
>gnl|CDD|216304 pfam01113, DapB_N, Dihydrodipicolinate reductase, N-terminus.
Dihydrodipicolinate reductase (DapB) reduces the
alpha,beta-unsaturated cyclic imine,
dihydro-dipicolinate. This reaction is the second
committed step in the biosynthesis of L-lysine and its
precursor meso-diaminopimelate, which are critical for
both protein and cell wall biosynthesis. The N-terminal
domain of DapB binds the dinucleotide NADPH.
Length = 122
Score = 29.1 bits (66), Expect = 6.3
Identities = 28/124 (22%), Positives = 53/124 (42%), Gaps = 17/124 (13%)
Query: 567 NVLLLGA-GYVSRPLIEYLHRDENIHITLGSLLKEDIDKVTNEFGRVEATLIDVNNG--G 623
V ++GA G + R LI+ + + + +D+ + +A + G
Sbjct: 2 KVAVVGASGRMGRELIKAILEAPDFELVAA------VDRPGSSLLGSDAGELAGPLGVPV 55
Query: 624 SDNLSGLVRSADLVVSL-LPYNLHHHVAEFCIQHGKNLV---TASYLSPEMMA-LHERAA 678
+D+L ++ AD+++ P ++ E ++HGK LV T + E +A L E A
Sbjct: 56 TDDLEEVLADADVLIDFTTPEATLENL-ELALKHGKPLVIGTTG--FTEEQLAELKEAAK 112
Query: 679 SAGI 682
I
Sbjct: 113 KIPI 116
>gnl|CDD|237257 PRK12902, secA, preprotein translocase subunit SecA; Reviewed.
Length = 939
Score = 30.8 bits (70), Expect = 6.3
Identities = 21/70 (30%), Positives = 28/70 (40%), Gaps = 2/70 (2%)
Query: 868 LKNIVADKVGNTGLEALEALGLLNDDIIVQKQNTPI-DTLSHFLRQKLNIRLVDYEKLVD 926
LK V V G +L L L D I + P D + LR+ N +YE +
Sbjct: 581 LKEAVDFAVKQYGDRSLPEL-ELEDKIATAAEKAPTDDPVIQKLREAYNRIKKEYEVVTS 639
Query: 927 DEGNRVVAFG 936
E + VV G
Sbjct: 640 QEHDEVVEAG 649
>gnl|CDD|224403 COG1486, CelF, Alpha-galactosidases/6-phospho-beta-glucosidases,
family 4 of glycosyl hydrolases [Carbohydrate transport
and metabolism].
Length = 442
Score = 30.3 bits (69), Expect = 6.3
Identities = 22/77 (28%), Positives = 28/77 (36%), Gaps = 5/77 (6%)
Query: 216 ELPYEYVPPEMLQKVAEHGSNTKIYACEVRRRNYLERIKGGGYDYQEYNENPS--LYRSL 273
Y Y P +M +K + A EV +R E+ Y E E P R
Sbjct: 257 YHRYYYYPYDMKEKKPDEIEKFGTRANEVMKR---EKELFELYKKPELKEKPEELEKRIG 313
Query: 274 FASKIAPYASIIINGIY 290
+ YAS IIN I
Sbjct: 314 AGKYSSEYASNIINAIE 330
>gnl|CDD|235137 PRK03601, PRK03601, transcriptional regulator HdfR; Provisional.
Length = 275
Score = 30.0 bits (68), Expect = 7.6
Identities = 13/30 (43%), Positives = 16/30 (53%)
Query: 291 WAVGSPKLLTLPDAKNLLRPNHMPWLPTSD 320
WA L T+PD+ L RP + WL SD
Sbjct: 229 WAKEKGGLHTVPDSTTLSRPLYAIWLQNSD 258
>gnl|CDD|232940 TIGR00361, ComEC_Rec2, DNA internalization-related competence
protein ComEC/Rec2. Apparant orthologs are found in 5
species so far (Haemophilus influenzae, Escherichia
coli, Bacillus subtilis, Neisseria gonorrhoeae,
Streptococcus pneumoniae), of which all but E. coli are
model systems for the study of competence for natural
transformation. This protein is a predicted multiple
membrane-spanning protein likely to be involved in DNA
internalization. In a large number of bacterial species
not known to exhibit competence, this protein is
replaced by a half-length N-terminal homolog of unknown
function, modelled by the related model ComEC_N-term.
The role for this protein in species that are not
naturally transformable is unknown [Cellular processes,
DNA transformation].
Length = 662
Score = 30.3 bits (68), Expect = 8.3
Identities = 13/49 (26%), Positives = 20/49 (40%), Gaps = 3/49 (6%)
Query: 239 IYACEVRRRNYLERIKGGGYDYQEY---NENPSLYRSLFASKIAPYASI 284
++CE+ R + GG+DYQEY A I+ S+
Sbjct: 64 GWSCELTLREPNHALNPGGFDYQEYLYRQHIHWNGSVTSAQNISEVLSL 112
>gnl|CDD|117168 pfam08594, UPF0300, Uncharacterized protein family (UPF0300). This
family of proteins appear to be specific to S. pombe.
Length = 215
Score = 29.3 bits (66), Expect = 8.9
Identities = 9/29 (31%), Positives = 15/29 (51%)
Query: 41 SNRRAYPVQAYANAGAIIQEDISEASIIF 69
SN A+P+ AY NA + E+ ++
Sbjct: 151 SNASAFPIHAYLNAKERLYEEFLPKELLL 179
>gnl|CDD|99814 cd06218, DHOD_e_trans, FAD/NAD binding domain in the electron
transfer subunit of dihydroorotate dehydrogenase.
Dihydroorotate dehydrogenases (DHODs) catalyze the only
redox reaction in pyrimidine de novo biosynthesis. They
catalyze the oxidation of (S)-dihydroorotate to orotate
coupled with the reduction of NAD+. In L. lactis, DHOD B
(encoded by pyrDa) is co-expressed with pyrK and both
gene products are required for full activity, as well as
3 cofactors: FMN, FAD, and an [2Fe-2S] cluster.
Length = 246
Score = 29.4 bits (67), Expect = 9.1
Identities = 17/58 (29%), Positives = 25/58 (43%), Gaps = 11/58 (18%)
Query: 197 TIVFT--GS----GNVSQGAQEIFQELPYEYV----PPEMLQKVAEHGSNTKIYACEV 244
V T GS G V+ +E+ E + V P ML+ VAE + + C+V
Sbjct: 152 VYVATDDGSAGTKGFVTDLLKELLAEARPDVVYACGPEPMLKAVAELAAERGVP-CQV 208
>gnl|CDD|129147 TIGR00036, dapB, dihydrodipicolinate reductase. [Amino acid
biosynthesis, Aspartate family].
Length = 266
Score = 29.7 bits (67), Expect = 9.2
Identities = 28/124 (22%), Positives = 51/124 (41%), Gaps = 22/124 (17%)
Query: 573 AGYVSRPLIEYLHRDENIHITLG--------SLLKEDIDKVTNEFGRVEATLIDVNNGGS 624
AG + R LI+ E + L SL D ++ G+V + +
Sbjct: 10 AGRMGRELIKAALAAE--GLQLVAAFERHGSSLQGTDAGELAG-IGKVGVPV-------T 59
Query: 625 DNLSGLVRSADLVVSL-LPYNLHHHVAEFCIQHGKNLV--TASYLSPEMMALHERAASAG 681
D+L + D+++ P + +H+ +F ++HG LV T + + L + A AG
Sbjct: 60 DDLEAVETDPDVLIDFTTPEGVLNHL-KFALEHGVRLVVGTTGFSEEDKQELADLAEKAG 118
Query: 682 ITVL 685
I +
Sbjct: 119 IAAV 122
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.318 0.136 0.398
Gapped
Lambda K H
0.267 0.0886 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 62,840,382
Number of extensions: 6469629
Number of successful extensions: 6398
Number of sequences better than 10.0: 1
Number of HSP's gapped: 6352
Number of HSP's successfully gapped: 79
Length of query: 1201
Length of database: 10,937,602
Length adjustment: 108
Effective length of query: 1093
Effective length of database: 6,147,370
Effective search space: 6719075410
Effective search space used: 6719075410
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: 65 (28.5 bits)