RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5160
(203 letters)
>3n6r_B Propionyl-COA carboxylase, beta subunit; protein complex,
biotin-dependent carboxylase, ligase; HET: BTI; 3.20A
{Roseobacter denitrificans}
Length = 531
Score = 343 bits (881), Expect = e-117
Identities = 102/180 (56%), Positives = 143/180 (79%), Gaps = 4/180 (2%)
Query: 28 GCIDINAAVKSARFIRFCDAFNIPIVTFIDVPGFLPGLAQEHLGIIRHGSKLLYAYAEST 87
GC+DI+++ K+ARF+RFCDAF IP++T IDVPGFLPG +QE+ G+I+HG+KLLYAY E+T
Sbjct: 352 GCLDIDSSRKAARFVRFCDAFEIPLLTLIDVPGFLPGTSQEYGGVIKHGAKLLYAYGEAT 411
Query: 88 VPKITVITRKAYGGAYAVMSEKNLRSDVNYAWPTAEIAVMGSKGAVAILYRKE----KDK 143
VP +TVITRKAYGGAY VMS K+LR+D NYAWPTAE+AVMG+KGA I++R + +
Sbjct: 412 VPMVTVITRKAYGGAYVVMSSKHLRADFNYAWPTAEVAVMGAKGATEIIHRGDLGDPEKI 471
Query: 144 SNYEVEYNDKFRSPVAAAKKGYIDDIIEPRTTRMRIAQDLKFLLNKKQDNPYKKHGNIPL 203
+ + +Y ++F +P A+++G++D++I+PR+TR R+A+ L NK P+KKH NIPL
Sbjct: 472 AQHTADYEERFANPFVASERGFVDEVIQPRSTRKRVARAFASLRNKSVQMPWKKHDNIPL 531
>2bzr_A Propionyl-COA carboxylase beta chain 5; fatty acid biosynthesis,
accase, ligase, transferase; 2.2A {Mycobacterium
tuberculosis} PDB: 2a7s_A
Length = 548
Score = 338 bits (869), Expect = e-115
Identities = 104/188 (55%), Positives = 128/188 (68%), Gaps = 12/188 (6%)
Query: 28 GCIDINAAVKSARFIRFCDAFNIPIVTFIDVPGFLPGLAQEHLGIIRHGSKLLYAYAEST 87
GC+DINA+ K+ARF+R CD FNIPIV +DVPGFLPG QE+ GIIR G+KLLYAY E+T
Sbjct: 361 GCLDINASEKAARFVRTCDCFNIPIVMLVDVPGFLPGTDQEYNGIIRRGAKLLYAYGEAT 420
Query: 88 VPKITVITRKAYGGAYAVMSEKNLRSDVNYAWPTAEIAVMGSKGAVAILYRKE------- 140
VPKITVITRKAYGGAY VM K++ DVN AWPTA+IAVMG+ GAV +YR++
Sbjct: 421 VPKITVITRKAYGGAYCVMGSKDMGCDVNLAWPTAQIAVMGASGAVGFVYRQQLAEAAAN 480
Query: 141 -----KDKSNYEVEYNDKFRSPVAAAKKGYIDDIIEPRTTRMRIAQDLKFLLNKKQDNPY 195
K + + EY D +P AA++GY+ +I P TR I L+ L K P
Sbjct: 481 GEDIDKLRLRLQQEYEDTLVNPYVAAERGYVGAVIPPSHTRGYIGTALRLLERKIAQLPP 540
Query: 196 KKHGNIPL 203
KKHGN+PL
Sbjct: 541 KKHGNVPL 548
>3iav_A Propionyl-COA carboxylase complex B subunit; accase, pccase, ACC,
PCC, CT, carboxyltransfe polyketide, fatty acid, PKS,
FAS; 1.75A {Streptomyces coelicolor} PDB: 1xnw_A 3ib9_A*
3ibb_A 3mfm_C 1xny_A* 1xnv_A* 1xo6_A
Length = 530
Score = 336 bits (865), Expect = e-115
Identities = 103/185 (55%), Positives = 136/185 (73%), Gaps = 9/185 (4%)
Query: 28 GCIDINAAVKSARFIRFCDAFNIPIVTFIDVPGFLPGLAQEHLGIIRHGSKLLYAYAEST 87
GC+DI A+ K+ARF+R CDAFN+P++TF+DVPGFLPG+ QEH GIIR G+KL++AYAE+T
Sbjct: 346 GCLDITASEKAARFVRTCDAFNVPVLTFVDVPGFLPGVDQEHDGIIRRGAKLIFAYAEAT 405
Query: 88 VPKITVITRKAYGGAYAVMSEKNLRSDVNYAWPTAEIAVMGSKGAVAILYRKE------- 140
VP ITVITRKA+GGAY VM K+L +D+N AWPTA+IAVMG++GAV IL+R+
Sbjct: 406 VPLITVITRKAFGGAYVVMGSKHLGADLNLAWPTAQIAVMGAQGAVNILHRRTIADAGDD 465
Query: 141 --KDKSNYEVEYNDKFRSPVAAAKKGYIDDIIEPRTTRMRIAQDLKFLLNKKQDNPYKKH 198
++ EY D +P AA++GY+D +I P TR I + L+ L K++ P KKH
Sbjct: 466 AEATRARLIQEYEDALLNPYTAAERGYVDAVIMPSDTRRHIVRGLRQLRTKRESLPPKKH 525
Query: 199 GNIPL 203
GNIPL
Sbjct: 526 GNIPL 530
>1on3_A Methylmalonyl-COA carboxyltransferase 12S subunit; domain
duplication, multienzyme complex, transcarboxylase; HET:
MCA; 1.90A {Propionibacterium freudenreichii} SCOP:
c.14.1.4 c.14.1.4 PDB: 1on9_A*
Length = 523
Score = 335 bits (862), Expect = e-115
Identities = 97/183 (53%), Positives = 132/183 (72%), Gaps = 8/183 (4%)
Query: 28 GCIDINAAVKSARFIRFCDAFNIPIVTFIDVPGFLPGLAQEHLGIIRHGSKLLYAYAEST 87
GC+DINA+ K+A F+ FCD+FNIP+V +DVPGFLPG+ QE+ GIIRHG+K+LYAY+E+T
Sbjct: 340 GCLDINASDKAAEFVNFCDSFNIPLVQLVDVPGFLPGVQQEYGGIIRHGAKMLYAYSEAT 399
Query: 88 VPKITVITRKAYGGAYAVMSEKNLRSDVNYAWPTAEIAVMGSKGAVAILYRKE------- 140
VPKITV+ RKAYGG+Y M ++L +D YAWP+AEIAVMG++GA +++RKE
Sbjct: 400 VPKITVVLRKAYGGSYLAMCNRDLGADAVYAWPSAEIAVMGAEGAANVIFRKEIKAADDP 459
Query: 141 -KDKSNYEVEYNDKFRSPVAAAKKGYIDDIIEPRTTRMRIAQDLKFLLNKKQDNPYKKHG 199
++ EY + F +P AA +G +DD+I+P TR +IA L+ K+Q P KKHG
Sbjct: 460 DAMRAEKIEEYQNAFNTPYVAAARGQVDDVIDPADTRRKIASALEMYATKRQTRPAKKHG 519
Query: 200 NIP 202
N P
Sbjct: 520 NFP 522
>1vrg_A Propionyl-COA carboxylase, beta subunit; TM0716, structural joint
center for structural genomics, JCSG, protein structu
initiative, PSI; HET: MSE; 2.30A {Thermotoga maritima}
SCOP: c.14.1.4 c.14.1.4
Length = 527
Score = 335 bits (862), Expect = e-114
Identities = 102/184 (55%), Positives = 134/184 (72%), Gaps = 8/184 (4%)
Query: 28 GCIDINAAVKSARFIRFCDAFNIPIVTFIDVPGFLPGLAQEHLGIIRHGSKLLYAYAEST 87
G +DI+++ K+ARFIRF DAFNIPI+TF+D PG+LPG+AQEH GIIRHG+KLLYAY+E+T
Sbjct: 344 GVLDIDSSDKAARFIRFLDAFNIPILTFVDTPGYLPGVAQEHGGIIRHGAKLLYAYSEAT 403
Query: 88 VPKITVITRKAYGGAYAVMSEKNLRSDVNYAWPTAEIAVMGSKGAVAILYRKE------- 140
VPKITVI RKAYGGAY M K+L +D+ AWP+AEIAVMG +GA I++++E
Sbjct: 404 VPKITVILRKAYGGAYIAMGSKHLGADMVLAWPSAEIAVMGPEGAANIIFKREIEASSNP 463
Query: 141 -KDKSNYEVEYNDKFRSPVAAAKKGYIDDIIEPRTTRMRIAQDLKFLLNKKQDNPYKKHG 199
+ + EY +F +P AA +GY+D +I+PR TR I + L+ K + P KKHG
Sbjct: 464 EETRRKLIEEYKQQFANPYIAASRGYVDMVIDPRETRKYIMRALEVCETKVEYRPKKKHG 523
Query: 200 NIPL 203
NIPL
Sbjct: 524 NIPL 527
>1x0u_A Hypothetical methylmalonyl-COA decarboxylase ALPH; lyase; 2.20A
{Sulfolobus tokodaii}
Length = 522
Score = 334 bits (860), Expect = e-114
Identities = 105/184 (57%), Positives = 132/184 (71%), Gaps = 8/184 (4%)
Query: 28 GCIDINAAVKSARFIRFCDAFNIPIVTFIDVPGFLPGLAQEHLGIIRHGSKLLYAYAEST 87
G IDI+AA K+ARFIRFCDAFNIP+++ +D PG++PG QE+ GIIRHG+K+LYA+AE+T
Sbjct: 339 GSIDIDAADKAARFIRFCDAFNIPLISLVDTPGYVPGTDQEYKGIIRHGAKMLYAFAEAT 398
Query: 88 VPKITVITRKAYGGAYAVMSEKNLRSDVNYAWPTAEIAVMGSKGAVAILYRKE------- 140
VPKITVI RK+YGGA+ MS K+L +D+ YAWPTAEIAV G +GAV ILYRKE
Sbjct: 399 VPKITVIVRKSYGGAHIAMSIKSLGADLVYAWPTAEIAVTGPEGAVRILYRKEIQQASNP 458
Query: 141 -KDKSNYEVEYNDKFRSPVAAAKKGYIDDIIEPRTTRMRIAQDLKFLLNKKQDNPYKKHG 199
EY F +P AA+KG +DD+IEP+ TR I L+ L K++ KKHG
Sbjct: 459 DDVLKQRIAEYRKLFANPYWAAEKGLVDDVIEPKDTRRVIVAGLEMLKTKREYRYPKKHG 518
Query: 200 NIPL 203
NIPL
Sbjct: 519 NIPL 522
>3gf3_A Glutaconyl-COA decarboxylase subunit A; sodium ION transport,
biotin, glutamate fermentation, lyase; HET: COO; 1.75A
{Clostridium symbiosum} PDB: 3gf7_A 3glm_A* 3gma_A*
Length = 588
Score = 246 bits (630), Expect = 2e-79
Identities = 36/191 (18%), Positives = 66/191 (34%), Gaps = 16/191 (8%)
Query: 28 GCIDINAAVKSARFIRFCDAFNIPIVTFIDVPGFLPGLAQEHLGIIRHGSKLLYAYAEST 87
G + +K F+ C IP++ D G G E ++ G L+Y+ S
Sbjct: 387 GKLYRQGLIKMNEFVTLCARDRIPLIWLQDTTGIDVGDEAEKAELLGLGQSLIYSIENSK 446
Query: 88 VPKITVITRKAYGGAYAVMSEKNLRSDVNYAWPTA--EIAVMGSKGAVAILYRKEKDKSN 145
+P + + RKA A+ V+ + ++ T E VM + A +Y ++ K+
Sbjct: 447 LPSLEITIRKASAAAHYVLGGPQGNNTNVFSIGTGACEYYVMPGETAANAMYSRKLVKAK 506
Query: 146 YE--------------VEYNDKFRSPVAAAKKGYIDDIIEPRTTRMRIAQDLKFLLNKKQ 191
++ P +KG +D+I++ R I + Q
Sbjct: 507 KAGEDLQPIIGKMNDMIQMYTDKSRPKYCTEKGMVDEIVDMTEVRPYIQAFTEAAYQNPQ 566
Query: 192 DNPYKKHGNIP 202
P
Sbjct: 567 SICPMHQMLTP 577
>2x24_A Acetyl-COA carboxylase; fatty acid biosynthesis, ligase, lipid
synthesis; HET: X24; 2.40A {Bos taurus} PDB: 3ff6_A*
3tdc_A*
Length = 793
Score = 247 bits (632), Expect = 7e-78
Identities = 45/242 (18%), Positives = 86/242 (35%), Gaps = 55/242 (22%)
Query: 15 NLIQILKLNPKAPGCIDINAAVKSARFIRFCDAFNIPIVTFIDVPGFLPGLAQEHLGIIR 74
NL K+ +A ++A K+A+ I+ + +P++ F + GF G+ + +++
Sbjct: 449 NLDSEAKIIQQAGQVWFPDSAYKTAQAIKDFNREKLPLMIFANWRGFSGGMKDMYDQVLK 508
Query: 75 HGSKLLYAYAESTVPKITVITRKA--YGGAYAVMSEK-NLRSDVNYAWPTAEIAVMGSKG 131
G+ ++ + P + I A GG++AVM N YA + +V+ +G
Sbjct: 509 FGAYIVDGLRKYRQPVLIYIPPYAEVRGGSWAVMDTSINPLCIEMYADRESRASVLEPEG 568
Query: 132 AVAILYRKEKDKSNYE-------------------------------------------- 147
V I Y+K+
Sbjct: 569 TVEIKYQKKDLVKTIRRLDPISKKLVEQLGVSELSDTDRKELEGQLKAREDLLLPMYHQV 628
Query: 148 -VEYNDKFRSPVAAAKKGYIDDIIEPRTTRMRIAQDLKFLL-------NKKQDNPYKKHG 199
+ + D + +KG I DI+E +T R + L+ LL + P H
Sbjct: 629 ALHFADLHDTAGRMLEKGVIYDILEWKTARSFLYWRLRRLLLESQVKQEVLRACPELSHM 688
Query: 200 NI 201
++
Sbjct: 689 HV 690
>1pix_A Glutaconyl-COA decarboxylase A subunit; biotin-dependent ION pump,
carboxyltransferase, lyase; 2.20A {Acidaminococcus
fermentans} SCOP: c.14.1.4 c.14.1.4
Length = 587
Score = 233 bits (596), Expect = 3e-74
Identities = 39/191 (20%), Positives = 67/191 (35%), Gaps = 16/191 (8%)
Query: 28 GCIDINAAVKSARFIRFCDAFNIPIVTFIDVPGFLPGLAQEHLGIIRHGSKLLYAYAEST 87
G + VK F+ C +PIV D G G E ++ G L+Y+ S
Sbjct: 385 GKLYRQGLVKMNEFVTLCARDRLPIVWIQDTTGIDVGNDAEKAELLGLGQSLIYSIQTSH 444
Query: 88 VPKITVITRKAYGGAYAVMSEKNLRSDVNYAWPTA--EIAVMGSKGAVAILYRKEKDKS- 144
+P+ + RK A+ V+ ++ TA EIAVM + A +Y + K
Sbjct: 445 IPQFEITLRKGTAAAHYVLGGPQGNDTNAFSIGTAATEIAVMNGETAATAMYSRRLAKDR 504
Query: 145 -------------NYEVEYNDKFRSPVAAAKKGYIDDIIEPRTTRMRIAQDLKFLLNKKQ 191
N ++ P A+ G +D+I++ R + + +
Sbjct: 505 KAGKDLQPTIDKMNNLIQAFYTKSRPKVCAELGLVDEIVDMNKIRGYVEAFTEAAYQNPE 564
Query: 192 DNPYKKHGNIP 202
+P
Sbjct: 565 SICPFHQMILP 575
>3k8x_A Acetyl-COA carboxylase; transferase, carboxyltransferase, AC
tepraloxydim, ATP-binding, biotin, fatty acid
biosynthesis; HET: B89; 2.30A {Saccharomyces cerevisiae}
PDB: 1w2x_A* 3h0s_A* 3h0j_A* 3h0q_A* 1od2_A* 1od4_A*
3pgq_A* 3tvu_A* 3tv5_A* 3tvw_A* 3tz3_A* 1uyr_A* 1uys_A*
1uyt_A 1uyv_A
Length = 758
Score = 207 bits (529), Expect = 3e-63
Identities = 35/168 (20%), Positives = 65/168 (38%), Gaps = 11/168 (6%)
Query: 21 KLNPKAPGCIDINAAVKSARFIR-FCDAFNIPIVTFIDVPGFLPGLAQEHLGIIRHGSKL 79
L + N+A K+A+ I F + +P++ + GF G ++++GS +
Sbjct: 440 TLIQEPGQVWHPNSAFKTAQAINDFNNGEQLPMMILANWRGFSGGQRDMFNEVLKYGSFI 499
Query: 80 LYAYAESTVPKITVI--TRKAYGGAYAVMSEKNLRSDV-NYAWPTAEIAVMGSKGAVAIL 136
+ A + P I I T + GG++ V+ + YA A V+ +G V I
Sbjct: 500 VDALVDYKQPIIIYIPPTGELRGGSWVVVDPTINADQMEMYADVNARAGVLEPQGMVGIK 559
Query: 137 YRKEKDKSNYEV------EYNDKFRSP-VAAAKKGYIDDIIEPRTTRM 177
+R+EK E + + +A I + R +
Sbjct: 560 FRREKLLDTMNRLDDKYRELRSQLSNKSLAPEVHQQISKQLADREREL 607
>3u9r_B MCC beta, methylcrotonyl-COA carboxylase, beta-subunit;
carboxyltransferase, beta-BETA-alpha superhelix, ligase;
HET: 1PE; 1.50A {Pseudomonas aeruginosa} PDB: 3u9s_B*
3u9t_B
Length = 555
Score = 170 bits (432), Expect = 2e-50
Identities = 48/179 (26%), Positives = 80/179 (44%), Gaps = 16/179 (8%)
Query: 28 GCIDINAAVKSARFIRFCDAFNIPIVTFIDVPGFLPGLAQEHLGIIRHGSKLLYAYAEST 87
G + AA K A FI IP++ ++ GF+ G E GI +HG+KL+ A A +
Sbjct: 366 GILFAEAAQKGAHFIELACQRGIPLLFLQNITGFMVGQKYEAGGIAKHGAKLVTAVACAR 425
Query: 88 VPKITVITRKAYGGAYAVMSEKNLRSDVNYAWPTAEIAVMGSKGAVAILYRKEKDKSNYE 147
VPK TV+ ++G M + + WP A I VMG + A +L + +++++
Sbjct: 426 VPKFTVLIGGSFGAGNYGMCGRAYDPRFLWMWPNARIGVMGGEQAAGVLAQVKREQAERA 485
Query: 148 ----------------VEYNDKFRSPVAAAKKGYIDDIIEPRTTRMRIAQDLKFLLNKK 190
+E + P ++ + + D +I+P TR +A L LN
Sbjct: 486 GQQLGVEEEAKIKAPILEQYEHQGHPYYSSARLWDDGVIDPAQTREVLALALSAALNAP 544
>2f9i_A Acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha;
zinc ribbon, crotonase superfamily, spiral domain; 1.98A
{Staphylococcus aureus}
Length = 327
Score = 48.8 bits (117), Expect = 2e-07
Identities = 46/187 (24%), Positives = 66/187 (35%), Gaps = 56/187 (29%)
Query: 37 KSARFIRFCDAFNIPIVTFIDVPGFLPGLAQEHLGIIRHGSKLLYAYAESTVPKI-TVIT 95
K+ R ++ + FN PI TFID G PG A E G + L A VP I VI
Sbjct: 148 KALRLMKQAEKFNRPIFTFIDTKGAYPGKAAEERGQSESIATNLIEMASLKVPVIAIVIG 207
Query: 96 RKAYGGAYAV-------MSEKNLRSDVNYAWPTAEIAVMGSKGAVAILYRKEKDKSNYEV 148
GGA + M E + +V+ +GA A+L++
Sbjct: 208 EGGSGGALGIGIANKVLMLE--------NST----YSVISPEGAAALLWK---------- 245
Query: 149 EYNDKFRSPVAAA----------KKGYIDDII-EP------------RTTRMRIAQDLKF 185
D + +AA + G IDD+I EP + L
Sbjct: 246 ---DSNLAKIAAETMKITAHDIKQLGIIDDVISEPLGGAHKDIEQQALAIKSAFVAQLDS 302
Query: 186 LLNKKQD 192
L + +D
Sbjct: 303 LESLSRD 309
>2f9y_A Acetyl-COA carboxylase, carboxyltransferase alpha; zinc ribbon,
crotonase superfamily, spiral domain, ligase; 3.20A
{Escherichia coli} SCOP: c.14.1.4
Length = 339
Score = 48.9 bits (117), Expect = 2e-07
Identities = 40/155 (25%), Positives = 64/155 (41%), Gaps = 44/155 (28%)
Query: 37 KSARFIRFCDAFNIPIVTFIDVPGFLPGLAQEHLGIIRHGSKLLYAYAESTVPKI-TVIT 95
K+ R ++ + F +PI+TFID PG PG+ E G ++ L + VP + TVI
Sbjct: 162 KALRLMQMAERFKMPIITFIDTPGAYPGVGAEERGQSEAIARNLREMSRLGVPVVCTVIG 221
Query: 96 RKAYGGAYAV-------MSEKNLRSDVNYAWPTAEIAVMGSKGAVAILYRKEKDKSNYEV 148
GGA A+ M + Y+ +V+ +G +IL++
Sbjct: 222 EGGSGGALAIGVGDKVNMLQ--------YST----YSVISPEGCASILWK---------- 259
Query: 149 EYNDKFRSPVAAA----------KKGYIDDII-EP 172
++P+AA + ID II EP
Sbjct: 260 ---SADKAPLAAEAMGIIRPRLKELKLIDSIIPEP 291
>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 = 41.2 bits (96), Expect = 1e-04
Identities = 52/281 (18%), Positives = 83/281 (29%), Gaps = 112/281 (39%)
Query: 1 MSAYKS-------------GLQSSEKFNLIQILKLNPKAPGCIDINAAVKSARFIR---- 43
M YK+ + + F+++ I+ NP + I+ + + IR
Sbjct: 1633 MDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVN---LTIHFGGEKGKRIRENYS 1689
Query: 44 ------FCDA------------FNIPIVTFIDVPGFL-------PGL-----AQ-EHL-- 70
D + TF G L P L A E L
Sbjct: 1690 AMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKS 1749
Query: 71 -GIIR-------HGSKL-----LYAYA-----ESTVPKITVITRKAYGGAYAVMSEKNLR 112
G+I H S L L + A ES V ++ V R G V ++
Sbjct: 1750 KGLIPADATFAGH-S-LGEYAALASLADVMSIESLV-EV-VFYR---GMTMQVAVPRDEL 1802
Query: 113 SDVNY---AWPTAEIAVMGSKGAVAILYRKEKDKSNYEVE---YNDKFRSP----VAAAK 162
NY A +A S+ A+ + + ++ + VE YN VAA
Sbjct: 1803 GRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYN----VENQQYVAAGD 1858
Query: 163 KGYIDDIIEPRTTRMRIAQDLKFLLNKKQDNPYKKHGNIPL 203
+D + +LN + K I +
Sbjct: 1859 LRALDTVTN--------------VLN------FIKLQKIDI 1879
Score = 31.6 bits (71), Expect = 0.18
Identities = 40/200 (20%), Positives = 56/200 (28%), Gaps = 87/200 (43%)
Query: 6 SGLQSS-EKFNLIQILKLNPKAPGCIDINAAVKSARFIRFCDAFNIPIVTFIDVPGFLPG 64
SG S NL + K KAP +D + S R ++F + F +P + P F
Sbjct: 380 SGPPQSLYGLNL-TLRKA--KAPSGLDQSRIPFSERKLKFSNRF-LP----VASP-F--- 427
Query: 65 LAQEHLGIIRHGSKLLYAYAESTVP---------------KITVITRKAYGGAYAVMSEK 109
H S LL A + +I V Y
Sbjct: 428 ----H-------SHLL-VPASDLINKDLVKNNVSFNAKDIQIPV---------YDTFDGS 466
Query: 110 NLRSD----------------VNYAWPTAE------IAVMGSKGA--VAILYRKEKD--- 142
+LR V W T I G GA + +L + KD
Sbjct: 467 DLRVLSGSISERIVDCIIRLPVK--WETTTQFKATHILDFGPGGASGLGVLTHRNKDGTG 524
Query: 143 ---------KSNYEVEYNDK 153
N + +Y K
Sbjct: 525 VRVIVAGTLDINPDDDYGFK 544
Score = 28.9 bits (64), Expect = 1.6
Identities = 31/184 (16%), Positives = 58/184 (31%), Gaps = 56/184 (30%)
Query: 39 ARFIRFCDAFNIP--IVTFIDV---------PGFLPG-----LAQEHLGIIRHGSKLLYA 82
+F+ + + P + F V +L G LA + L
Sbjct: 62 GKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAK-----------LLQ 110
Query: 83 YAESTVPKITVITRKAYGGAYAVMS---EKNLRSDVNYAWPT--AEI-AVMGSKGAVAIL 136
++T+ K + + Y A + +K S + A A++ A+ G +G
Sbjct: 111 ENDTTLVKTKELIK-NYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGN-TDD 168
Query: 137 YRKEKDKSNYEVEYNDKFRSPVAAAKKGYIDDIIEPRTTRMRIAQDLKFLLNKKQD-NPY 195
Y +E + Y+ Y + D+I+ A+ L L+ D
Sbjct: 169 YFEEL-RDLYQT-Y------------HVLVGDLIK------FSAETLSELIRTTLDAEKV 208
Query: 196 KKHG 199
G
Sbjct: 209 FTQG 212
>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 = 36.8 bits (84), Expect = 0.003
Identities = 36/238 (15%), Positives = 69/238 (28%), Gaps = 82/238 (34%)
Query: 18 QILKLNPKAPGCIDINAAVKS---ARFIRF----CDAFNIPIVTFIDVPGFLPGLAQEH- 69
++L NP+ + I A A + + CD I + ++V P ++
Sbjct: 321 EVLTTNPRR---LSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNV--LEPAEYRKMF 375
Query: 70 --LGIIRHGSK-------LLYAYAESTVPKITVITRKAYGGAYAVMSEKNLRSDVNYAWP 120
L + + L++ + + V+++ + S V
Sbjct: 376 DRLSVFPPSAHIPTILLSLIWFDVIKSDVMV-------------VVNKLHKYSLVEKQPK 422
Query: 121 TAEIAVMGSKGAVAILYRKEKDKSNYEVEYNDKFRSPVAAAKKGYIDDIIEP-------- 172
+ I++ +Y + K K E + K DD+I P
Sbjct: 423 ESTISIPS-------IYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYS 475
Query: 173 -------------RTTRMR-IAQDLKFLLNK-KQDNP-----------------YKKH 198
R T R + D +FL K + D+ YK +
Sbjct: 476 HIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPY 533
Score = 28.3 bits (62), Expect = 2.1
Identities = 13/59 (22%), Positives = 21/59 (35%), Gaps = 10/59 (16%)
Query: 141 KDKSNYEVEYNDKFRSPVAAAKKGYIDDIIE--PRTTRMRIAQDLKFLLNKKQDNPYKK 197
+ +V+ D +S K ID II + L + L KQ+ +K
Sbjct: 31 DNFDCKDVQ--DMPKS---ILSKEEIDHIIMSKDAVSGTLR---LFWTLLSKQEEMVQK 81
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 31.8 bits (71), Expect = 0.080
Identities = 10/32 (31%), Positives = 14/32 (43%), Gaps = 11/32 (34%)
Query: 8 LQSSEKFNLIQILKL-NP-KAPGCIDINAAVK 37
LQ+S LKL AP + I A ++
Sbjct: 25 LQAS--------LKLYADDSAPA-LAIKATME 47
Score = 25.7 bits (55), Expect = 9.9
Identities = 8/24 (33%), Positives = 12/24 (50%), Gaps = 6/24 (25%)
Query: 78 KL---LYAYAESTVPKITVITRKA 98
KL L YA+ + P + + KA
Sbjct: 24 KLQASLKLYADDSAPALAI---KA 44
>3nzp_A Arginine decarboxylase; alpha-beta protein, structural genomics,
PSI-biology, protei structure initiative; HET: PLP;
3.00A {Campylobacter jejuni subsp}
Length = 619
Score = 26.7 bits (59), Expect = 6.9
Identities = 14/79 (17%), Positives = 24/79 (30%), Gaps = 5/79 (6%)
Query: 32 INAAVKSARFIRFCDAFNIPIVTFIDVPGFLPGLAQEHLGIIRHGSK--LLYAYAESTVP 89
A ++ + I++ G GLA E+ S+ L YA V
Sbjct: 245 KKALNEAGNIYTELRKMGAKNLKAINLGG---GLAVEYSQFKNEKSRNYTLREYANDVVF 301
Query: 90 KITVITRKAYGGAYAVMSE 108
+ I + + E
Sbjct: 302 ILKNIAEQKKDLEPDIFIE 320
>3do6_A Formate--tetrahydrofolate ligase; TM1766, putative
formyltetrahydrofolate synthetase, structural genomics;
HET: MSE; 1.85A {Thermotoga maritima}
Length = 543
Score = 26.0 bits (58), Expect = 9.3
Identities = 8/46 (17%), Positives = 16/46 (34%), Gaps = 1/46 (2%)
Query: 65 LAQEHLGIIRHG-SKLLYAYAESTVPKITVITRKAYGGAYAVMSEK 109
LA+ + LY + KI ++ ++ Y S+
Sbjct: 408 LAKAVAEAAKDVEPAYLYEMNDPVEKKIEILAKEIYRAGRVEFSDT 453
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
0.319 0.136 0.394
Gapped
Lambda K H
0.267 0.0784 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,081,433
Number of extensions: 185813
Number of successful extensions: 409
Number of sequences better than 10.0: 1
Number of HSP's gapped: 390
Number of HSP's successfully gapped: 35
Length of query: 203
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 114
Effective length of database: 4,216,824
Effective search space: 480717936
Effective search space used: 480717936
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (24.9 bits)