RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 020472
(326 letters)
>gnl|CDD|215373 PLN02691, PLN02691, porphobilinogen deaminase.
Length = 351
Score = 427 bits (1100), Expect = e-151
Identities = 188/254 (74%), Positives = 213/254 (83%), Gaps = 6/254 (2%)
Query: 34 SSPRLKTPSFPKSLKKRSFGLVRASAAVE-----TKVAIIRIGTRGSPLALAQAHETRNK 88
+P L ++R +VRA+ AVE T VA IRIGTRGSPLALAQA+ETR+
Sbjct: 5 LAPGLSRRRCRGRTRRRHCAVVRAAVAVEASSGKTDVAPIRIGTRGSPLALAQAYETRDL 64
Query: 89 LMALHPELAQEGAIQIVIIKTTGDKILSQPLADIGGKGLFTKEIDEALINSQIDIAVHSM 148
L A HPELA+EGA++IVIIKTTGDKIL QPLADIGGKGLFTKEID+AL++ +IDIAVHSM
Sbjct: 65 LKAAHPELAEEGALEIVIIKTTGDKILDQPLADIGGKGLFTKEIDDALLSGRIDIAVHSM 124
Query: 149 KDVPTYLPEKTILPCNLQREDVRDAFISLSAASLAELPAGSIVGTASLRRKSQILHRYPS 208
KDVPTYLPE TILPCNL REDVRDAFISL A SLAELPAGS+VGTASLRR+SQILH+YP
Sbjct: 125 KDVPTYLPEGTILPCNLPREDVRDAFISLKAKSLAELPAGSVVGTASLRRQSQILHKYPH 184
Query: 209 LKVMENFRGNVQTRLRKLNERVVQATLLALAGLKRLSMTENVTNILSVDDMLPAVAQGAI 268
LKV NFRGNVQTRLRKL E VV ATLLALAGLKRL MTE+ T+ILS D+MLPAVAQGAI
Sbjct: 185 LKV-VNFRGNVQTRLRKLQEGVVDATLLALAGLKRLDMTEHATSILSTDEMLPAVAQGAI 243
Query: 269 GIACRSNDEKMVPF 282
GIACR++D+KM+ +
Sbjct: 244 GIACRTDDDKMLEY 257
>gnl|CDD|234612 PRK00072, hemC, porphobilinogen deaminase; Reviewed.
Length = 295
Score = 337 bits (867), Expect = e-116
Identities = 116/213 (54%), Positives = 152/213 (71%), Gaps = 5/213 (2%)
Query: 67 IIRIGTRGSPLALAQAHETRNKLMALHPELAQEGAIQIVIIKTTGDKILSQPLADIGGKG 126
IRIGTRGS LAL QA +++L A HP L +++V IKT GDKIL PLA IGGKG
Sbjct: 4 KIRIGTRGSKLALWQAEWVKDRLKAAHPGLE----VELVPIKTKGDKILDVPLAKIGGKG 59
Query: 127 LFTKEIDEALINSQIDIAVHSMKDVPTYLPEKTILPCNLQREDVRDAFISLSAASLAELP 186
LF KE++EAL+ +IDIAVHS+KDVPT LPE +L +RED RDA +S SL +LP
Sbjct: 60 LFVKELEEALLEGEIDIAVHSLKDVPTELPEGLVLAAIPEREDPRDALVSRDYKSLDDLP 119
Query: 187 AGSIVGTASLRRKSQILHRYPSLKVMENFRGNVQTRLRKLNERVVQATLLALAGLKRLSM 246
G++VGT+SLRR++Q+L P L++ + RGNV TRLRKL+E A +LA AGLKRL +
Sbjct: 120 EGAVVGTSSLRRQAQLLALRPDLEI-KPLRGNVDTRLRKLDEGEYDAIILAAAGLKRLGL 178
Query: 247 TENVTNILSVDDMLPAVAQGAIGIACRSNDEKM 279
+ +T L ++MLPA QGA+GI CR++DE++
Sbjct: 179 EDRITEYLDPEEMLPAPGQGALGIECRADDEEI 211
>gnl|CDD|238276 cd00494, HMBS, Hydroxymethylbilane synthase (HMBS), also known as
porphobilinogen deaminase (PBGD), is an intermediate
enzyme in the biosynthetic pathway of tetrapyrrolic ring
systems, such as heme, chlorophylls, and vitamin B12.
HMBS catalyzes the conversion of porphobilinogen (PBG)
into hydroxymethylbilane (HMB). HMBS consists of three
domains, and is believed to bind substrate through a
hinge-bending motion of domains I and II. HMBS is found
in all organisms except viruses.
Length = 292
Score = 324 bits (833), Expect = e-111
Identities = 121/213 (56%), Positives = 155/213 (72%), Gaps = 5/213 (2%)
Query: 68 IRIGTRGSPLALAQAHETRNKLMALHPELAQEGAIQIVIIKTTGDKILSQPLADIGGKGL 127
IRIGTR S LAL Q ++ KL L P + ++IVIIKTTGDKIL +PLA IGGKGL
Sbjct: 1 IRIGTRKSKLALIQTNKVIEKLKELCPGIE----VEIVIIKTTGDKILDKPLAKIGGKGL 56
Query: 128 FTKEIDEALINSQIDIAVHSMKDVPTYLPEKTILPCNLQREDVRDAFISLSAASLAELPA 187
FTKE++EAL+N +ID+AVHS+KDVPT LPE +L +RED RDA +S + +SL +LPA
Sbjct: 57 FTKELEEALLNGEIDLAVHSLKDVPTELPEGLVLGAIPKREDPRDALVSRNGSSLEDLPA 116
Query: 188 GSIVGTASLRRKSQILHRYPSLKVMENFRGNVQTRLRKLNERVVQATLLALAGLKRLSMT 247
GS+VGT+SLRR++Q+ + P LK E RGNV TRLRKL+E A +LA AGLKRL +
Sbjct: 117 GSVVGTSSLRRQAQLKRKRPDLK-FEPLRGNVDTRLRKLDEGEYDAIILAAAGLKRLGLE 175
Query: 248 ENVTNILSVDDMLPAVAQGAIGIACRSNDEKMV 280
+ +T LS + MLPAV QGA+ I CR DE+++
Sbjct: 176 DRITQYLSPEVMLPAVGQGALAIECRKGDEELL 208
>gnl|CDD|216465 pfam01379, Porphobil_deam, Porphobilinogen deaminase, dipyromethane
cofactor binding domain.
Length = 213
Score = 318 bits (817), Expect = e-110
Identities = 125/213 (58%), Positives = 157/213 (73%), Gaps = 5/213 (2%)
Query: 68 IRIGTRGSPLALAQAHETRNKLMALHPELAQEGAIQIVIIKTTGDKILSQPLADIGGKGL 127
IRIGTR S LAL QA + KL L+P++ +IV IKTTGDKIL +PLA IGGKGL
Sbjct: 2 IRIGTRKSKLALIQAEYVKEKLKKLYPDIE----FEIVTIKTTGDKILDKPLAKIGGKGL 57
Query: 128 FTKEIDEALINSQIDIAVHSMKDVPTYLPEKTILPCNLQREDVRDAFISLSAASLAELPA 187
FTKE++EAL+N++IDIAVHS+KDVPT LPE +L +RED RDA +S + SL +LPA
Sbjct: 58 FTKELEEALLNNEIDIAVHSLKDVPTELPEGLVLGAIPKREDPRDALVSSNGKSLEDLPA 117
Query: 188 GSIVGTASLRRKSQILHRYPSLKVMENFRGNVQTRLRKLNERVVQATLLALAGLKRLSMT 247
GS+VGT+SLRR +Q+ + P LK E+ RGNV TRLRKL+E A +LA AGLKRL +
Sbjct: 118 GSVVGTSSLRRSAQLKRKRPDLKF-ESLRGNVDTRLRKLDEGEYDAIILAAAGLKRLGLE 176
Query: 248 ENVTNILSVDDMLPAVAQGAIGIACRSNDEKMV 280
+ +T LS DDMLPAV QGA+GI CR D++M+
Sbjct: 177 DRITQSLSPDDMLPAVGQGALGIECRKGDKEML 209
>gnl|CDD|223259 COG0181, HemC, Porphobilinogen deaminase [Coenzyme metabolism].
Length = 307
Score = 300 bits (770), Expect = e-101
Identities = 116/213 (54%), Positives = 152/213 (71%), Gaps = 5/213 (2%)
Query: 68 IRIGTRGSPLALAQAHETRNKLMALHPELAQEGAIQIVIIKTTGDKILSQPLADIGGKGL 127
+RIGTRGS LALAQA+E +L A +P+L ++IV IKT GD+IL +PL+ IGGKGL
Sbjct: 4 LRIGTRGSKLALAQANEVIERLKAAYPDLE----VEIVTIKTKGDRILDKPLSKIGGKGL 59
Query: 128 FTKEIDEALINSQIDIAVHSMKDVPTYLPEKTILPCNLQREDVRDAFISLSAASLAELPA 187
FTKE+++AL+ +IDIAVHS+KDVPT LPE +L +RED RDA +S L ELP
Sbjct: 60 FTKELEQALLEGEIDIAVHSLKDVPTELPEGLVLAAIPEREDPRDALVSRDGYDLEELPE 119
Query: 188 GSIVGTASLRRKSQILHRYPSLKVMENFRGNVQTRLRKLNERVVQATLLALAGLKRLSMT 247
G++VGT+SLRR++Q+ P LK+ E RGNV TRLRKL+E A +LA AGLKRL +
Sbjct: 120 GAVVGTSSLRRQAQLKALRPDLKI-EPLRGNVDTRLRKLDEGEYDAIILAAAGLKRLGLE 178
Query: 248 ENVTNILSVDDMLPAVAQGAIGIACRSNDEKMV 280
+T IL ++ LPA QGA+ I CR+ DEK++
Sbjct: 179 NRITEILDPEEFLPAPGQGALAIECRAGDEKVL 211
>gnl|CDD|232876 TIGR00212, hemC, porphobilinogen deaminase. Alternate name
hydroxymethylbilane synthase Biosynthesis of cofactors,
prosthetic groups, and carriers: Heme and porphyrin
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Heme, porphyrin, and cobalamin].
Length = 292
Score = 285 bits (732), Expect = 6e-96
Identities = 116/213 (54%), Positives = 151/213 (70%), Gaps = 5/213 (2%)
Query: 68 IRIGTRGSPLALAQAHETRNKLMALHPELAQEGAIQIVIIKTTGDKILSQPLADIGGKGL 127
+RIGTRGS LALAQA+ R +L A++PEL +IVIIKTTGDKI +PL DIGGKGL
Sbjct: 1 LRIGTRGSKLALAQANLVREQLKAVYPELD----TEIVIIKTTGDKIQDKPLYDIGGKGL 56
Query: 128 FTKEIDEALINSQIDIAVHSMKDVPTYLPEKTILPCNLQREDVRDAFISLSAASLAELPA 187
FTKE+++AL++ +ID+AVHS+KDVPT LPE + L+RED RD +S SL LP
Sbjct: 57 FTKELEQALLDGEIDLAVHSLKDVPTVLPEGLEIAAVLKREDPRDVLVSRKYLSLDSLPQ 116
Query: 188 GSIVGTASLRRKSQILHRYPSLKVMENFRGNVQTRLRKLNERVVQATLLALAGLKRLSMT 247
G+ VGT+SLRRK+Q+ P LK +E RGN+ TRLRKL+E A +LA AGLKRL +
Sbjct: 117 GAKVGTSSLRRKAQLKAIRPDLK-IEPLRGNIDTRLRKLDEGEYDAIILAEAGLKRLGLE 175
Query: 248 ENVTNILSVDDMLPAVAQGAIGIACRSNDEKMV 280
+ +T +L + MLPA QGAI + CR +D ++
Sbjct: 176 DVITEVLDPEVMLPAPGQGAIAVECRKDDTEIK 208
>gnl|CDD|167150 PRK01066, PRK01066, porphobilinogen deaminase; Provisional.
Length = 231
Score = 111 bits (279), Expect = 4e-29
Identities = 63/213 (29%), Positives = 98/213 (46%), Gaps = 12/213 (5%)
Query: 68 IRIGTRGSPLALAQAHETRNKLMALHPELAQEGAIQIVIIKTTGDKILSQPLADIGGKGL 127
+RI +R S LA+AQ HE L + P+L QI T GD PL + G
Sbjct: 18 LRIASRQSSLAVAQVHECLRLLRSFFPKLW----FQISTTTTQGDLDQKTPLHLVENTGF 73
Query: 128 FTKEIDEALINSQIDIAVHSMKDVPTYLPEKTILPCNLQREDVRDAFISLSAASLAELPA 187
FT ++D +++ Q D+A+HS KD+P P K + D RD + LP
Sbjct: 74 FTDDVDFLVLSGQCDLAIHSAKDLPE--PPKLTVVAITAGLDPRDLLVYAEKYLSQPLPR 131
Query: 188 GSIVGTASLRRKSQILHRYPSLKVMENFRGNVQTRLRKLNERVVQATLLALAGLKRLSMT 247
+G++SLRR+ + +PS +++ RG ++ RL+ L E+ A ++A A + RL +
Sbjct: 132 RPRIGSSSLRREELLKLLFPSGIILD-IRGTIEERLKLLEEKKYDAIVVAKAAVLRLGLR 190
Query: 248 ENVTNILSVDDMLPAVA-QGAIGIACRSNDEKM 279
T L P QG + I +
Sbjct: 191 LPYTKELPP----PYHPLQGRLAITASKHIRSW 219
>gnl|CDD|235958 PRK07194, fliG, flagellar motor switch protein G; Reviewed.
Length = 334
Score = 29.6 bits (67), Expect = 2.0
Identities = 17/49 (34%), Positives = 29/49 (59%), Gaps = 6/49 (12%)
Query: 56 RASAAVETKVAIIRIGTRGSPLALAQAHETRNKLMALHPELAQEGAIQI 104
R + A+E I R+G P+ L++ + R ++MAL ELA+ G I++
Sbjct: 283 RQAQALEA--QIERLG----PVPLSRVEQARKEIMALVRELAEAGEIEL 325
>gnl|CDD|163447 TIGR03735, PRTRC_A, PRTRC system protein A. A novel genetic system
characterized by six major proteins, included a ParB
homolog and a ThiF homolog, is designated PRTRC, or
ParB-Related,ThiF-Related Cassette. It is often found on
plasmids. This protein family is designated protein A.
Length = 192
Score = 28.5 bits (64), Expect = 3.8
Identities = 25/117 (21%), Positives = 48/117 (41%), Gaps = 17/117 (14%)
Query: 88 KLMALHPELA--QEGAIQIVIIKTTGDKILSQPLADIGGKGLFTKEIDEALINSQIDIAV 145
L A+ P +A + G ++ ++ G + + + G++ +E+ +++ +A
Sbjct: 3 ILQAVFPTVAAPRFGVLEP--LEKPGHRFI------VAADGVW-REVRRPWLHAIQRVAP 53
Query: 146 HSMKDVPTY--LPEKTILPCNLQREDVRDAFISLSAASLAELPAGSIV---GTASLR 197
S VP Y + E C + + F + A+L A IV T SLR
Sbjct: 54 ASPITVP-YGAVEETLEFLCGPIPASLLEEFAEAARAALPNEVAAWIVWNSETGSLR 109
>gnl|CDD|234883 PRK00979, PRK00979, tetrahydromethanopterin S-methyltransferase
subunit H; Provisional.
Length = 308
Score = 28.8 bits (65), Expect = 4.0
Identities = 19/56 (33%), Positives = 25/56 (44%), Gaps = 17/56 (30%)
Query: 111 GDKILSQPLADIGGKGLFTKEIDEALINSQIDIAVHSMKDVPTYLPEKTILPCNLQ 166
G KI+S KG+F KE EALIN Q +++ +KT P L
Sbjct: 37 GHKIVSDE-----KKGIFDKEKAEALINRQEELS------------DKTGNPALLD 75
>gnl|CDD|222097 pfam13393, tRNA-synt_His, Histidyl-tRNA synthetase. This is a
family of class II aminoacyl-tRNA synthetase-like and
ATP phosphoribosyltransferase regulatory subunits.
Length = 308
Score = 27.5 bits (62), Expect = 9.7
Identities = 12/51 (23%), Positives = 18/51 (35%)
Query: 166 QREDVRDAFISLSAASLAELPAGSIVGTASLRRKSQILHRYPSLKVMENFR 216
Q E +RDA L EL A + A + Y +V++
Sbjct: 169 QEEALRDALQRKDLPELEELLAELGLDPALADALLALPELYGDPEVLDEAL 219
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
0.320 0.133 0.376
Gapped
Lambda K H
0.267 0.0791 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 16,230,583
Number of extensions: 1562307
Number of successful extensions: 1308
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1294
Number of HSP's successfully gapped: 19
Length of query: 326
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 229
Effective length of database: 6,635,264
Effective search space: 1519475456
Effective search space used: 1519475456
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: 59 (26.4 bits)