RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 026500
(237 letters)
>gnl|CDD|215373 PLN02691, PLN02691, porphobilinogen deaminase.
Length = 351
Score = 375 bits (965), Expect = e-132
Identities = 157/193 (81%), Positives = 175/193 (90%), Gaps = 1/193 (0%)
Query: 1 MALHPELAQEGAIQIVIIKTTGDKILSQPLADIGGKGLFTKEIDEALINSQIDIAVHSMK 60
A HPELA+EGA++IVIIKTTGDKIL QPLADIGGKGLFTKEID+AL++ +IDIAVHSMK
Sbjct: 66 KAAHPELAEEGALEIVIIKTTGDKILDQPLADIGGKGLFTKEIDDALLSGRIDIAVHSMK 125
Query: 61 DVPTYLPEKTILPCNLQREDVRDAFISLSAASLAELPAGSIVGTASLRRKSQILHRYPSL 120
DVPTYLPE TILPCNL REDVRDAFISL A SLAELPAGS+VGTASLRR+SQILH+YP L
Sbjct: 126 DVPTYLPEGTILPCNLPREDVRDAFISLKAKSLAELPAGSVVGTASLRRQSQILHKYPHL 185
Query: 121 KVMENFRGNVQTRLRKLNERVVQATLLALAGLKRLSMTENVTNILSVDDMLPAVAQGAIG 180
KV NFRGNVQTRLRKL E VV ATLLALAGLKRL MTE+ T+ILS D+MLPAVAQGAIG
Sbjct: 186 KV-VNFRGNVQTRLRKLQEGVVDATLLALAGLKRLDMTEHATSILSTDEMLPAVAQGAIG 244
Query: 181 IACRSNDEKMVPF 193
IACR++D+KM+ +
Sbjct: 245 IACRTDDDKMLEY 257
>gnl|CDD|234612 PRK00072, hemC, porphobilinogen deaminase; Reviewed.
Length = 295
Score = 292 bits (751), Expect = e-100
Identities = 102/190 (53%), Positives = 135/190 (71%), Gaps = 5/190 (2%)
Query: 1 MALHPELAQEGAIQIVIIKTTGDKILSQPLADIGGKGLFTKEIDEALINSQIDIAVHSMK 60
A HP L +++V IKT GDKIL PLA IGGKGLF KE++EAL+ +IDIAVHS+K
Sbjct: 27 KAAHPGLE----VELVPIKTKGDKILDVPLAKIGGKGLFVKELEEALLEGEIDIAVHSLK 82
Query: 61 DVPTYLPEKTILPCNLQREDVRDAFISLSAASLAELPAGSIVGTASLRRKSQILHRYPSL 120
DVPT LPE +L +RED RDA +S SL +LP G++VGT+SLRR++Q+L P L
Sbjct: 83 DVPTELPEGLVLAAIPEREDPRDALVSRDYKSLDDLPEGAVVGTSSLRRQAQLLALRPDL 142
Query: 121 KVMENFRGNVQTRLRKLNERVVQATLLALAGLKRLSMTENVTNILSVDDMLPAVAQGAIG 180
++ + RGNV TRLRKL+E A +LA AGLKRL + + +T L ++MLPA QGA+G
Sbjct: 143 EI-KPLRGNVDTRLRKLDEGEYDAIILAAAGLKRLGLEDRITEYLDPEEMLPAPGQGALG 201
Query: 181 IACRSNDEKM 190
I CR++DE++
Sbjct: 202 IECRADDEEI 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 = 287 bits (737), Expect = 3e-98
Identities = 108/191 (56%), Positives = 140/191 (73%), Gaps = 5/191 (2%)
Query: 1 MALHPELAQEGAIQIVIIKTTGDKILSQPLADIGGKGLFTKEIDEALINSQIDIAVHSMK 60
L P + ++IVIIKTTGDKIL +PLA IGGKGLFTKE++EAL+N +ID+AVHS+K
Sbjct: 23 KELCPGIE----VEIVIIKTTGDKILDKPLAKIGGKGLFTKELEEALLNGEIDLAVHSLK 78
Query: 61 DVPTYLPEKTILPCNLQREDVRDAFISLSAASLAELPAGSIVGTASLRRKSQILHRYPSL 120
DVPT LPE +L +RED RDA +S + +SL +LPAGS+VGT+SLRR++Q+ + P L
Sbjct: 79 DVPTELPEGLVLGAIPKREDPRDALVSRNGSSLEDLPAGSVVGTSSLRRQAQLKRKRPDL 138
Query: 121 KVMENFRGNVQTRLRKLNERVVQATLLALAGLKRLSMTENVTNILSVDDMLPAVAQGAIG 180
K E RGNV TRLRKL+E A +LA AGLKRL + + +T LS + MLPAV QGA+
Sbjct: 139 K-FEPLRGNVDTRLRKLDEGEYDAIILAAAGLKRLGLEDRITQYLSPEVMLPAVGQGALA 197
Query: 181 IACRSNDEKMV 191
I CR DE+++
Sbjct: 198 IECRKGDEELL 208
>gnl|CDD|216465 pfam01379, Porphobil_deam, Porphobilinogen deaminase, dipyromethane
cofactor binding domain.
Length = 213
Score = 281 bits (722), Expect = 5e-97
Identities = 111/191 (58%), Positives = 142/191 (74%), Gaps = 5/191 (2%)
Query: 1 MALHPELAQEGAIQIVIIKTTGDKILSQPLADIGGKGLFTKEIDEALINSQIDIAVHSMK 60
L+P++ +IV IKTTGDKIL +PLA IGGKGLFTKE++EAL+N++IDIAVHS+K
Sbjct: 24 KKLYPDIE----FEIVTIKTTGDKILDKPLAKIGGKGLFTKELEEALLNNEIDIAVHSLK 79
Query: 61 DVPTYLPEKTILPCNLQREDVRDAFISLSAASLAELPAGSIVGTASLRRKSQILHRYPSL 120
DVPT LPE +L +RED RDA +S + SL +LPAGS+VGT+SLRR +Q+ + P L
Sbjct: 80 DVPTELPEGLVLGAIPKREDPRDALVSSNGKSLEDLPAGSVVGTSSLRRSAQLKRKRPDL 139
Query: 121 KVMENFRGNVQTRLRKLNERVVQATLLALAGLKRLSMTENVTNILSVDDMLPAVAQGAIG 180
K E+ RGNV TRLRKL+E A +LA AGLKRL + + +T LS DDMLPAV QGA+G
Sbjct: 140 KF-ESLRGNVDTRLRKLDEGEYDAIILAAAGLKRLGLEDRITQSLSPDDMLPAVGQGALG 198
Query: 181 IACRSNDEKMV 191
I CR D++M+
Sbjct: 199 IECRKGDKEML 209
>gnl|CDD|223259 COG0181, HemC, Porphobilinogen deaminase [Coenzyme metabolism].
Length = 307
Score = 258 bits (661), Expect = 2e-86
Identities = 101/191 (52%), Positives = 134/191 (70%), Gaps = 5/191 (2%)
Query: 1 MALHPELAQEGAIQIVIIKTTGDKILSQPLADIGGKGLFTKEIDEALINSQIDIAVHSMK 60
A +P+L ++IV IKT GD+IL +PL+ IGGKGLFTKE+++AL+ +IDIAVHS+K
Sbjct: 26 KAAYPDLE----VEIVTIKTKGDRILDKPLSKIGGKGLFTKELEQALLEGEIDIAVHSLK 81
Query: 61 DVPTYLPEKTILPCNLQREDVRDAFISLSAASLAELPAGSIVGTASLRRKSQILHRYPSL 120
DVPT LPE +L +RED RDA +S L ELP G++VGT+SLRR++Q+ P L
Sbjct: 82 DVPTELPEGLVLAAIPEREDPRDALVSRDGYDLEELPEGAVVGTSSLRRQAQLKALRPDL 141
Query: 121 KVMENFRGNVQTRLRKLNERVVQATLLALAGLKRLSMTENVTNILSVDDMLPAVAQGAIG 180
K+ E RGNV TRLRKL+E A +LA AGLKRL + +T IL ++ LPA QGA+
Sbjct: 142 KI-EPLRGNVDTRLRKLDEGEYDAIILAAAGLKRLGLENRITEILDPEEFLPAPGQGALA 200
Query: 181 IACRSNDEKMV 191
I CR+ DEK++
Sbjct: 201 IECRAGDEKVL 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 = 247 bits (634), Expect = 1e-82
Identities = 101/190 (53%), Positives = 133/190 (70%), Gaps = 5/190 (2%)
Query: 2 ALHPELAQEGAIQIVIIKTTGDKILSQPLADIGGKGLFTKEIDEALINSQIDIAVHSMKD 61
A++PEL +IVIIKTTGDKI +PL DIGGKGLFTKE+++AL++ +ID+AVHS+KD
Sbjct: 24 AVYPELD----TEIVIIKTTGDKIQDKPLYDIGGKGLFTKELEQALLDGEIDLAVHSLKD 79
Query: 62 VPTYLPEKTILPCNLQREDVRDAFISLSAASLAELPAGSIVGTASLRRKSQILHRYPSLK 121
VPT LPE + L+RED RD +S SL LP G+ VGT+SLRRK+Q+ P LK
Sbjct: 80 VPTVLPEGLEIAAVLKREDPRDVLVSRKYLSLDSLPQGAKVGTSSLRRKAQLKAIRPDLK 139
Query: 122 VMENFRGNVQTRLRKLNERVVQATLLALAGLKRLSMTENVTNILSVDDMLPAVAQGAIGI 181
+E RGN+ TRLRKL+E A +LA AGLKRL + + +T +L + MLPA QGAI +
Sbjct: 140 -IEPLRGNIDTRLRKLDEGEYDAIILAEAGLKRLGLEDVITEVLDPEVMLPAPGQGAIAV 198
Query: 182 ACRSNDEKMV 191
CR +D ++
Sbjct: 199 ECRKDDTEIK 208
>gnl|CDD|167150 PRK01066, PRK01066, porphobilinogen deaminase; Provisional.
Length = 231
Score = 88.3 bits (219), Expect = 3e-21
Identities = 50/179 (27%), Positives = 80/179 (44%), Gaps = 8/179 (4%)
Query: 13 IQIVIIKTTGDKILSQPLADIGGKGLFTKEIDEALINSQIDIAVHSMKDVPTYLPEKTIL 72
QI T GD PL + G FT ++D +++ Q D+A+HS KD+P P K +
Sbjct: 48 FQISTTTTQGDLDQKTPLHLVENTGFFTDDVDFLVLSGQCDLAIHSAKDLPE--PPKLTV 105
Query: 73 PCNLQREDVRDAFISLSAASLAELPAGSIVGTASLRRKSQILHRYPSLKVMENFRGNVQT 132
D RD + LP +G++SLRR+ + +PS +++ RG ++
Sbjct: 106 VAITAGLDPRDLLVYAEKYLSQPLPRRPRIGSSSLRREELLKLLFPSGIILD-IRGTIEE 164
Query: 133 RLRKLNERVVQATLLALAGLKRLSMTENVTNILSVDDMLPAVA-QGAIGIACRSNDEKM 190
RL+ L E+ A ++A A + RL + T L P QG + I +
Sbjct: 165 RLKLLEEKKYDAIVVAKAAVLRLGLRLPYTKELPP----PYHPLQGRLAITASKHIRSW 219
>gnl|CDD|234883 PRK00979, PRK00979, tetrahydromethanopterin S-methyltransferase
subunit H; Provisional.
Length = 308
Score = 28.4 bits (64), Expect = 3.1
Identities = 19/56 (33%), Positives = 25/56 (44%), Gaps = 17/56 (30%)
Query: 22 GDKILSQPLADIGGKGLFTKEIDEALINSQIDIAVHSMKDVPTYLPEKTILPCNLQ 77
G KI+S KG+F KE EALIN Q +++ +KT P L
Sbjct: 37 GHKIVSDE-----KKGIFDKEKAEALINRQEELS------------DKTGNPALLD 75
>gnl|CDD|236394 PRK09169, PRK09169, hypothetical protein; Validated.
Length = 2316
Score = 28.1 bits (63), Expect = 4.7
Identities = 28/129 (21%), Positives = 37/129 (28%), Gaps = 21/129 (16%)
Query: 81 VRDAFISLSAASLAELPAGSIVGTASLRRKS----QILHRYP-SLKVMENFRGNVQTRLR 135
VR A + A +R S Q L YP V+E R ++ RL+
Sbjct: 1272 VRQAMEAWQAVRAGRATEAQQQLAFPEQRMSSLPPQALQHYPRDEAVLEEAREALRRRLQ 1331
Query: 136 KLNERVVQATLLALAGLKRLSMTENVTNILSVDDMLPAVAQGAIGIACRSND-------E 188
L L L + E +T +G G A S D E
Sbjct: 1332 SLAALWATDPADGPRRLDTLKLYELLTG---------GGIEGVQGRAVPSADDKLHLPTE 1382
Query: 189 KMVPFTTHS 197
K F
Sbjct: 1383 KSQVFDRTG 1391
>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 = 6.3
Identities = 12/51 (23%), Positives = 18/51 (35%)
Query: 77 QREDVRDAFISLSAASLAELPAGSIVGTASLRRKSQILHRYPSLKVMENFR 127
Q E +RDA L EL A + A + Y +V++
Sbjct: 169 QEEALRDALQRKDLPELEELLAELGLDPALADALLALPELYGDPEVLDEAL 219
>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 = 26.9 bits (60), Expect = 8.4
Identities = 20/95 (21%), Positives = 37/95 (38%), Gaps = 13/95 (13%)
Query: 19 KTTGDKILSQPLADIGGKGLFTKEIDEALINSQIDIAVHSMKDVPTY--LPEKTILPCNL 76
+ G + + + G++ +E+ +++ +A S VP Y + E C
Sbjct: 23 EKPGHRFI------VAADGVW-REVRRPWLHAIQRVAPASPITVP-YGAVEETLEFLCGP 74
Query: 77 QREDVRDAFISLSAASLAELPAGSIV---GTASLR 108
+ + F + A+L A IV T SLR
Sbjct: 75 IPASLLEEFAEAARAALPNEVAAWIVWNSETGSLR 109
>gnl|CDD|172658 PRK14170, PRK14170, bifunctional 5,10-methylene-tetrahydrofolate
dehydrogenase/ 5,10-methylene-tetrahydrofolate
cyclohydrolase; Provisional.
Length = 284
Score = 27.0 bits (59), Expect = 9.2
Identities = 19/60 (31%), Positives = 30/60 (50%), Gaps = 2/60 (3%)
Query: 15 IVIIKTTGDKILSQPLADIGGKGLFTKEIDEALI--NSQIDIAVHSMKDVPTYLPEKTIL 72
I +IK+TG +I + IG + K + + L+ N+ + IA KD+P E IL
Sbjct: 145 IELIKSTGTQIEGKRAVVIGRSNIVGKPVAQLLLNENATVTIAHSRTKDLPQVAKEADIL 204
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
0.321 0.135 0.380
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: 11,981,372
Number of extensions: 1128180
Number of successful extensions: 923
Number of sequences better than 10.0: 1
Number of HSP's gapped: 915
Number of HSP's successfully gapped: 19
Length of query: 237
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 143
Effective length of database: 6,768,326
Effective search space: 967870618
Effective search space used: 967870618
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 57 (25.6 bits)