RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4797
(333 letters)
>3olj_A Ribonucleoside-diphosphate reductase subunit M2; metal-binding,
HRRM2, oxidoreductase; 2.10A {Homo sapiens}
Length = 286
Score = 160 bits (407), Expect = 1e-47
Identities = 108/212 (50%), Positives = 120/212 (56%), Gaps = 50/212 (23%)
Query: 86 NVETEPLLRDNPRRFVIFPIQYQDIWKMYKKAEASFWTAEEV-------DLSKV------ 132
VE EPLLR+NPRRFVIFPI+Y DIW+MYKKAEASFWTAEEV +
Sbjct: 2 GVEDEPLLRENPRRFVIFPIEYHDIWQMYKKAEASFWTAEEVDLSKDIQHWESLKPEERY 61
Query: 133 --------------------------VVTNFEIRA--LKTGEEKASHSRNEPYLFRIKLA 164
V E R + HS E Y I
Sbjct: 62 FISHVLAFFAASDGIVNENLVERFSQEVQITEARCFYGFQIAMENIHS--EMYSLLIDT- 118
Query: 165 PGGICRYKVKKGGKITGGKTIETMPCVKKKADWALRWIADEASSFGERVIAFASVEGIFF 224
Y + IETMPCVKKKADWALRWI D+ +++GERV+AFA+VEGIFF
Sbjct: 119 ------YIKDPKEREFLFNAIETMPCVKKKADWALRWIGDKEATYGERVVAFAAVEGIFF 172
Query: 225 SGSFASIFWLKKRGLMPGLTFSNELISRDEDL 256
SGSFASIFWLKKRGLMPGLTFSNELISRDE L
Sbjct: 173 SGSFASIFWLKKRGLMPGLTFSNELISRDEGL 204
Score = 144 bits (364), Expect = 4e-41
Identities = 67/84 (79%), Positives = 75/84 (89%)
Query: 250 ISRDEDLSHWNKLTRDEKYFISHVLAFFAASDGIVNENLVERFTQEVQITEARCFYGFQI 309
+ +D+ HW L +E+YFISHVLAFFAASDGIVNENLVERF+QEVQITEARCFYGFQI
Sbjct: 43 VDLSKDIQHWESLKPEERYFISHVLAFFAASDGIVNENLVERFSQEVQITEARCFYGFQI 102
Query: 310 AMENVHSEMYSLLIDTYIKDQEER 333
AMEN+HSEMYSLLIDTYIKD +ER
Sbjct: 103 AMENIHSEMYSLLIDTYIKDPKER 126
>2o1z_A Ribonucleotide reductase subunit R2; small subunit ribonucleotide
reductase, oxidoreductase, DNA replication, iron,
DIIRON, radical, R2 subunit; 2.40A {Plasmodium vivax}
Length = 311
Score = 156 bits (396), Expect = 2e-45
Identities = 53/80 (66%), Positives = 65/80 (81%)
Query: 254 EDLSHWNKLTRDEKYFISHVLAFFAASDGIVNENLVERFTQEVQITEARCFYGFQIAMEN 313
DL + KL +EK+FI HVLAFFAASDGIV ENL +F ++V+ITEA+ FY FQIA+EN
Sbjct: 71 SDLKDFEKLNDNEKHFIKHVLAFFAASDGIVLENLASKFLRQVKITEAKKFYAFQIAVEN 130
Query: 314 VHSEMYSLLIDTYIKDQEER 333
+HSE YSLLID YIKD++ER
Sbjct: 131 IHSETYSLLIDNYIKDEKER 150
Score = 98.7 bits (246), Expect = 7e-24
Identities = 45/74 (60%), Positives = 55/74 (74%), Gaps = 1/74 (1%)
Query: 183 KTIETMPCVKKKADWALRWIADEASSFGERVIAFASVEGIFFSGSFASIFWLKKRGLMPG 242
IE +P VK KA WA +WI ++ +SF ER++A A VEGI FSGSF +IFW KK+ + G
Sbjct: 155 HAIENIPAVKNKALWAAKWI-NDTNSFAERIVANACVEGILFSGSFCAIFWFKKQNKLHG 213
Query: 243 LTFSNELISRDEDL 256
LTFSNELISRDE L
Sbjct: 214 LTFSNELISRDEGL 227
Score = 89.5 bits (222), Expect = 1e-20
Identities = 27/55 (49%), Positives = 34/55 (61%)
Query: 77 KQVSAPVQENVETEPLLRDNPRRFVIFPIQYQDIWKMYKKAEASFWTAEEVDLSK 131
K+ S + E +L RF ++PI Y D+W YKKAEASFWTAEE+DLS
Sbjct: 17 KKFSDLQKSKEANEKILSKETDRFTLYPILYPDVWDFYKKAEASFWTAEEIDLSS 71
>1h0o_A Ribonucleoside-diphosphate reductase; oxidoreductase,
ribonucleotide reductase, dinuclear metal-cluster; 2.2A
{Mus musculus} SCOP: a.25.1.2 PDB: 1h0n_A 1w68_A 1w69_A
1xsm_A 2uw2_A 3hf1_A 2vux_A
Length = 390
Score = 158 bits (400), Expect = 2e-45
Identities = 66/80 (82%), Positives = 74/80 (92%)
Query: 254 EDLSHWNKLTRDEKYFISHVLAFFAASDGIVNENLVERFTQEVQITEARCFYGFQIAMEN 313
+D+ HW L DE++FISHVLAFFAASDGIVNENLVERF+QEVQ+TEARCFYGFQIAMEN
Sbjct: 112 KDIQHWEALKPDERHFISHVLAFFAASDGIVNENLVERFSQEVQVTEARCFYGFQIAMEN 171
Query: 314 VHSEMYSLLIDTYIKDQEER 333
+HSEMYSLLIDTYIKD +ER
Sbjct: 172 IHSEMYSLLIDTYIKDPKER 191
Score = 105 bits (264), Expect = 5e-26
Identities = 63/74 (85%), Positives = 69/74 (93%)
Query: 183 KTIETMPCVKKKADWALRWIADEASSFGERVIAFASVEGIFFSGSFASIFWLKKRGLMPG 242
IETMPCVKKKADWALRWI D+ +++GERV+AFA+VEGIFFSGSFASIFWLKKRGLMPG
Sbjct: 196 NAIETMPCVKKKADWALRWIGDKEATYGERVVAFAAVEGIFFSGSFASIFWLKKRGLMPG 255
Query: 243 LTFSNELISRDEDL 256
LTFSNELISRDE L
Sbjct: 256 LTFSNELISRDEGL 269
Score = 95.0 bits (236), Expect = 3e-22
Identities = 46/81 (56%), Positives = 56/81 (69%)
Query: 51 NTLKDLTNNLQQSKLSDSPIKDKSTLKQVSAPVQENVETEPLLRDNPRRFVIFPIQYQDI 110
NT L++ + + I S + AP +VE EPLLR+NPRRFV+FPI+Y DI
Sbjct: 32 NTPPTLSSTRVLASKAARRIFQDSAELESKAPTNPSVEDEPLLRENPRRFVVFPIEYHDI 91
Query: 111 WKMYKKAEASFWTAEEVDLSK 131
W+MYKKAEASFWTAEEVDLSK
Sbjct: 92 WQMYKKAEASFWTAEEVDLSK 112
>2p1i_A Ribonucleotide reductase, small chain; F222 twinning, plasmodb
PY03671, S genomics consortium, SGC, oxidoreductase;
2.70A {Plasmodium yoelii yoelii}
Length = 349
Score = 155 bits (393), Expect = 1e-44
Identities = 53/80 (66%), Positives = 64/80 (80%)
Query: 254 EDLSHWNKLTRDEKYFISHVLAFFAASDGIVNENLVERFTQEVQITEARCFYGFQIAMEN 313
DL + KL +EK+FI HVLAFFAASDGIV ENL +F +EV+I EA+ FY FQIA+EN
Sbjct: 72 SDLKDFEKLNVNEKHFIKHVLAFFAASDGIVLENLASKFLREVEIIEAKKFYSFQIAVEN 131
Query: 314 VHSEMYSLLIDTYIKDQEER 333
+HSE YSLLID YIKD++ER
Sbjct: 132 IHSETYSLLIDNYIKDEKER 151
Score = 99 bits (249), Expect = 4e-24
Identities = 44/74 (59%), Positives = 55/74 (74%), Gaps = 1/74 (1%)
Query: 183 KTIETMPCVKKKADWALRWIADEASSFGERVIAFASVEGIFFSGSFASIFWLKKRGLMPG 242
IE +P +K KA WA +WI ++ +SF ER++A A VEGI FSGSF +IFW KK+ + G
Sbjct: 156 HAIENIPAIKNKALWAAKWI-NDTNSFAERIVANACVEGILFSGSFCAIFWFKKQNKLHG 214
Query: 243 LTFSNELISRDEDL 256
LTFSNELISRDE L
Sbjct: 215 LTFSNELISRDEGL 228
Score = 88.4 bits (219), Expect = 5e-20
Identities = 26/55 (47%), Positives = 33/55 (60%)
Query: 77 KQVSAPVQENVETEPLLRDNPRRFVIFPIQYQDIWKMYKKAEASFWTAEEVDLSK 131
K+ S + E +L RF + PI Y ++W YKKAEASFWTAEE+DLS
Sbjct: 18 KEFSDFQKSKESNEKILNKESNRFTLHPIMYPEVWNFYKKAEASFWTAEEIDLSS 72
>1jk0_B RNR Y4, ribonucleoside-diphosphate reductase small chain 2;
ribonucleotide reductase, oxidoreductase; 2.80A
{Saccharomyces cerevisiae} SCOP: a.25.1.2 PDB: 1sms_A
Length = 345
Score = 150 bits (381), Expect = 5e-43
Identities = 34/80 (42%), Positives = 56/80 (70%)
Query: 254 EDLSHWNKLTRDEKYFISHVLAFFAASDGIVNENLVERFTQEVQITEARCFYGFQIAMEN 313
+D + KLT D+K +I ++LA +SD +VN+ L+E F+ ++Q E + FYGFQI MEN
Sbjct: 66 KDTEDFQKLTDDQKTYIGNLLALSISSDNLVNKYLIENFSAQLQNPEGKSFYGFQIMMEN 125
Query: 314 VHSEMYSLLIDTYIKDQEER 333
++SE+YS+++D + KD +
Sbjct: 126 IYSEVYSMMVDAFFKDPKNI 145
Score = 99 bits (249), Expect = 4e-24
Identities = 34/74 (45%), Positives = 50/74 (67%)
Query: 183 KTIETMPCVKKKADWALRWIADEASSFGERVIAFASVEGIFFSGSFASIFWLKKRGLMPG 242
K I +P VK KA + RWI+++ S + ER++AFA+ EGIF +G++AS+FWL + +MPG
Sbjct: 149 KEIANLPEVKHKAAFIERWISNDDSLYAERLVAFAAKEGIFQAGNYASMFWLTDKKIMPG 208
Query: 243 LTFSNELISRDEDL 256
L +N I RD
Sbjct: 209 LAMANRNICRDRGA 222
Score = 89.5 bits (222), Expect = 2e-20
Identities = 30/58 (51%), Positives = 42/58 (72%)
Query: 74 STLKQVSAPVQENVETEPLLRDNPRRFVIFPIQYQDIWKMYKKAEASFWTAEEVDLSK 131
T ++ ++E + E LL +N RRFV+FPI+Y +IW YKK EASFWTAEE++L+K
Sbjct: 9 KTFQKERHDMKEAEKDEILLMENSRRFVMFPIKYHEIWAAYKKVEASFWTAEEIELAK 66
>4a58_A Ribonucleoside-diphosphate reductase small chain; oxidoreductase,
epstein-BARR virus, R2 subunit; 1.68A {Human herpesvirus
4} PDB: 4a5c_A 4a5d_A 4a5e_A 4a5f_A 4a5h_A 4a5i_A 4a5j_A
Length = 324
Score = 145 bits (367), Expect = 4e-41
Identities = 18/80 (22%), Positives = 32/80 (40%), Gaps = 1/80 (1%)
Query: 254 EDLSHWNKLTRDEKYFISHVLAFFAASDGIVNENLVERFTQEVQITEARCFYGFQIAMEN 313
+D L + F + F A ++ +VN N+ + + +Y Q AMEN
Sbjct: 56 KDCGCLKLLNERDLEFYKFLFTFLAMAEKLVNFNID-ELVTSFESHDIDHYYTEQKAMEN 114
Query: 314 VHSEMYSLLIDTYIKDQEER 333
VH E Y+ +++
Sbjct: 115 VHGETYANILNMLFDGDRAA 134
Score = 130 bits (330), Expect = 1e-35
Identities = 30/72 (41%), Positives = 41/72 (56%), Gaps = 1/72 (1%)
Query: 185 IETMPCVKKKADWALRWIADEASSFGERVIAFASVEGIFFSGSFASIFWLKKRGLMPGLT 244
I T ++ K W + A + E+++ F +EGIFF SF SI L+ RGLMPG+
Sbjct: 142 IMTDEALQAKISWLRDKV-AAAVTLPEKILVFLLIEGIFFISSFYSIALLRVRGLMPGIC 200
Query: 245 FSNELISRDEDL 256
+N ISRDE L
Sbjct: 201 LANNYISRDELL 212
Score = 73.1 bits (180), Expect = 8e-15
Identities = 6/54 (11%), Positives = 21/54 (38%), Gaps = 2/54 (3%)
Query: 80 SAPVQENVETEPLLR--DNPRRFVIFPIQYQDIWKMYKKAEASFWTAEEVDLSK 131
++E+ L + + +++ ++ + + + W A + L+K
Sbjct: 3 PHHHHHHLESTSLYKKAGSAMSKLLYVRDHEGFACLTVETHRNRWFAAHIVLTK 56
>1jk0_A RNR Y2, ribonucleoside-diphosphate reductase small chain 1;
ribonucleotide reductase, oxidoreductase; 2.80A
{Saccharomyces cerevisiae} SCOP: a.25.1.2 PDB: 1smq_A
Length = 419
Score = 145 bits (367), Expect = 2e-40
Identities = 56/85 (65%), Positives = 68/85 (80%), Gaps = 1/85 (1%)
Query: 250 ISRDEDLSHW-NKLTRDEKYFISHVLAFFAASDGIVNENLVERFTQEVQITEARCFYGFQ 308
I +D+ W N++ +E++FIS VLAFFAASDGIVNENLVE F+ EVQI EA+ FYGFQ
Sbjct: 133 IDLSKDIHDWNNRMNENERFFISRVLAFFAASDGIVNENLVENFSTEVQIPEAKSFYGFQ 192
Query: 309 IAMENVHSEMYSLLIDTYIKDQEER 333
I +EN+HSE YSLLIDTYIKD +E
Sbjct: 193 IMIENIHSETYSLLIDTYIKDPKES 217
Score = 98.1 bits (244), Expect = 4e-23
Identities = 53/72 (73%), Positives = 63/72 (87%)
Query: 185 IETMPCVKKKADWALRWIADEASSFGERVIAFASVEGIFFSGSFASIFWLKKRGLMPGLT 244
I T+P + +KA+WALRWI D + FGER++AFAS+EG+FFSGSFASIFWLKKRG+MPGLT
Sbjct: 224 IHTIPEIGEKAEWALRWIQDADALFGERLVAFASIEGVFFSGSFASIFWLKKRGMMPGLT 283
Query: 245 FSNELISRDEDL 256
FSNELI RDE L
Sbjct: 284 FSNELICRDEGL 295
Score = 93.1 bits (231), Expect = 2e-21
Identities = 35/88 (39%), Positives = 52/88 (59%), Gaps = 3/88 (3%)
Query: 47 FLPQNTLKDLTNNLQQSKLSDSPIKDKSTLKQVSAP---VQENVETEPLLRDNPRRFVIF 103
+ +++ + KLS K+ LK ++E + EPLL ++ R V+F
Sbjct: 50 LETLREENRVKSDMLKEKLSKDAENHKAYLKSHQVHRHKLKEMEKEEPLLNEDKERTVLF 109
Query: 104 PIQYQDIWKMYKKAEASFWTAEEVDLSK 131
PI+Y +IW+ YK+AEASFWTAEE+DLSK
Sbjct: 110 PIKYHEIWQAYKRAEASFWTAEEIDLSK 137
>1syy_A Ribonucleoside-diphosphate reductase beta chain; DIIRON, oxygen
activation, iron coupled radical, immune EVAS
replication, oxidoreductase; 1.70A {Chlamydia
trachomatis} SCOP: a.25.1.2 PDB: 4d8g_A 4d8f_A 2ani_A
Length = 346
Score = 141 bits (358), Expect = 1e-39
Identities = 22/81 (27%), Positives = 42/81 (51%), Gaps = 2/81 (2%)
Query: 254 EDLSHW--NKLTRDEKYFISHVLAFFAASDGIVNENLVERFTQEVQITEARCFYGFQIAM 311
+D+ W ++L+ DE+ I L FF+ ++ +V N+V + V EAR + Q
Sbjct: 60 KDIELWKSDRLSEDERRVILLNLGFFSTAESLVGNNIVLAIFKHVTNPEARQYLLRQAFE 119
Query: 312 ENVHSEMYSLLIDTYIKDQEE 332
E VH+ + + ++ D++E
Sbjct: 120 EAVHTHTFLYICESLGLDEKE 140
Score = 113 bits (286), Expect = 3e-29
Identities = 17/85 (20%), Positives = 31/85 (36%), Gaps = 13/85 (15%)
Query: 185 IETMPCVKKKADWALRWI------------ADEASSFGERVIAFASV-EGIFFSGSFASI 231
+K K D+ + + F + ++ + + EGIFF F I
Sbjct: 145 YNERAAIKAKDDFQMEITGKVLDPNFRTDSVEGLQEFVKNLVGYYIIMEGIFFYSGFVMI 204
Query: 232 FWLKKRGLMPGLTFSNELISRDEDL 256
++ M G+ + I RDE +
Sbjct: 205 LSFHRQNKMIGIGEQYQYILRDETI 229
Score = 69.7 bits (171), Expect = 1e-13
Identities = 12/48 (25%), Positives = 23/48 (47%), Gaps = 1/48 (2%)
Query: 85 ENVETEPLLRDNPR-RFVIFPIQYQDIWKMYKKAEASFWTAEEVDLSK 131
N+ ++ L+ N + PI+Y+ W+ Y A+ W E+ + K
Sbjct: 13 VNLNSKRLVNCNQVDVNQLVPIKYKWAWEHYLNGCANNWLPTEIPMGK 60
>4dr0_A Ribonucleoside-diphosphate reductase subunit beta; ribonucleotide
reductase, manganese, oxidoreductase; 1.90A {Bacillus
subtilis}
Length = 350
Score = 126 bits (318), Expect = 8e-34
Identities = 19/81 (23%), Positives = 30/81 (37%), Gaps = 1/81 (1%)
Query: 254 EDLSHWNKLTRDEKYFISHVLAFFAASDGIVNENLVERFTQEVQITEARCFYGFQIAMEN 313
DL W L ++E+ VLA D + + V + + F MEN
Sbjct: 60 GDLLTWKYLGKNEQDTYMKVLAGLTLLDTEQGNTGMPIVAEHVDGHQRKAVLNFMAMMEN 119
Query: 314 -VHSEMYSLLIDTYIKDQEER 333
VH++ YS + T +
Sbjct: 120 AVHAKSYSNIFMTLAPTETIN 140
Score = 94.3 bits (235), Expect = 4e-22
Identities = 18/77 (23%), Positives = 35/77 (45%), Gaps = 6/77 (7%)
Query: 185 IETMPCVKKKADWALRWI----ADEASSFGERVIAFASVEGI-FFSGSFASIFWLKKRGL 239
++ ++KKA + D+ S + ++A +E F+SG + +++ + L
Sbjct: 146 VKQNKYLQKKAQMIVGLYKAIQKDDEISLFKAMVASVYLESFLFYSGFYYPLYFYGQGKL 205
Query: 240 MPGLTFSNELISRDEDL 256
M N LI RDE +
Sbjct: 206 MQSGEIIN-LILRDEAI 221
Score = 53.1 bits (128), Expect = 4e-08
Identities = 7/46 (15%), Positives = 13/46 (28%), Gaps = 1/46 (2%)
Query: 87 VETEPLLRDNPRRFVIF-PIQYQDIWKMYKKAEASFWTAEEVDLSK 131
V + + + Y + FW EE+ L+
Sbjct: 15 VPRGSHMMTKIYDAANWSKHEDDFTQMFYNQNVKQFWLPEEIALNG 60
>3ee4_A Probable ribonucleoside-diphosphate reductase; manganese, iron,
DIIRON, carboxylate, oxidase, ligand, C monooxygenase;
HET: MYR; 1.90A {Mycobacterium tuberculosis}
Length = 323
Score = 122 bits (307), Expect = 2e-32
Identities = 14/83 (16%), Positives = 35/83 (42%), Gaps = 4/83 (4%)
Query: 254 EDLSHWNKLTRDEKYFISHVLAFFAASDGIVNENL---VERFTQEVQITEARCFYGFQIA 310
D + W KL+ DE+ + + + F A + V E++ + E ++ +
Sbjct: 50 RDRADWEKLSDDERDYATRLCTQFIAGEEAVTEDIQPFMSAMRAEGRL-ADEMYLTQFAF 108
Query: 311 MENVHSEMYSLLIDTYIKDQEER 333
E H++++ + +D ++
Sbjct: 109 EEAKHTQVFRMWLDAVGISEDLH 131
Score = 110 bits (276), Expect = 5e-28
Identities = 19/154 (12%), Positives = 49/154 (31%), Gaps = 17/154 (11%)
Query: 185 IETMPCVKKKADWALRWIADE------ASSFGERVIAF-ASVEGIFFSGSFASIF-WLKK 236
++ +P ++ L + ++ + + VEG+ + + +
Sbjct: 134 LDDLPAYRQIFYAELPECLNALSADPSPAAQVRASVTYNHIVEGMLALTGYYAWHKICVE 193
Query: 237 RGLMPGLTFSNELISRDEDLSHWNKLTRDEKYFISHVLAFFAASDGIVNENLVERFTQEV 296
R ++PG+ I DE H T + +A A+ + + E +
Sbjct: 194 RAILPGMQELVRRIGDDERR-HMAWGT----FTCRRHVAADDANWTVFETRMNELIPLAL 248
Query: 297 QITEARCFYGFQIAMENVHSEMYSLLIDTYIKDQ 330
++ E ++ + + Y D+
Sbjct: 249 RLIEEGFALYGDQPPFDLSKDDF----LQYSTDK 278
Score = 60.9 bits (148), Expect = 9e-11
Identities = 7/46 (15%), Positives = 14/46 (30%), Gaps = 6/46 (13%)
Query: 86 NVETEPLLRDNPRRFVIFPIQYQDIWKMYKKAEASFWTAEEVDLSK 131
L + P K++ A FW ++D ++
Sbjct: 11 TRTRSGSLAAGGLNWASLP------LKLFAGGNAKFWHPADIDFTR 50
>1mxr_A Ribonucleotide reductase R2; radical protein, DI iron,
oxidoreductase; 1.42A {Escherichia coli} SCOP: a.25.1.2
PDB: 1jpr_A 1jqc_A 1xik_A 3uus_E* 1yfd_A 1piy_A 1r65_A
2xof_A* 1biq_B* 1rsv_A 1piz_A 1piu_A 1pim_A 1rsr_A
1biq_A* 1rib_A 1mrr_A 1rnr_A* 1pj0_A 1pj1_A ...
Length = 375
Score = 109 bits (274), Expect = 2e-27
Identities = 15/84 (17%), Positives = 26/84 (30%)
Query: 250 ISRDEDLSHWNKLTRDEKYFISHVLAFFAASDGIVNENLVERFTQEVQITEARCFYGFQI 309
+ D + L EK+ L + D I + + I E +
Sbjct: 53 VDVSRDRIDYQALPEHEKHIFISNLKYQTLLDSIQGRSPNVALLPLISIPELETWVETWA 112
Query: 310 AMENVHSEMYSLLIDTYIKDQEER 333
E +HS Y+ +I + D
Sbjct: 113 FSETIHSRSYTHIIRNIVNDPSVV 136
Score = 62.8 bits (153), Expect = 3e-11
Identities = 21/102 (20%), Positives = 34/102 (33%), Gaps = 29/102 (28%)
Query: 184 TIETMPCVKKKADWALRWI-----------------------------ADEASSFGERVI 214
I T ++K+A+ + + ++
Sbjct: 139 DIVTNEQIQKRAEGISSYYDELIEMTSYWHLLGEGTHTVNGKTVTVSLRELKKKLYLCLM 198
Query: 215 AFASVEGIFFSGSFASIFWLKKRGLMPGLTFSNELISRDEDL 256
+ ++E I F SFA F +R LM G LI+RDE L
Sbjct: 199 SVNALEAIRFYVSFACSFAFAERELMEGNAKIIRLIARDEAL 240
Score = 60.5 bits (147), Expect = 2e-10
Identities = 13/51 (25%), Positives = 23/51 (45%), Gaps = 1/51 (1%)
Query: 82 PVQENVETEPLLRDNPRRFVIF-PIQYQDIWKMYKKAEASFWTAEEVDLSK 131
+ + EP+ P + +Y K+ +K + FW EEVD+S+
Sbjct: 7 QTKNDQLKEPMFFGQPVNVARYDQQKYDIFEKLIEKQLSFFWRPEEVDVSR 57
>3n37_A Ribonucleoside-diphosphate reductase 2 subunit BE; ribonucleotide
reductase, four-helix bundle, dimanganese CLU
oxidoreductase; 1.65A {Escherichia coli} PDB: 3n38_A
3n39_B* 3n3a_B* 3n3b_B* 1r2f_A 2bq1_I* 2r2f_A
Length = 319
Score = 108 bits (272), Expect = 2e-27
Identities = 15/79 (18%), Positives = 24/79 (30%)
Query: 254 EDLSHWNKLTRDEKYFISHVLAFFAASDGIVNENLVERFTQEVQITEARCFYGFQIAMEN 313
D+ W LT E+ V D + N + ME
Sbjct: 40 NDIPAWQTLTVVEQQLTMRVFTGLTLLDTLQNVIGAPSLMPDALTPHEEAVLSNISFMEA 99
Query: 314 VHSEMYSLLIDTYIKDQEE 332
VH+ YS + T + ++
Sbjct: 100 VHARSYSSIFSTLCQTKDV 118
Score = 85.1 bits (211), Expect = 5e-19
Identities = 15/70 (21%), Positives = 25/70 (35%), Gaps = 2/70 (2%)
Query: 185 IETMPCVKKKADWALRWIADEASSFGERVIAFASVEGIFFSGSFASIFWLKKRGLMPGLT 244
E +++KA + + ++ IA +E F F + RG +
Sbjct: 125 SEENAPLQRKAQIIQQHYRGD--DPLKKKIASVFLESFLFYSGFWLPMYFSSRGKLTNTA 182
Query: 245 FSNELISRDE 254
LI RDE
Sbjct: 183 DLIRLIIRDE 192
Score = 46.5 bits (111), Expect = 5e-06
Identities = 7/28 (25%), Positives = 14/28 (50%)
Query: 104 PIQYQDIWKMYKKAEASFWTAEEVDLSK 131
I +++ + ++FW E+V LS
Sbjct: 13 KISDDKDLEVWNRLTSNFWLPEKVPLSN 40
>3dhz_A Ribonucleotide reductase subunit R2F; metal free, hydrogen bond,
metal binding protein; 1.63A {Corynebacterium
ammoniagenes} SCOP: a.25.1.2 PDB: 1kgo_A 1kgp_A 1oqu_A
1kgn_A
Length = 329
Score = 106 bits (267), Expect = 1e-26
Identities = 17/79 (21%), Positives = 27/79 (34%)
Query: 254 EDLSHWNKLTRDEKYFISHVLAFFAASDGIVNENLVERFTQEVQITEARCFYGFQIAMEN 313
D+ WNK+T E+ V D I + + Y ME+
Sbjct: 50 NDIQSWNKMTPQEQLATMRVFTGLTLLDTIQGTVGAISLLPDAETMHEEAVYTNIAFMES 109
Query: 314 VHSEMYSLLIDTYIKDQEE 332
VH++ YS + T +
Sbjct: 110 VHAKSYSNIFMTLASTPQI 128
Score = 87.4 bits (217), Expect = 1e-19
Identities = 14/72 (19%), Positives = 27/72 (37%), Gaps = 2/72 (2%)
Query: 185 IETMPCVKKKADWALRWIADEASSFGERVIAFASVEGIFFSGSFASIFWLKKRGLMPGLT 244
E +++KA + + + ++ +A +E F F +L R +
Sbjct: 135 SEENENLQRKAKIIMSYYNGD--DPLKKKVASTLLESFLFYSGFYLPMYLSSRAKLTNTA 192
Query: 245 FSNELISRDEDL 256
LI RDE +
Sbjct: 193 DIIRLIIRDESV 204
Score = 45.0 bits (107), Expect = 1e-05
Identities = 5/27 (18%), Positives = 14/27 (51%)
Query: 105 IQYQDIWKMYKKAEASFWTAEEVDLSK 131
I + +++ + +FW E++ +S
Sbjct: 24 IPDEKDLEVWDRLTGNFWLPEKIPVSN 50
>3mjo_A Ribonucleotide reductase subunit R2F; Mn ribonucleotide reductase,
RNR, radical enzyme, split SIGN metallocofactor; 1.36A
{Corynebacterium ammoniagenes} PDB: 1uzr_A*
Length = 296
Score = 105 bits (263), Expect = 2e-26
Identities = 17/79 (21%), Positives = 27/79 (34%)
Query: 254 EDLSHWNKLTRDEKYFISHVLAFFAASDGIVNENLVERFTQEVQITEARCFYGFQIAMEN 313
D+ WNK+T E+ V D I + + Y ME+
Sbjct: 49 NDIQSWNKMTPQEQLATMRVFTGLTLLDTIQGTVGAISLLPDAETMHEEAVYTNIAFMES 108
Query: 314 VHSEMYSLLIDTYIKDQEE 332
VH++ YS + T +
Sbjct: 109 VHAKSYSNIFMTLASTPQI 127
Score = 86.2 bits (214), Expect = 2e-19
Identities = 14/72 (19%), Positives = 27/72 (37%), Gaps = 2/72 (2%)
Query: 185 IETMPCVKKKADWALRWIADEASSFGERVIAFASVEGIFFSGSFASIFWLKKRGLMPGLT 244
E +++KA + + + ++ +A +E F F +L R +
Sbjct: 134 SEENENLQRKAKIIMSYYNGD--DPLKKKVASTLLESFLFYSGFYLPMYLSSRAKLTNTA 191
Query: 245 FSNELISRDEDL 256
LI RDE +
Sbjct: 192 DIIRLIIRDESV 203
Score = 44.2 bits (105), Expect = 2e-05
Identities = 5/27 (18%), Positives = 14/27 (51%)
Query: 105 IQYQDIWKMYKKAEASFWTAEEVDLSK 131
I + +++ + +FW E++ +S
Sbjct: 23 IPDEKDLEVWDRLTGNFWLPEKIPVSN 49
>2rcc_A Ribonucleoside-diphosphate reductase subunit beta; NP_241368.1,
putative class I ribonucleotide reductase,
ribonucleotide reductase; HET: MSE PGE PG4; 1.90A
{Bacillus halodurans c-125}
Length = 346
Score = 93.1 bits (232), Expect = 1e-21
Identities = 12/79 (15%), Positives = 28/79 (35%), Gaps = 1/79 (1%)
Query: 254 EDLSHWNKLTRDEKYFISHVLAFFAASDGIVNENLVERFTQEVQITEARCFYGFQIAMEN 313
D + LT E+ ++ A D + + R + + + E
Sbjct: 62 HDAKQFPTLTETEQEAFKKIIGLLAFLDSVQT-DYSMRAAEYLTDSSLAALMSVLSFQEV 120
Query: 314 VHSEMYSLLIDTYIKDQEE 332
VH++ YS ++ + + +
Sbjct: 121 VHNQSYSYVLSSLVPKATQ 139
Score = 80.4 bits (199), Expect = 3e-17
Identities = 14/75 (18%), Positives = 30/75 (40%), Gaps = 5/75 (6%)
Query: 185 IETMPCVKKKADWALRWI-----ADEASSFGERVIAFASVEGIFFSGSFASIFWLKKRGL 239
+ +K++ ++ + +F E ++ +EG+ F FA + L +
Sbjct: 146 WKHDDVLKERNEFIIDGYEKFVDNPTPKTFLESIVYDVILEGLNFYSGFAFFYNLARNQK 205
Query: 240 MPGLTFSNELISRDE 254
M + I+RDE
Sbjct: 206 MVSTSTMINYINRDE 220
Score = 48.4 bits (116), Expect = 1e-06
Identities = 9/47 (19%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 86 NVETEPLLRDNPRRFVIF-PIQYQDIWKMYKKAEASFWTAEEVDLSK 131
+ + +L + + +++ + +YK A+FWT E+++S
Sbjct: 16 SNASTGILNGKSSNVLNWDDVRFSWAYPLYKNMLANFWTPFEINMSH 62
>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 = 46.4 bits (109), Expect = 1e-05
Identities = 61/384 (15%), Positives = 109/384 (28%), Gaps = 134/384 (34%)
Query: 13 HHTSYGTDTNLSGAVVNTLDFGSGGWW--FEPNINLFLPQNTLKDLTNNLQQSKLSDSPI 70
HH + D + FE ++D+ ++ + D I
Sbjct: 1 HHHHHHMDFE-----TGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHII 55
Query: 71 KDKSTLKQV-----------SAPVQENVETEPLLRDNPRRFVIFPIQYQD-----IWKMY 114
K + VQ+ VE +LR N +F++ PI+ + + +MY
Sbjct: 56 MSKDAVSGTLRLFWTLLSKQEEMVQKFVEE--VLRIN-YKFLMSPIKTEQRQPSMMTRMY 112
Query: 115 KKAEASFWTAEEVDLSKVVVTNFEIRALKTGEEKASHSRNEPYL-FRIKLAPGGICRYKV 173
+ + +V +K V+ R +PYL R L ++
Sbjct: 113 IEQRDRLYNDNQV-FAKYNVS-----------------RLQPYLKLRQAL-------LEL 147
Query: 174 KKGGKIT-----G-GKTIETMPCVKKKADWALRWIADEASSFGERVIAFASVEGIFFSGS 227
+ + G GKT W+A + V V+
Sbjct: 148 RPAKNVLIDGVLGSGKT----------------WVALD-------VCLSYKVQCKMDFK- 183
Query: 228 FASIFWLK-----------------KRGLMPGLTFSNELISRDEDLSHWNKLTRDEKYFI 270
IFWL + P T ++ S + H + +
Sbjct: 184 ---IFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQ-AELRRLLK 239
Query: 271 SH-------VLAFFAASDGIVNENLVERF---------TQEVQITEARCF-YGFQIAMEN 313
S VL + N F T+ Q+T+ I++++
Sbjct: 240 SKPYENCLLVL------LNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDH 293
Query: 314 V-----HSEMYSLL---IDTYIKD 329
E+ SLL +D +D
Sbjct: 294 HSMTLTPDEVKSLLLKYLDCRPQD 317
Score = 43.7 bits (102), Expect = 8e-05
Identities = 38/288 (13%), Positives = 80/288 (27%), Gaps = 65/288 (22%)
Query: 53 LKDLTNNLQQSKLSDSPIKDKSTLKQVSAPVQENVETEPLLRDNPRRFVIFPIQYQDIWK 112
++D K + +T+ + S V E E + +FP
Sbjct: 337 IRDGLATWDNWKHVN--CDKLTTIIESSLNVLEPAEYRKMFDR----LSVFP---PSAHI 387
Query: 113 MYKKAEASFWTAEEVDLSKVVVTNFEIRALKTGEEKAS-------------HSRNEPYLF 159
W VVV +L + K S NE L
Sbjct: 388 PTILLS-LIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALH 446
Query: 160 RIKLAPGGICRYKVKKGGKITGGKTIETMPCVKKKAD--WALRWIAD--EASSFGERVIA 215
R + + Y + K + D + I + ER+
Sbjct: 447 R-SI----VDHYNIPKTFDSDD--------LIPPYLDQYFY-SHIGHHLKNIEHPERMTL 492
Query: 216 FASVEGIFFSGSFASIFWLKK--RGLMPGLTFSNELISRDEDLSHWNKLTRDEKYFISHV 273
F +F F +L++ R S +++ + L + + Y +
Sbjct: 493 F---RMVFL--DFR---FLEQKIRHDSTAWNASGSILNTLQQLKFY------KPYICDND 538
Query: 274 LAFFAASDGIVN--ENLVERFTQEVQITEARCFYGFQIAMENVHSEMY 319
+ + +VN + + + + + ++ +IA+ ++
Sbjct: 539 PKY----ERLVNAILDFLPKIEENLICSKYTDL--LRIALMAEDEAIF 580
>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 = 35.7 bits (81), Expect = 0.008
Identities = 11/42 (26%), Positives = 17/42 (40%), Gaps = 16/42 (38%)
Query: 50 QNTLKDLTNNLQQSKLSDSPIKDKSTLKQVSAP---VQENVE 88
+ LK L +L KL + D SAP ++ +E
Sbjct: 19 KQALKKLQASL---KLY-AD--D-------SAPALAIKATME 47
Score = 27.6 bits (60), Expect = 4.2
Identities = 8/29 (27%), Positives = 16/29 (55%), Gaps = 5/29 (17%)
Query: 193 KKADWALRWIADEASSFGERVIAF-ASVE 220
KK +L+ AD+++ +A A++E
Sbjct: 23 KKLQASLKLYADDSAP----ALAIKATME 47
>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 = 36.2 bits (83), Expect = 0.015
Identities = 60/327 (18%), Positives = 96/327 (29%), Gaps = 103/327 (31%)
Query: 8 FTPWAHHTSYGTDTNLSGAVVNTLDFGSGGWW--FEPNIN-----LF------------- 47
FTP + T S +V + W F ++ LF
Sbjct: 258 FTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNT 317
Query: 48 -LPQNTLKDLTNNLQQSKLSDSP---IKDKSTLKQVSAPVQE-NV---ETEPL---LRDN 96
LP + L+D N + SP I + T +QV V + N + + L +
Sbjct: 318 SLPPSILEDSLENNEGVP---SPMLSISN-LTQEQVQDYVNKTNSHLPAGKQVEISLVNG 373
Query: 97 PRRFVI--FPIQYQDIWKMYKKAEASFWTAEEVDLSKVVVTNFEIRALKTGEE--KAS-- 150
+ V+ P + +KA+A +D S++ F R LK +
Sbjct: 374 AKNLVVSGPPQSLYGLNLTLRKAKAP----SGLDQSRIP---FSERKLKFSNRFLPVASP 426
Query: 151 -HSRNEPYLFRIKLAPGGICRYKVKKGGKITGGKTIETMPCVKKKADWA-LRWIADEASS 208
HS L A I + VK +P V D + LR + S
Sbjct: 427 FHS---HLL---VPASDLINKDLVKNNVSFNAKDI--QIP-VYDTFDGSDLR---VLSGS 474
Query: 209 FGERVIAFASVEGIFFSGSFASIFWLKKRGLMPGLTFSNELISRDEDLSHWNKLTRDEKY 268
ER++ + I R W T+ +
Sbjct: 475 ISERIV---------------------------------DCIIRLP--VKWETTTQFK-- 497
Query: 269 FISHVLAFFA-ASDGIVNENLVERFTQ 294
+H+L F + G+ L R
Sbjct: 498 -ATHILDFGPGGASGL--GVLTHRNKD 521
Score = 31.6 bits (71), Expect = 0.51
Identities = 43/261 (16%), Positives = 76/261 (29%), Gaps = 76/261 (29%)
Query: 30 TLDFGSGGWWFEPNI----NLFLPQNTLKD-LTNNLQQSKLSDSPIKD---KST------ 75
TL GS E + F + L++ L + ++ D +
Sbjct: 10 TLSHGS----LEHVLLVPTASFFIASQLQEQFNKILPEP--TEGFAADDEPTTPAELVGK 63
Query: 76 -LKQVSAPVQENV--ETEPLLRDNPRRFVIFPIQY---QDIWKMYKKAEASFWTAEEVDL 129
L VS+ V+ + + + +L F Y DI A + L
Sbjct: 64 FLGYVSSLVEPSKVGQFDQVLN---LCLTEFENCYLEGNDI----HALAAKLLQENDTTL 116
Query: 130 SKV--VVTNFEIRALKTGEEKASHSRNEPYLFRIKLAPGGICRYKVKKGG-KIT---GGK 183
K ++ N+ I A + ++ LFR V +G ++ GG+
Sbjct: 117 VKTKELIKNY-ITARIMAKRPFD-KKSNSALFR-----------AVGEGNAQLVAIFGGQ 163
Query: 184 -TIET------------MPCVKKKADWALRWIADEASSFGERVIAFASVEGIFFSGSFAS 230
+ V I A + E + E +F G
Sbjct: 164 GNTDDYFEELRDLYQTYHVLVG-------DLIKFSAETLSELIRTTLDAEKVFTQG-LNI 215
Query: 231 IFWLKKRGLMPGLTFSNELIS 251
+ WL+ P + L+S
Sbjct: 216 LEWLENPSNTPDKDY---LLS 233
Score = 31.2 bits (70), Expect = 0.54
Identities = 33/156 (21%), Positives = 52/156 (33%), Gaps = 46/156 (29%)
Query: 105 IQYQDIWKM----YKKAEA--SFWTAEEVDLSKVVVTNFEIRALKTGEEKASHSRNEPYL 158
Q Q M YK ++A W D F I + N P
Sbjct: 1626 SQEQG---MGMDLYKTSKAAQDVW--NRADNHFKDTYGFSILDI---------VINNPV- 1670
Query: 159 FRIKLAPGGICRYKVKKGGKIT---GGKTIETMPCVKKKADWALRWIADEASSFGERVIA 215
+ + GG +KG +I ET+ K K + + I + ++S
Sbjct: 1671 -NLTIHFGG------EKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTS-----YT 1718
Query: 216 FASVEGIFFSGSFA---------SIFW-LKKRGLMP 241
F S +G+ + F + F LK +GL+P
Sbjct: 1719 FRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIP 1754
Score = 28.5 bits (63), Expect = 4.2
Identities = 13/57 (22%), Positives = 19/57 (33%), Gaps = 30/57 (52%)
Query: 5 PVMFTPWAHHTSYGTD-----TNLSGAVVNT-------------------LDFGSGG 37
PV + T G+D ++S +V+ LDFG GG
Sbjct: 458 PV------YDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGG 508
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR;
fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
RED beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 30.6 bits (69), Expect = 0.83
Identities = 26/107 (24%), Positives = 45/107 (42%), Gaps = 15/107 (14%)
Query: 32 DFGSGGWWFEPNINLFLPQNTLKDL--TNNLQQSKLSDSPIKDKSTLKQVSAPVQENVET 89
D +GG F P + F K+L T+ ++++ ++ ++ K + VE
Sbjct: 726 DL-NGGLQFVPELKEFT-AKLRKELVETSEVRKAVSIETALEHKVVNGNSADAAYAQVEI 783
Query: 90 EPLLRDNPRRFVIFPIQYQDIWKMYK--KAEASFWTAEEVDLSKVVV 134
+P R N + + FP K YK K A +DL +V+V
Sbjct: 784 QP--RANIQ--LDFPE-----LKPYKQVKQIAPAELEGLLDLERVIV 821
>3brv_B NF-kappa-B essential modulator; NEMO, IKK-gamma, FIP3, ikkap1,
NF-KB essential modulator, at binding, kinase,
nucleotide-binding, phosphoprotein; 2.20A {Homo sapiens}
PDB: 3brt_B
Length = 70
Score = 26.2 bits (57), Expect = 4.3
Identities = 18/65 (27%), Positives = 28/65 (43%), Gaps = 9/65 (13%)
Query: 232 FWLKKRGLMPGLTFSNELI-SRDEDLSHWNKLTRDEKYFISHVLAFFAASDGIVNENLVE 290
+ + L + SN+++ R E+L H+ R+EK F+ F A LVE
Sbjct: 13 CLEENQELRDAIRQSNQILRERCEELLHFQASQREEKEFLMC--KFQEA------RKLVE 64
Query: 291 RFTQE 295
R E
Sbjct: 65 RLGLE 69
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 0.134 0.410
Gapped
Lambda K H
0.267 0.0713 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,105,294
Number of extensions: 301286
Number of successful extensions: 642
Number of sequences better than 10.0: 1
Number of HSP's gapped: 623
Number of HSP's successfully gapped: 59
Length of query: 333
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 239
Effective length of database: 4,077,219
Effective search space: 974455341
Effective search space used: 974455341
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: 57 (25.8 bits)