RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8177
(312 letters)
>3itq_A Prolyl 4-hydroxylase, alpha subunit domain protei; double-stranded
beta helix, alpha-keto dependent non-heme iron
oxygenase; 1.40A {Bacillus anthracis str}
Length = 216
Score = 244 bits (625), Expect = 2e-81
Identities = 50/201 (24%), Positives = 100/201 (49%), Gaps = 12/201 (5%)
Query: 67 KCRYVHR-NVPYLRLMPLKEEEAYLQPRIILYRDVMYDSEIDLIKKMAQPRLRRATVQNY 125
+ + H+ NV ++ + +P I++ +V+ D E D + ++++ +L R+ V +
Sbjct: 13 QTIFDHKGNVIKTEDREIQIISKFEEPLIVVLGNVLSDEECDELIELSKSKLARSKVGSS 72
Query: 126 KTGELEIANYRISKSAWLREPEHPVIERISRRVEHMTGLTTSTAEELQVVNYGIGGHYEP 185
+ ++ + R S A+L ++ + +I +R+ + + S E L ++NY + Y+
Sbjct: 73 R----DVNDIRTSSGAFL--DDNELTAKIEKRISSIMNVPASHGEGLHILNYEVDQQYKA 126
Query: 186 HYDFARPGEANAFKSLGTGNRVATVLFYMSDVAQGGATVFTSLNLSLWPEKGTAAFWHNL 245
HYD+ + NR++T++ Y++DV +GG T F LNLS+ P KG A ++
Sbjct: 127 HYDYFAEHSRS-----AANNRISTLVMYLNDVEEGGETFFPKLNLSVHPRKGMAVYFEYF 181
Query: 246 HSSGDGDYYTRHAACPVLTGS 266
+ + T H PV G
Sbjct: 182 YQDQSLNELTLHGGAPVTKGE 202
>2jig_A Prolyl-4 hydroxylase; hydrolase; HET: PD2; 1.85A {Chlamydomonas
reinhardtii} PDB: 3gze_A 2v4a_A 2jij_A
Length = 224
Score = 228 bits (582), Expect = 8e-75
Identities = 57/206 (27%), Positives = 94/206 (45%), Gaps = 17/206 (8%)
Query: 76 PYLRLMPLKEEEAYLQPRIILYRDVMYDSEIDLIKKMAQPRLRRATVQNYKTGELEIANY 135
+ PR L ++ + D E D I + A+P++ +++V + ++G+ +
Sbjct: 4 ELKEEWRGEVVHLSWSPRAFLLKNFLSDEECDYIVEKARPKMVKSSVVDNESGKSVDSEI 63
Query: 136 RISKSAWLREPEHPVIERISRRVEHMTGLTTSTAEELQVVNYGIGGHYEPHYDFARPGEA 195
R S W + E VI +I +RV +T + E LQV++Y G YEPHYD+
Sbjct: 64 RTSTGTWFAKGEDSVISKIEKRVAQVTMIPLENHEGLQVLHYHDGQKYEPHYDYFHDPVN 123
Query: 196 NAFKSLGTGNRVATVLFYMSDVAQGGATVFTSLN---------------LSLWPEKGTAA 240
+ G RV T+L Y++ V +GG TV + L++ P KG A
Sbjct: 124 AGPE--HGGQRVVTMLMYLTTVEEGGETVLPNAEQKVTGDGWSECAKRGLAVKPIKGDAL 181
Query: 241 FWHNLHSSGDGDYYTRHAACPVLTGS 266
+++L G D + H +CP L G
Sbjct: 182 MFYSLKPDGSNDPASLHGSCPTLKGD 207
>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 = 42.7 bits (100), Expect = 1e-04
Identities = 41/244 (16%), Positives = 70/244 (28%), Gaps = 97/244 (39%)
Query: 87 EAY---LQPRIILYRDVMYDSEI-DLIKKMAQ-----PRLRRATVQNYKTGELEIANYRI 137
+ Y L+ LY+ Y + DLIK A+ R + + G L I
Sbjct: 167 DDYFEELR---DLYQT--YHVLVGDLIKFSAETLSELIRTTLDAEKVFTQG-LNIL---- 216
Query: 138 SKSAWLREPEH--------------PVIERISRRVEHMTGLTTSTAEELQVVNYGIGGHY 183
WL P + P+I G+ Q+ +Y
Sbjct: 217 ---EWLENPSNTPDKDYLLSIPISCPLI-----------GVI-------QLAHY------ 249
Query: 184 EPHYDFAR-----PGEANAFKSLGTGNR---VATVLFYMSDVAQGGATVFTSLNLSLWPE 235
A+ PGE ++ TG+ V V +D + F S+ ++
Sbjct: 250 ---VVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETD---SWESFFVSVRKAI--- 300
Query: 236 KGTAAFWHNLHSSGDGDYYTRHAACPVLTGSNSLHSTC-------PCG-LR-RGLQRSGI 286
T F+ + + A P + S+ P L L + +
Sbjct: 301 --TVLFFIGVRC---------YEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQV 349
Query: 287 ICTL 290
+
Sbjct: 350 QDYV 353
Score = 38.1 bits (88), Expect = 0.003
Identities = 34/214 (15%), Positives = 66/214 (30%), Gaps = 74/214 (34%)
Query: 9 AQGNKLY--YQEALNKSPELKDEPPKVNNVAPTLEVTEREKYEMLC--RGDLTVP----P 60
+G ++ Y + ++ D K + E+ E +G L+ P
Sbjct: 1679 EKGKRIRENYSAMIFETI--VDGKLKTEKIFK--EINEHSTSYTFRSEKGLLSATQFTQP 1734
Query: 61 AIVAQLKCRYVHRNVPY--LRLMPLKEEEAYLQPRIIL-------YR------DVM-YDS 104
A+ + + + + + Y DVM +S
Sbjct: 1735 ALTL----------MEKAAFEDL---KSKGLIPADATFAGHSLGEYAALASLADVMSIES 1781
Query: 105 EIDLIKKMAQPRLRRATVQN-YKTGELEIANY--------RISKSAWLREPEHPVIERIS 155
++++ R T+Q EL +NY R++ S +E V+ER+
Sbjct: 1782 LVEVV------FYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASF-SQEALQYVVERVG 1834
Query: 156 RRVEHMTGLTTSTAEELQVVNY---G----IGGH 182
+R T +++VNY G
Sbjct: 1835 KR----------TGWLVEIVNYNVENQQYVAAGD 1858
>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum,
metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB:
1tjc_A
Length = 104
Score = 35.0 bits (80), Expect = 0.005
Identities = 9/24 (37%), Positives = 14/24 (58%)
Query: 4 PTHQRAQGNKLYYQEALNKSPELK 27
P HQRA GN Y++ + K ++
Sbjct: 77 PEHQRANGNLKYFEYIMAKEKDVN 100
>3dkq_A PKHD-type hydroxylase SBAL_3634; putative oxygenase, structural
genomics, JOI for structural genomics, JCSG; 2.26A
{Shewanella baltica OS155}
Length = 243
Score = 33.0 bits (75), Expect = 0.079
Identities = 29/183 (15%), Positives = 57/183 (31%), Gaps = 20/183 (10%)
Query: 89 YLQPRIILYRDVMYDSEID-LIKKMAQPRLRRATVQNYKTGELEIANYRISKSAWL-REP 146
Y Q +I +V E+ L +++ R + N ++ K +
Sbjct: 16 YFQGMLIEIPNVFSKQEVSHLREQLDARRWIDGNQTSGAMATTRKRNQQLDKDDPVAVAL 75
Query: 147 EHPVIERISRRVEHMTGLTTSTAEELQVVNYGIGGHYEPHYDFARPGEANAFKSLGTGNR 206
+++R+ + ++ Y G + H D A + G
Sbjct: 76 GQQIMDRLLAHPQFVSAALPLQFYPPLFNRYQGGETFGYHIDNAIRSTPD-----GMIRT 130
Query: 207 VATVLFYMSDVA--QGGATVF--TSLNLSLWPEKGTAAFWHNLHSSGDGDYYTRHAACPV 262
+ ++S+ QGG V T S+ G+ + + H PV
Sbjct: 131 DLSATLFLSEPENYQGGELVIQDTYGQQSIKLSAGSLVLY---------PSSSLHQVTPV 181
Query: 263 LTG 265
L+G
Sbjct: 182 LSG 184
>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 = 33.7 bits (76), Expect = 0.090
Identities = 28/248 (11%), Positives = 65/248 (26%), Gaps = 96/248 (38%)
Query: 8 RAQGNKLYYQ---EALNKSPELKDEPPKVNNVAPTLEVTEREKY-EMLCRGDLTVPPAIV 63
++ ++ + E L + + P K P++ + + L +
Sbjct: 72 LSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAK--- 128
Query: 64 AQLKCRYVHRNVPYLRL-MPLKEEEAYLQP--RIILY---------------RD------ 99
V R PYL+L L E L+P +++
Sbjct: 129 -----YNVSRLQPYLKLRQALLE----LRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCK 179
Query: 100 ---------VMYDSEIDLIKKMAQPRLRRATVQNYKTGELEIANYRISKSAW-------L 143
+ + + + +M Q +L N+ + +N ++ + L
Sbjct: 180 MDFKIFWLNLKNCNSPETVLEMLQ-KLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLL 238
Query: 144 REPEHP-------------VIE------RI---SR----------------RVEHMT-GL 164
+ + +I +R ++H + L
Sbjct: 239 KSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTL 298
Query: 165 TTSTAEEL 172
T + L
Sbjct: 299 TPDEVKSL 306
Score = 33.3 bits (75), Expect = 0.12
Identities = 33/210 (15%), Positives = 62/210 (29%), Gaps = 63/210 (30%)
Query: 1 MIFPTHQRAQGNK---LYYQEALNKSPELKDEPPKVNNVAPTLEVTE-----------RE 46
M F T + K +++A + + KD ++ E+
Sbjct: 7 MDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLR 66
Query: 47 KYEMLCR-GDLTVPPAIVAQLKCRYVHRNVPYLRLMPLKEE--------EAYLQPRIILY 97
+ L + V + L+ Y +L + P+K E Y++ R LY
Sbjct: 67 LFWTLLSKQEEMVQKFVEEVLRINY-----KFL-MSPIKTEQRQPSMMTRMYIEQRDRLY 120
Query: 98 RDVMYDSEIDLIKKMAQPRLRRATVQNYKTGELEIANYRISKSAWLREPEHPVIERISRR 157
D + K RL+ + LE LR P V+
Sbjct: 121 NDN------QVFAKYNVSRLQ--PYLKLRQALLE-----------LR-PAKNVL------ 154
Query: 158 VEHMTG-----LTTSTAEELQVV---NYGI 179
++ + G + +V ++ I
Sbjct: 155 IDGVLGSGKTWVALDVCLSYKVQCKMDFKI 184
Score = 30.2 bits (67), Expect = 1.1
Identities = 31/238 (13%), Positives = 63/238 (26%), Gaps = 103/238 (43%)
Query: 18 EALNKSP--------ELKDEPPKVNN------------VAPTLEVTE----REKYEMLC- 52
E L +P ++D +N + +L V E R+ ++ L
Sbjct: 321 EVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSV 380
Query: 53 -RGDLTVPPA----------------IVAQLKCRY--VHRNVP---------YLRLMPLK 84
+P +V +L +Y V + YL L
Sbjct: 381 FPPSAHIPTILLSLIWFDVIKSDVMVVVNKL-HKYSLVEKQPKESTISIPSIYLELKVKL 439
Query: 85 EEEAYLQPRII----------------------LYRDVMY-------DSEIDLIKKM--- 112
E E L I+ Y + + + L + +
Sbjct: 440 ENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLD 499
Query: 113 ---AQPRLRRATVQNYKTGEL-----EIANYR--ISKSAWLREPEHPVIERISRRVEH 160
+ ++R + +G + ++ Y+ I + P ER+ +
Sbjct: 500 FRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDN-------DPKYERLVNAILD 550
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 31.9 bits (72), Expect = 0.18
Identities = 9/30 (30%), Positives = 14/30 (46%), Gaps = 6/30 (20%)
Query: 272 TCP-CGLRRGL----QRSG-IICTLVGMVI 295
TCP C + G ++C L G+V+
Sbjct: 23 TCPECKVYPPKIVERFSEGDVVCALCGLVL 52
>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 = 30.3 bits (67), Expect = 0.47
Identities = 13/41 (31%), Positives = 18/41 (43%), Gaps = 13/41 (31%)
Query: 84 KEEEAYLQPRIILYRDVMYDSEIDLIKKMAQPRLR-RATVQ 123
K+ LQ + LY D DS A P L +AT++
Sbjct: 19 KQALKKLQASLKLYAD---DS--------A-PALAIKATME 47
>3d7l_A LIN1944 protein; APC89317, structural genomics, PS protein
structure initiative, midwest center for structural
genomics, MCSG; 2.06A {Listeria innocua}
Length = 202
Score = 29.9 bits (68), Expect = 0.84
Identities = 12/33 (36%), Positives = 17/33 (51%)
Query: 33 VNNVAPTLEVTEREKYEMLCRGDLTVPPAIVAQ 65
+N V+P + +K E G L VP A VA+
Sbjct: 152 INTVSPNVLEESWDKLEPFFEGFLPVPAAKVAR 184
>3r79_A Uncharacterized protein; PSI-biology, structural genomics, NEW
YORK structural genomi research consortium, TIM barrel;
HET: PLP; 1.90A {Agrobacterium tumefaciens}
Length = 244
Score = 28.3 bits (64), Expect = 2.9
Identities = 11/29 (37%), Positives = 16/29 (55%), Gaps = 3/29 (10%)
Query: 7 QRAQG-NKLYYQEALNKSPELKDEPPKVN 34
QR G N++ QEA K P LK++ +
Sbjct: 53 QRVFGENRV--QEAQGKWPALKEKTSDIE 79
>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD,
transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP:
c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*
Length = 252
Score = 27.1 bits (60), Expect = 7.4
Identities = 11/51 (21%), Positives = 17/51 (33%), Gaps = 5/51 (9%)
Query: 86 EEAYLQPR-----IILYRDVMYDSEIDLIKKMAQPRLRRATVQNYKTGELE 131
E + P +I+ R I+LI + Q L + G L
Sbjct: 195 FEEFCLPTKKYADVIIPRGADNLVAINLIVQHIQDILNGGPSKRQTNGCLN 245
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 0.411
Gapped
Lambda K H
0.267 0.0811 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,925,691
Number of extensions: 296038
Number of successful extensions: 594
Number of sequences better than 10.0: 1
Number of HSP's gapped: 586
Number of HSP's successfully gapped: 18
Length of query: 312
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 219
Effective length of database: 4,105,140
Effective search space: 899025660
Effective search space used: 899025660
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 (25.6 bits)