RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7738
(307 letters)
>3tht_A Alkylated DNA repair protein ALKB homolog 8; structural genomics,
PSI-biology, northeast structural genom consortium,
NESG; HET: AKG; 3.01A {Homo sapiens} PDB: 3thp_A*
Length = 345
Score = 69.8 bits (170), Expect = 9e-14
Identities = 43/205 (20%), Positives = 73/205 (35%), Gaps = 23/205 (11%)
Query: 59 FSHEECLALERNIDEVSSLAEQGQYKPCTVDRAPLRNKYFFGEGYTYGSQLVRKGLGNER 118
S EE L ++D Q K R FG + Y + V K
Sbjct: 120 ISSEEEKMLLESVDWTEDTDNQNSQK-----SLKHRRVKHFGYEFHYENNNVDK------ 168
Query: 119 LYPEGEVDPIPAWIQSLVITKLEQMGVVPPNYINSAVINDYQPGGCIVSHIDPPHIFDRP 178
+ +P +S + L + + + IN Y+PG I +HID F+
Sbjct: 169 --DKPLSGGLPDICESFLEKWLRK--GYIKHKPDQMTINQYEPGQGIPAHIDTHSAFEDE 224
Query: 179 IISLSLFSDSALCFGCKFNFKPIRVSEPVLYLPVQRGCVTLLRDFAANGITHCVRPQDTQ 238
I+SLSL S+ +FK + LP R + ++ + TH + +
Sbjct: 225 IVSLSLGSE------IVMDFKHPDGIAVPVMLP--RRSLLVMTGESRYLWTHGITCRKFD 276
Query: 239 HRRAVILLRRVLPHAPRLTLSQTPR 263
+A L+ + + L+ + R
Sbjct: 277 TVQASESLKSGIITSDVGDLTLSKR 301
>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 = 57.4 bits (138), Expect = 2e-09
Identities = 61/382 (15%), Positives = 114/382 (29%), Gaps = 155/382 (40%)
Query: 2 AAYLSELYKCQVVEQNLKLKNRY-SRNQRSSPYDIGQSKHHARELRQKILQGVNQ-MSLF 59
AA L + +V+ +KN +R P+ K L + + +G Q +++F
Sbjct: 105 AAKLLQENDTTLVKTKELIKNYITARIMAKRPF----DKKSNSALFRAVGEGNAQLVAIF 160
Query: 60 ----SHEECLALERNIDEVSSLAEQGQYKPCTVDRAPLRNKYFFGEGYTYGSQLVRKGLG 115
+ ++ +E+ L + Y D S+L+R L
Sbjct: 161 GGQGNTDDYF------EELRDLYQT--YHVLVGD--------LIKFSAETLSELIRTTLD 204
Query: 116 NERLYPEGEVDPIPAWIQ----------------SLVITKLEQMGVVPPNYINSAVINDY 159
E+++ +G ++ I W++ S + + Q+ +Y+ +A + +
Sbjct: 205 AEKVFTQG-LN-ILEWLENPSNTPDKDYLLSIPISCPLIGVIQLA----HYVVTAKLLGF 258
Query: 160 QPG----------GC---IVSHIDPPHIFDRPIISLSL----FSDSA-----LCF--GCK 195
PG G +V+ + I+ + F S + F G
Sbjct: 259 TPGELRSYLKGATGHSQGLVTAV---------AIAETDSWESFFVSVRKAITVLFFIGV- 308
Query: 196 FNFKPIRVSE--PVLYLPVQRGCVTLLRDFAANGITH-----CVR--------------- 233
R E P LP ++L D N +
Sbjct: 309 ------RCYEAYPNTSLP-----PSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTN 357
Query: 234 ---PQDTQ--------HRRAVI------L------LRRVLPHAP------RLTLSQ-TPR 263
P Q + V+ L LR+ AP R+ S+ +
Sbjct: 358 SHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKA--KAPSGLDQSRIPFSERKLK 415
Query: 264 VK--------PYHSLYDVQARE 277
P+HS V A +
Sbjct: 416 FSNRFLPVASPFHSHLLVPASD 437
>3i3q_A Alpha-ketoglutarate-dependent dioxygenase ALKB; beta jellyroll, DNA
damage, DNA repair, iron, M binding, oxidoreductase;
HET: AKG; 1.40A {Escherichia coli} PDB: 2fd8_A* 2fdg_A*
2fdh_A* 2fdf_A* 2fdj_A 2fdk_A* 2fdi_A* 3i2o_A* 3i3m_A*
3i49_A* 3t4h_B* 3t3y_A* 3t4v_A* 3o1t_A* 3o1o_A* 3o1m_A*
3o1r_A* 3o1s_A* 3o1p_A* 3o1u_A* ...
Length = 211
Score = 54.2 bits (130), Expect = 6e-09
Identities = 32/186 (17%), Positives = 60/186 (32%), Gaps = 29/186 (15%)
Query: 59 FSHEECLALERNIDEVSSLAEQGQYKPCTVDRAPLRNK---------YFFGEGYTYGSQL 109
F+ L R+I++V ++ + T + +GY Y
Sbjct: 15 FAFNAAEQLIRDINDV--ASQSPFRQMVTPGGYTMSVAMTNCGHLGWTTHRQGYLYS--- 69
Query: 110 VRKGLGNERLYPEGEVDPIPAWIQSLVITKLEQMGVVPPNYINSAVINDYQPGGCIVSHI 169
+P +L G ++ +IN Y PG + H
Sbjct: 70 ------PIDPQTNKPWPAMPQSFHNLCQRAATAAGYPDFQP-DACLINRYAPGAKLSLHQ 122
Query: 170 D-PPHIFDRPIISLSLFSDSALCFGCKFNFKPIRVSEPVLYLPVQRGCVTLLRDFAANGI 228
D PI+S+SL F F ++ ++P+ L ++ G V + +
Sbjct: 123 DKDEPDLRAPIVSVSLGLP------AIFQFGGLKRNDPLKRLLLEHGDVVVWGG-ESRLF 175
Query: 229 THCVRP 234
H ++P
Sbjct: 176 YHGIQP 181
>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 = 34.4 bits (78), Expect = 0.056
Identities = 35/268 (13%), Positives = 83/268 (30%), Gaps = 77/268 (28%)
Query: 33 YDIGQSKHHARELRQKILQGVNQMSLFSHEECLALE---RNI---DEVSSLAEQGQYKPC 86
++ G+ ++ + IL V + + + +C ++ ++I +E+ +
Sbjct: 9 FETGEHQYQYK----DILS-VFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKD---- 59
Query: 87 TVDRAPLRNKYFFGEGYTYGSQLVRKGLGN--ERLYPEGEVDPIPAWIQSLVITKLEQMG 144
A F + ++V+K + Y ++ S + T+ Q
Sbjct: 60 ----AVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYK---------FLMSPIKTEQRQPS 106
Query: 145 VVPPNYIN--SAVINDYQPGGCIVSHIDPPHIF-DRPIISL--SLFSD------------ 187
++ YI + ND Q ++ +P + L +L
Sbjct: 107 MMTRMYIEQRDRLYNDNQV-------FAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVL 159
Query: 188 ----SAL----C----FGCKFNFKPI------RVSEPVLYL-PVQRGCVTLLRDFAANGI 228
+ + C CK +FK I + P L +Q+ + ++ +
Sbjct: 160 GSGKTWVALDVCLSYKVQCKMDFK-IFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSD 218
Query: 229 THC---VRPQDTQHRRAVILLRRVLPHA 253
+R Q +L + +
Sbjct: 219 HSSNIKLRIHSIQAELRRLLKSKPYENC 246
>1k7w_A Delta 2 crystallin; eye lens protein, argininosuccinate lyase,
enzyme mechanism; HET: AS1; 1.96A {Anas platyrhynchos}
SCOP: a.127.1.1 PDB: 1hy1_A 1tju_A 1auw_A 1tjv_A
1tjw_A* 1u16_A* 1u15_A* 1dcn_A* 1xwo_A 1hy0_A 1i0a_A
1aos_A 1k62_A
Length = 468
Score = 30.6 bits (70), Expect = 0.66
Identities = 14/63 (22%), Positives = 25/63 (39%), Gaps = 10/63 (15%)
Query: 28 QRSSPYDIGQSKHHAREL-RQKILQGVNQMSLFSHEECLALERNIDEVSSLAEQGQYKPC 86
QR S DI S +A+ L + IL + E + ++++S +G +
Sbjct: 34 QRLSEVDIQGSMAYAKALEKAGIL---------TKTELEKILSGLEKISEEWSKGVFVVK 84
Query: 87 TVD 89
D
Sbjct: 85 QSD 87
>1tj7_A Argininosuccinate lyase; crystallin, E. coli, fumarase, ASPA
lyase; 2.44A {Escherichia coli} SCOP: a.127.1.1
Length = 457
Score = 30.2 bits (69), Expect = 0.77
Identities = 11/63 (17%), Positives = 20/63 (31%), Gaps = 10/63 (15%)
Query: 28 QRSSPYDIGQSKHHAREL-RQKILQGVNQMSLFSHEECLALERNIDEVSSLAEQGQYKPC 86
R + DI S ++ L +L + EE LE ++ + +
Sbjct: 27 YRLAEQDIVGSVAWSKALVTVGVL---------TAEEQAQLEEALNVLLEDVRARPQQIL 77
Query: 87 TVD 89
D
Sbjct: 78 ESD 80
>2e9f_A Argininosuccinate lyase; alpha helix bundle; HET: ARG; 2.80A
{Thermus thermophilus}
Length = 462
Score = 30.2 bits (69), Expect = 0.89
Identities = 14/59 (23%), Positives = 24/59 (40%), Gaps = 10/59 (16%)
Query: 28 QRSSPYDIGQSKHHAREL-RQKILQGVNQMSLFSHEECLALERNIDEVSSLAEQGQYKP 85
+ D+ Q++ HAR L +L S EE A+ + +D + E G +
Sbjct: 29 RALWREDLWQNRVHARMLHAVGLL---------SAEELEAILKGLDRIEEEIEAGTFPW 78
>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 = 29.9 bits (68), Expect = 1.0
Identities = 10/54 (18%), Positives = 18/54 (33%), Gaps = 11/54 (20%)
Query: 112 KGLGNERLYPEGEVDPIPAWIQSLVITKLEQMGVVPPNYIN--SAVINDYQPGG 163
LG E+ YPE + +P+ WI++ + + Y
Sbjct: 294 VQLGMEKPYPEIKHNPMK-WIRAYEDVNSGKS--------DFFEQKSRQYAKVS 338
>3led_A 3-oxoacyl-acyl carrier protein synthase III; structural genomics,
PSI-2, protein structure initiative; HET: MSE; 1.45A
{Rhodopseudomonas palustris}
Length = 392
Score = 27.7 bits (62), Expect = 5.5
Identities = 7/14 (50%), Positives = 10/14 (71%)
Query: 99 FGEGYTYGSQLVRK 112
FG GY+ G+ V+K
Sbjct: 378 FGAGYSAGTVFVQK 391
>1u6e_A 3-oxoacyl-[acyl-carrier-protein] synthase III; transferase; 1.85A
{Mycobacterium tuberculosis} SCOP: c.95.1.2 c.95.1.2
PDB: 1u6s_A* 1m1m_A 1hzp_A* 2qnx_A* 2qnz_A* 2qo1_A*
2qx1_A* 2qo0_A* 2qny_A* 2ahb_A 2aj9_A
Length = 335
Score = 27.5 bits (62), Expect = 6.1
Identities = 7/17 (41%), Positives = 11/17 (64%)
Query: 99 FGEGYTYGSQLVRKGLG 115
+G G +Y +Q+VR G
Sbjct: 319 YGAGLSYAAQVVRMPKG 335
>1mzj_A Beta-ketoacylsynthase III; beta-ketosynthase, aromatic polyketide,
biosynthetic engineering, catalytic triad, transferase;
HET: COA; 2.10A {Streptomyces SP} SCOP: c.95.1.2
c.95.1.2
Length = 339
Score = 27.5 bits (62), Expect = 6.4
Identities = 5/13 (38%), Positives = 7/13 (53%)
Query: 99 FGEGYTYGSQLVR 111
FG G +Y Q +
Sbjct: 318 FGAGLSYAGQALL 330
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
0.320 0.136 0.411
Gapped
Lambda K H
0.267 0.0500 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,639,954
Number of extensions: 271501
Number of successful extensions: 428
Number of sequences better than 10.0: 1
Number of HSP's gapped: 425
Number of HSP's successfully gapped: 12
Length of query: 307
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 214
Effective length of database: 4,105,140
Effective search space: 878499960
Effective search space used: 878499960
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 (26.3 bits)