RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13395
(224 letters)
>1omo_A Alanine dehydrogenase; two-domain, beta-sandwich-dimer,
rossmann-fold NAD domain, human MU crystallin homolog;
HET: NAD; 2.32A {Archaeoglobus fulgidus} SCOP: c.2.1.13
PDB: 1vll_A
Length = 322
Score = 156 bits (396), Expect = 8e-47
Identities = 44/167 (26%), Positives = 74/167 (44%), Gaps = 15/167 (8%)
Query: 20 LFLSDEQVRDLLDWESLVPAIESVMVKVSKKEVIQPARLFMRIPEVNGVLLSMPGYIKRT 79
L L+ E+V L+ + + A+E + + P ++++ G L +MP ++
Sbjct: 4 LILTQEEVESLISMDEAMNAVEEAFRLYALGKAQMPPKVYLEFE--KGDLRAMPAHL--- 58
Query: 80 GPDGEDSLAIKVVTSFTDNKVKGLPSVLATVLLYNTDNGKLKVVMEGTEITKWRTAAASV 139
+K V S N KGLP+V+A ++L + + G VM+ T T RT AA
Sbjct: 59 ----MGYAGLKWVNSHPGNPDKGLPTVMALMILNSPETGFPLAVMDATYTTSLRTGAAGG 114
Query: 140 VATKHLFGRSGDKDLVLAIMGSGAQAYIHAKAFHASLKLKK---YNR 183
+A K+L R V +G G QAY +A + + Y+
Sbjct: 115 IAAKYL-ARKNSS--VFGFIGCGTQAYFQLEALRRVFDIGEVKAYDV 158
Score = 29.9 bits (68), Expect = 0.59
Identities = 7/20 (35%), Positives = 14/20 (70%)
Query: 197 GMATEDVITAKLIYDKYQAQ 216
G+A +DV AK++Y+ ++
Sbjct: 292 GLAIQDVAVAKVVYENALSK 311
>2i99_A MU-crystallin homolog; thyroid hormine binding protein,
oxidoreductase; HET: NDP; 2.60A {Homo sapiens}
Length = 312
Score = 152 bits (387), Expect = 1e-45
Identities = 63/175 (36%), Positives = 88/175 (50%), Gaps = 16/175 (9%)
Query: 17 QPPLFLSDEQVRDLLD-WESLVPAIESVMVKVSKK---EVIQPARLFMRIPEVNGVLLSM 72
+ P FLS +V + L L+P +E+ + S V+QP R + + + G L M
Sbjct: 2 RVPAFLSAAEVEEHLRSSSLLIPPLETALANFSSGPEGGVMQPVRTVVPVTKHRGYLGVM 61
Query: 73 PGYIKRTGPDGEDSLAIKVVTSFTDNKVK-GLPSVLATVLLYNTDNGKLKVVMEGTEITK 131
P Y ED+L K+VT + D + +PS ATVLL+ NG L VM+G IT
Sbjct: 62 PAYSA-----AEDALTTKLVTFYEDRGITSVVPSHQATVLLFEPSNGTLLAVMDGNVITA 116
Query: 132 WRTAAASVVATKHLFGRSGDKDLVLAIMGSGAQAYIHAKAFHASLKLKK---YNR 183
RTAA S +ATK L + VL I+G+G QAY H + F K+ +NR
Sbjct: 117 KRTAAVSAIATKFL-KPPSSE--VLCILGAGVQAYSHYEIFTEQFSFKEVRIWNR 168
Score = 30.3 bits (69), Expect = 0.41
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 197 GMATEDVITAKLIYDKYQA 215
GMA ED + AKLIYD + +
Sbjct: 293 GMAVEDTVAAKLIYDSWSS 311
>3hdj_A Probable ornithine cyclodeaminase; APC62486, bordetella pertussis
TOH structural genomics, PSI-2, protein structure
initiative; 1.70A {Bordetella pertussis}
Length = 313
Score = 138 bits (349), Expect = 6e-40
Identities = 32/167 (19%), Positives = 61/167 (36%), Gaps = 20/167 (11%)
Query: 20 LFLSDEQVRDLLDWESLVPAIESVMVKVSKKEVIQPARLFMRIPEVNGVLLSMPGYIKRT 79
L + D + D + ++ + + + + R +R L ++ I
Sbjct: 5 LHIDDAMIEDAVTPQAAQEVLHAAFLDFGRGSAAMQRR--VRTEAGGVKLSTLGAVI--- 59
Query: 80 GPDGEDSLAIKVVTSFTDNKVKGLPSVLATVLLYNTDNGKLKVVMEGTEITKWRTAAASV 139
G+ KV T+ +LL++ +G+ + +T+ RTAA +V
Sbjct: 60 --PGQGVAGAKVYTTIKGQ-------FQFVILLFSAADGRPLATCDAGTLTRKRTAACTV 110
Query: 140 VATKHLFGRSGDKDLVLAIMGSGAQAYIHAKAFHASLKLKK---YNR 183
+A L R VL + G+G Q HA A L+ ++
Sbjct: 111 LAAGAL-ARPRSS--VLGLFGAGTQGAEHAAQLSARFALEAILVHDP 154
Score = 30.7 bits (70), Expect = 0.29
Identities = 8/21 (38%), Positives = 10/21 (47%)
Query: 197 GMATEDVITAKLIYDKYQAQH 217
G+ EDV A Y + AQ
Sbjct: 288 GVGLEDVALAGYAYRRLAAQR 308
>1x7d_A Ornithine cyclodeaminase; binds NAD+, binds L-ornithine, binds
L-proline, 2 bundle, beta barrel, rossmann fold, lyase;
HET: NAD ORN MES; 1.60A {Pseudomonas putida} SCOP:
c.2.1.13 PDB: 1u7h_A*
Length = 350
Score = 131 bits (331), Expect = 6e-37
Identities = 41/174 (23%), Positives = 71/174 (40%), Gaps = 24/174 (13%)
Query: 20 LFLSDEQVRDLLD-------WESLVPAIESVMVKVSKKEVIQPARLFMRIPEVNGVLLSM 72
F+ + DL+ L A+ + + + GV+ M
Sbjct: 3 YFIDVPTMSDLVHDIGVAPFIGELAAALRDDFKRWQAFDKSAR----VASHSEVGVIELM 58
Query: 73 PGYIKRTGPDGEDSLAIKVVTSFTDNKVKGLPSVLATVLLYNTDNGKLKVVMEGTEITKW 132
P + A K V N + L +V+A +L + D+G ++ E T T
Sbjct: 59 PVA-------DKSRYAFKYVNGHPANTARNLHTVMAFGVLADVDSGYPVLLSELTIATAL 111
Query: 133 RTAAASVVATKHLFGRSGDKDLVLAIMGSGAQAYIHAKAFHASLKLKK---YNR 183
RTAA S++A + L R + +A++G+GAQ+ A AFH L +++ Y+
Sbjct: 112 RTAATSLMAAQAL-ARPNAR--KMALIGNGAQSEFQALAFHKHLGIEEIVAYDT 162
Score = 30.0 bits (68), Expect = 0.58
Identities = 4/20 (20%), Positives = 9/20 (45%)
Query: 197 GMATEDVITAKLIYDKYQAQ 216
G A ED + + + + +
Sbjct: 295 GFALEDYTVLRYVLQQAEKR 314
>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 = 37.0 bits (85), Expect = 0.004
Identities = 42/225 (18%), Positives = 70/225 (31%), Gaps = 61/225 (27%)
Query: 8 SAISSTQPNQPPLFLSDEQVRDLLDWESLVPAIESVMVKVSKKEVIQPARLFMRIPEVNG 67
A S+ PL LS + +L LVP + +++ F +
Sbjct: 2 DAYSTR-----PLTLSHGSLEHVL----LVPTASFFIASQLQEQ-------FNK------ 39
Query: 68 VLLSMPGYIKRTGPDGEDSLAIKVVTSF--------TDNKVKGLPSVLATVLLYNTDNGK 119
+P + D E + ++V F +KV VL L +
Sbjct: 40 ---ILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENC-- 94
Query: 120 LKVVMEGTEITKWRTAAASVVATKHLFGRSGDKDLVLAIMGSGAQAYIHAKAFHASLKLK 179
+EG +I AA ++ + D L + YI A+ K
Sbjct: 95 ---YLEGNDI---HALAAKLL---------QENDTTLVKTKELIKNYITARIMAKRPFDK 139
Query: 180 KYNRGLTEGTVTGSTK-------KGMATEDVITAKL--IYDKYQA 215
K N L G+ + +G T+D +L +Y Y
Sbjct: 140 KSNSALFRAVGEGNAQLVAIFGGQG-NTDDYFE-ELRDLYQTYHV 182
Score = 31.9 bits (72), Expect = 0.18
Identities = 32/163 (19%), Positives = 54/163 (33%), Gaps = 59/163 (36%)
Query: 10 ISSTQPNQPPLFL-SDEQVRDLLDW---------------E--SLVPAIESVM-----VK 46
+S+TQ QP L L DL E +L ++ VM V+
Sbjct: 1726 LSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALA-SLADVMSIESLVE 1784
Query: 47 VSKKEVIQPARLFMRIPEVNGVLLS--MPGYIKRTGPDGEDSLAI---KVVTSFTDNKVK 101
V +F R G+ + +P G +AI +V SF+ ++
Sbjct: 1785 V----------VFYR-----GMTMQVAVPR--DELGRSNYGMIAINPGRVAASFSQEALQ 1827
Query: 102 GLPSVLAT---VLL----YNTDN------GKLKVVMEGTEITK 131
+ + L+ YN +N G L+ + T +
Sbjct: 1828 YVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLN 1870
Score = 26.6 bits (58), Expect = 9.1
Identities = 6/26 (23%), Positives = 13/26 (50%), Gaps = 7/26 (26%)
Query: 192 GSTKKGM-----ATEDVITAKLIYDK 212
GS ++GM T A+ ++++
Sbjct: 1625 GSQEQGMGMDLYKTSKA--AQDVWNR 1648
>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 = 34.1 bits (77), Expect = 0.037
Identities = 35/231 (15%), Positives = 55/231 (23%), Gaps = 69/231 (29%)
Query: 16 NQPPLFLSDEQVRDLLDWESLVPAIESVMVK---VSKKEVIQPARLF---MRIPE----- 64
+ F+ + +D+ D + + +SK V RLF + E
Sbjct: 25 FEDA-FVDNFDCKDVQD--MPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQK 81
Query: 65 -VNGVLLSMPGY------IKR--TGPDGEDSLAIK-------VVTSFTDNKVKGLPSVLA 108
V VL Y IK P + I+ F V L L
Sbjct: 82 FVEEVL--RINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLK 139
Query: 109 -TVLLYNTDNGKLKVV--MEGTEITKWRTAAASVVATKHL------------FGRSGDKD 153
L K ++ + G K A V + + +
Sbjct: 140 LRQALLELRPAKNVLIDGVLG--SGKT-WVALDVCLSYKVQCKMDFKIFWLNLKNCNSPE 196
Query: 154 LVLAIM--------------GSGAQAYIH-----AKAFHASLKLKKYNRGL 185
VL ++ + LK K Y L
Sbjct: 197 TVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCL 247
>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 = 29.1 bits (64), Expect = 0.65
Identities = 6/19 (31%), Positives = 9/19 (47%)
Query: 72 MPGYIKRTGPDGEDSLAIK 90
+ +K D +LAIK
Sbjct: 25 LQASLKLYADDSAPALAIK 43
>2ixa_A Alpha-N-acetylgalactosaminidase; NAD, A-ECO conversion, hydrolase;
HET: NAD; 2.3A {Flavobacterium meningosepticum} PDB:
2ixb_A*
Length = 444
Score = 27.4 bits (60), Expect = 4.1
Identities = 6/40 (15%), Positives = 15/40 (37%), Gaps = 2/40 (5%)
Query: 137 ASVVATKHLFGRSG--DKDLVLAIMGSGAQAYIHAKAFHA 174
+++ + LF K + +A + G + H +
Sbjct: 2 GALIPSSTLFNIFDFNPKKVRIAFIAVGLRGQTHVENMAR 41
>2rqf_A HJHBP, hemolymph juvenIle hormone binding protein; HET: JH3; NMR
{Bombyx mori} PDB: 3a1z_A 3aos_A* 3aot_A*
Length = 227
Score = 26.2 bits (57), Expect = 7.9
Identities = 8/81 (9%), Positives = 23/81 (28%), Gaps = 7/81 (8%)
Query: 50 KEVIQPARLFMR--IPEVNGVLLSM-PGYIKRTGPDGEDSLAIKVVTSFTDNKVKGLPSV 106
+ IP+ + + + P + I + F + + GL +
Sbjct: 20 SSATEQFLEKTSKGIPQYD--IWPIDPLVVTSLDVIAPSDAGIVI--RFKNLNITGLKNQ 75
Query: 107 LATVLLYNTDNGKLKVVMEGT 127
+ +T + + +
Sbjct: 76 QISDFQMDTKAKTVLLKTKAD 96
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
0.314 0.129 0.362
Gapped
Lambda K H
0.267 0.0647 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,245,107
Number of extensions: 188783
Number of successful extensions: 315
Number of sequences better than 10.0: 1
Number of HSP's gapped: 302
Number of HSP's successfully gapped: 19
Length of query: 224
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 134
Effective length of database: 4,188,903
Effective search space: 561313002
Effective search space used: 561313002
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 55 (25.1 bits)