RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3161
(211 letters)
>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 = 40.4 bits (94), Expect = 3e-04
Identities = 40/227 (17%), Positives = 59/227 (25%), Gaps = 103/227 (45%)
Query: 32 TDGSKSPDA---TGCAFS---IG--------DMVRSTSLNPINSIFSAELIAIFLCLEAI 77
+ S +PD S IG + P + L + +
Sbjct: 220 ENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGE--LRSYLKGATGHSQGL 277
Query: 78 L------ESPS-DQFLIVSDSRSAIAALANW------NNVPNTNKLKSIRPNIKHWNTST 124
+ E+ S + F R AI L + PNT S+ P+I
Sbjct: 278 VTAVAIAETDSWESFF--VSVRKAITVLF-FIGVRCYEAYPNT----SLPPSI------L 324
Query: 125 QDRRIKEVILTRMRIGHTRLTHNHLFTKSDPPICQCGAP---LSVRHLL----------- 170
+D L +N G P LS+ +L
Sbjct: 325 EDS----------------LENNE------------GVPSPMLSISNLTQEQVQDYVNKT 356
Query: 171 --SCPRHGHIRASLR----------PPPSLGDDEEGVNSLFSYLQKL 205
P + SL PP SL G+N L+K
Sbjct: 357 NSHLPAGKQVEISLVNGAKNLVVSGPPQSL----YGLN---LTLRKA 396
Score = 39.6 bits (92), Expect = 5e-04
Identities = 20/109 (18%), Positives = 41/109 (37%), Gaps = 25/109 (22%)
Query: 39 DATGCAFSIGDMVRSTSLNP--INSIFSAELIAIFLCLEA------ILE-----SPSDQF 85
D G S M+ ++NP + + FS E + ++ ++E + Q+
Sbjct: 1800 DELGR--SNYGMI---AINPGRVAASFSQEALQ-YVVERVGKRTGWLVEIVNYNVENQQY 1853
Query: 86 LIVSDSRSAIAALANWNNVPNTNKLKSIRPNIKHWNTSTQDRRIKEVIL 134
+ + A+ + N V N KL+ I +I S ++ +
Sbjct: 1854 -VAAGDLRALDTVTN---VLNFIKLQKI--DIIELQKSLSLEEVEGHLF 1896
Score = 31.9 bits (72), Expect = 0.16
Identities = 21/110 (19%), Positives = 38/110 (34%), Gaps = 27/110 (24%)
Query: 10 VVFQQKFSEVINTKYANHTICYTDGSKSPDATGCAFSIGDMVRSTSLNPINSIFS--AEL 67
+ F + + I Y+ + + T F + STS F L
Sbjct: 1674 IHFGGEKGKRIRENYS--AMIFETIVDGKLKTEKIFKEIN-EHSTSY-----TFRSEKGL 1725
Query: 68 I--------AIFLCLEAILESPSDQFLIVSDSR---------SAIAALAN 100
+ A+ L +A E + LI +D+ +A+A+LA+
Sbjct: 1726 LSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLAD 1775
Score = 31.6 bits (71), Expect = 0.22
Identities = 29/183 (15%), Positives = 52/183 (28%), Gaps = 52/183 (28%)
Query: 64 SAELIAIFL-----------------CLEAILESPSDQFLIVSDSRSAIAALANWNNVPN 106
AEL+ FL L L + +L +D + A L N+
Sbjct: 57 PAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTL 116
Query: 107 TNKLKSIRP--NIKHWNTSTQDRRIKEVILTRMRIGHTRL--------THNHLFT----- 151
+ I+ + D++ + + G+ +L + F
Sbjct: 117 VKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDL 176
Query: 152 -KSDPP-----ICQCGAPLS--VRHLLSCPR---HG-HIRASLRPPPSLGDDEEGVNSLF 199
++ I LS +R L + G +I L P + D +
Sbjct: 177 YQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKD------- 229
Query: 200 SYL 202
YL
Sbjct: 230 -YL 231
Score = 31.2 bits (70), Expect = 0.30
Identities = 17/59 (28%), Positives = 22/59 (37%), Gaps = 18/59 (30%)
Query: 163 PL-----SVRHLLSCPRHGHIRAS-LR-------PPPSLG---DDE-EGVNSLFS-YLQ 203
PL S+ H+L P AS L+ P P+ G DDE L +L
Sbjct: 8 PLTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLG 66
Score = 29.6 bits (66), Expect = 0.97
Identities = 9/26 (34%), Positives = 11/26 (42%), Gaps = 4/26 (15%)
Query: 164 LSVRHL-LSCPRHGHIRASLRPPPSL 188
S R L LS HG + L P +
Sbjct: 4 YSTRPLTLS---HGSLEHVLLVPTAS 26
Score = 26.6 bits (58), Expect = 7.7
Identities = 28/209 (13%), Positives = 59/209 (28%), Gaps = 68/209 (32%)
Query: 12 FQQKF---SEVINTKYANHTICYTDGSKSPDATGCAFSIGDMVRS----------TSLNP 58
F+ + +++ H + + +++++
Sbjct: 91 FENCYLEGNDI-------HALA---AKLLQENDTTLVKTKELIKNYITARIMAKRPFDKK 140
Query: 59 INSIF-------SAELIAIF-------LCLEAILE-----SPSDQFLIVSDSRSAIAALA 99
NS +A+L+AIF E + + LI + + L
Sbjct: 141 SNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLI----KFSAETL- 195
Query: 100 NWNNVPNTNKLKSIRP---NIKHWNTSTQDRRIKEVILTRMRIGHTRLTHNHLFTKSDPP 156
+ T + + NI W + + K+ +L+ S P
Sbjct: 196 -SELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLS--------------IPISCPL 240
Query: 157 IC--QCGAPLSVRHLLSCPRHGHIRASLR 183
I Q + LL G +R+ L+
Sbjct: 241 IGVIQLAHYVVTAKLLGF-TPGELRSYLK 268
>2kq2_A Ribonuclease H-related protein; PSI, NESG, protein structure, APO
enzyme, structural genomics, protein structure
initiative; NMR {Desulfitobacterium hafniense dcb-2}
PDB: 2kw4_A
Length = 147
Score = 28.1 bits (63), Expect = 1.5
Identities = 14/108 (12%), Positives = 23/108 (21%), Gaps = 21/108 (19%)
Query: 31 YTDGSKSPDATGCAFSI-----------GDMVRSTSLNPINSIFSAELIAIFLCLEAILE 79
YTDGS A++ + E+ A ++ +
Sbjct: 10 YTDGSYVNGQYAWAYAFVKDGKVHYEDADVGKNPA--AATMRNVAGEIAAALYAVKKASQ 67
Query: 80 SPSDQFLIVSDSRSAIA-ALANW-NNVPNTNKLK----SIRPNIK-HW 120
+ I+ D A W T R
Sbjct: 68 LGV-KIRILHDYAGIAFWATGEWKAKNEFTQAYAKLMNQYRGIYSFEK 114
>3pu5_A Extracellular solute-binding protein; structural genomics, PSI-2,
protein structure initiative; 2.05A {Bordetella
parapertussis}
Length = 333
Score = 28.5 bits (64), Expect = 1.6
Identities = 7/54 (12%), Positives = 17/54 (31%), Gaps = 11/54 (20%)
Query: 81 PSDQFLIVSDSRSAI-AALANWNNVPNT----------NKLKSIRPNIKHWNTS 123
Q + S + A + + L+ ++P+I + T+
Sbjct: 141 FGKQVFFNNLSSNVRGAEVLSMFGKIYGSGYGDIEASIATLERMKPHIFKFFTA 194
>3ny3_A E3 ubiquitin-protein ligase UBR2; zinc finger-like, ubiquitin
ligase, protein binding, lygase,; 1.60A {Homo sapiens}
PDB: 3ny2_A 3ny1_A
Length = 75
Score = 25.7 bits (56), Expect = 4.0
Identities = 8/31 (25%), Positives = 12/31 (38%), Gaps = 1/31 (3%)
Query: 146 HNHLFTKSDPP-ICQCGAPLSVRHLLSCPRH 175
H + T S C CG + + C +H
Sbjct: 44 HRYRMTTSGGGGFCDCGDTEAWKEGPYCQKH 74
>3rpw_A ABC transporter; structural genomics, PSI-biology, protein
structure initiati midwest center for structural
genomics, MCSG; HET: MSE; 1.65A {Rhodopseudomonas
palustris}
Length = 365
Score = 26.6 bits (59), Expect = 6.5
Identities = 7/16 (43%), Positives = 11/16 (68%)
Query: 108 NKLKSIRPNIKHWNTS 123
KLK I+P++ W T+
Sbjct: 206 KKLKEIKPHVVKWWTT 221
>2qn5_B Bowman-BIRK type BRAN trypsin inhibitor; RBTI, bowman-BIRK
inhibitor, monocotyledonous plant, reactive-site loop,
protease-inhibitor, plant-PEST systems; 3.00A {Oryza
sativa}
Length = 133
Score = 25.5 bits (55), Expect = 8.8
Identities = 5/11 (45%), Positives = 7/11 (63%)
Query: 151 TKSDPPICQCG 161
K +PP C+C
Sbjct: 82 NKMNPPTCRCM 92
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 0.134 0.405
Gapped
Lambda K H
0.267 0.0682 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,164,025
Number of extensions: 173616
Number of successful extensions: 305
Number of sequences better than 10.0: 1
Number of HSP's gapped: 303
Number of HSP's successfully gapped: 19
Length of query: 211
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 122
Effective length of database: 4,216,824
Effective search space: 514452528
Effective search space used: 514452528
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: 55 (25.1 bits)