RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15374
(205 letters)
>2a1i_A DNA excision repair protein ERCC-1; XPF, central domain, DNA
repair, endonuclease, DNA binding protein; HET: DNA;
1.90A {Homo sapiens} SCOP: c.52.1.20 PDB: 2jnw_A*
2jpd_A*
Length = 146
Score = 199 bits (508), Expect = 3e-66
Identities = 79/145 (54%), Positives = 104/145 (71%), Gaps = 6/145 (4%)
Query: 53 TSESVQPSRAGASKSSNAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFL 112
S + SN+I+V+PRQ+GNP+LK + VPWE+ D +IPDYV+G++TCALFL
Sbjct: 2 GSSHHHHHHSQDPAKSNSIIVSPRQRGNPVLKFVRNVPWEFGD-VIPDYVLGQSTCALFL 60
Query: 113 SIKYHALKPDYIADRIKALGKLYKL-----QVDSKDPHHALKYLTRVCLLCDLTLMLAWS 167
S++YH L PDYI R+++LGK + L QVD KDP ALK L ++C+L D TL+LAWS
Sbjct: 61 SLRYHNLHPDYIHGRLQSLGKNFALRVLLVQVDVKDPQQALKELAKMCILADCTLILAWS 120
Query: 168 PEEAGEMIETYKVFENKPPDLIMEK 192
PEEAG +ETYK +E KP DL+MEK
Sbjct: 121 PEEAGRYLETYKAYEQKPADLLMEK 145
Score = 56.8 bits (137), Expect = 9e-11
Identities = 21/30 (70%), Positives = 25/30 (83%)
Query: 1 MLAWSPEEAGEMIETYKVFENKPPDLIMEK 30
+LAWSPEEAG +ETYK +E KP DL+MEK
Sbjct: 116 ILAWSPEEAGRYLETYKAYEQKPADLLMEK 145
>2a1j_B DNA excision repair protein ERCC-1; XPF, xeroderma pigmentosum,
DNA repair, endonuclease, helix-hairpin-helix, DNA
binding protein; HET: DNA; 2.70A {Homo sapiens} SCOP:
a.60.2.5
Length = 91
Score = 39.0 bits (91), Expect = 1e-04
Identities = 8/27 (29%), Positives = 12/27 (44%)
Query: 16 YKVFENKPPDLIMEKQDVDPHSKTWNF 42
+ P DL+MEK + D S+
Sbjct: 7 HHHHSQDPADLLMEKLEQDFVSRVTEC 33
Score = 39.0 bits (91), Expect = 1e-04
Identities = 8/27 (29%), Positives = 12/27 (44%)
Query: 178 YKVFENKPPDLIMEKQDVDPHSKTWNF 204
+ P DL+MEK + D S+
Sbjct: 7 HHHHSQDPADLLMEKLEQDFVSRVTEC 33
>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 = 37.9 bits (87), Expect = 0.002
Identities = 40/292 (13%), Positives = 84/292 (28%), Gaps = 101/292 (34%)
Query: 2 LAWSPEEAGEMIETYKVF------------------ENKPPDLIMEKQDVDPHSKTWNFD 43
L W+ E E + F E + P ++ ++ + +N D
Sbjct: 67 LFWTLLSKQE--EMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMY-IEQRDRLYN-D 122
Query: 44 PVPAAQNSATSE-----------SVQPSR-------AGASKSSNAILV---NPRQKGNPL 82
A+ + + ++P++ G+ K+ A+ V Q
Sbjct: 123 NQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMD- 181
Query: 83 LKHIGKVPW------EYDDSIIPD-----YVMGRTTCALFLSIKYHALKPDYIADRIKAL 131
K+ W ++++ Y + + L+ I ++ L
Sbjct: 182 ----FKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRL 237
Query: 132 --GKLYK--LQV--DSKDPHHALKYLTRVC--LL----------------CDLTLM---L 164
K Y+ L V + ++ C LL ++L +
Sbjct: 238 LKSKPYENCLLVLLNVQNAKA-WNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSM 296
Query: 165 AWSPEEAGEMIETYKVFENKPPDLIMEKQDVDP------------HSKTWNF 204
+P+E ++ K + +P DL E +P TW+
Sbjct: 297 TLTPDEVKSLLL--KYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDN 346
Score = 32.1 bits (72), Expect = 0.14
Identities = 32/207 (15%), Positives = 64/207 (30%), Gaps = 52/207 (25%)
Query: 5 SPEEAGEMIETYKVFENKPPDLIMEKQDVDP------------HSKTWNFDPVPAAQNSA 52
+P+E ++ K + +P DL E +P TW+
Sbjct: 299 TPDEVKSLLL--KYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDN--WKHVNCDK 354
Query: 53 TSESVQPSRAGASKSSNAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFL 112
+ + +SS +L + + + P + IP + L
Sbjct: 355 LTTII--------ESSLNVLEPAEYR--KMFDRLSVFP---PSAHIPTIL---------L 392
Query: 113 SIKYHALKPDYIADRIKALGKLYKLQVDSKDPHHALKYLTRVCLLCDLTLMLAWSPEEAG 172
S+ + + D + + KL+K + K P + + + L L E
Sbjct: 393 SLIWFDVIKS---DVMVVVNKLHKYSLVEKQPKESTISIP------SIYLELKVKLENEY 443
Query: 173 EM----IETYKVFENKPP-DLIMEKQD 194
+ ++ Y + + DLI D
Sbjct: 444 ALHRSIVDHYNIPKTFDSDDLIPPYLD 470
>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 = 35.0 bits (80), Expect = 0.017
Identities = 31/195 (15%), Positives = 56/195 (28%), Gaps = 70/195 (35%)
Query: 5 SPEEAGEMIETYKV----FENKPPDLIMEKQDVDPHSKTWNFDPVPAAQNSATSESVQPS 60
P + G+ + + FEN +E D+ H+ AA+ +++
Sbjct: 73 EPSKVGQFDQVLNLCLTEFENC----YLEGNDI--HAL--------AAKLLQENDTTLVK 118
Query: 61 RAGASKS---SNAILVNPRQKGNP--LLKHI--GKVPWEYDDSIIPDYVMGRTTCALF-- 111
K+ + + P K + L + + G A+F
Sbjct: 119 TKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNA----------------QLVAIFGG 162
Query: 112 -------------LSIKYHALKPDYIADRIKALGKLYKLQVDSKDPHHALKYLTRVCLLC 158
L YH L D I + L +L + A K T+
Sbjct: 163 QGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSEL------IRTTLDAEKVFTQG---L 213
Query: 159 DLTLMLAW--SPEEA 171
++ L W +P
Sbjct: 214 NI---LEWLENPSNT 225
>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 = 28.0 bits (61), Expect = 1.5
Identities = 10/30 (33%), Positives = 12/30 (40%), Gaps = 3/30 (10%)
Query: 29 EKQDV---DPHSKTWNFDPVPAAQNSATSE 55
EKQ + K + D PA AT E
Sbjct: 18 EKQALKKLQASLKLYADDSAPALAIKATME 47
>3kzw_A Cytosol aminopeptidase; hydrolase, manganese binding, protease,
structural genomics; 2.70A {Staphylococcus aureus subsp}
Length = 515
Score = 28.1 bits (63), Expect = 2.1
Identities = 10/26 (38%), Positives = 13/26 (50%)
Query: 119 LKPDYIADRIKALGKLYKLQVDSKDP 144
L P A+ I K K++VD KD
Sbjct: 214 LTPQTFAEDIVNHFKNTKVKVDVKDY 239
>3bh1_A UPF0371 protein DIP2346; structural genomics, unknown function,
protein structure INI PSI-2; 2.51A {Corynebacterium
diphtheriae nctc 13129ORGANISM_TAXID}
Length = 507
Score = 27.8 bits (62), Expect = 2.5
Identities = 17/44 (38%), Positives = 25/44 (56%), Gaps = 4/44 (9%)
Query: 111 FLSIKYHALKPDYIADRIKALG-KLYKLQVDSK--DPHHALKYL 151
F KY ++ +I +R +ALG KLY L++ K D HA + L
Sbjct: 9 FDREKYIEMQSQHIRERREALGGKLY-LEMGGKLFDDMHASRVL 51
>1zlg_A Anosmin 1; insulin-like growth factor receptor Cys-rich fold, WHEY
acidic protein fold, fibronectin type III fold, hormone-
growth factor complex; NMR {Homo sapiens}
Length = 680
Score = 27.6 bits (60), Expect = 3.5
Identities = 18/126 (14%), Positives = 37/126 (29%), Gaps = 23/126 (18%)
Query: 1 MLAWSP--EEAGEMIETYKVFENKPPDLIMEKQDVDPHSKTWNFDPVPAAQNSATSESVQ 58
+W + + ++V +Q+ P+S +P+ T +++
Sbjct: 545 HFSWKMAKANLYQPMTGFQVT--WAEVTTESRQNSLPNSIISQSQILPSDHYVLTVPNLR 602
Query: 59 P-----------SRAGASKSSNAILVNPR----QKGNPLLKHIG----KVPWEYDDSIIP 99
P + G ++ P LKH K E IP
Sbjct: 603 PSTLYRLEVQVLTPGGEGPATIKTFRTPELPPSSAHRSHLKHRHPHHYKPSPERYGKPIP 662
Query: 100 DYVMGR 105
+ ++G
Sbjct: 663 NPLLGL 668
>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 = 26.2 bits (57), Expect = 6.6
Identities = 12/58 (20%), Positives = 17/58 (29%), Gaps = 13/58 (22%)
Query: 52 ATSESVQPSRAGASKSSNAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCA 109
T ES+ + N +L P K P I+ + G CA
Sbjct: 2 MTRESIDKRAGRRGPNLNIVLTCPECKVYP-------------PKIVERFSEGDVVCA 46
>4efd_A Aminopeptidase; structural genomics, structural genomics
consortium, SGC, hydrolase; 2.45A {Trypanosoma brucei
brucei}
Length = 522
Score = 26.7 bits (59), Expect = 7.5
Identities = 4/22 (18%), Positives = 6/22 (27%)
Query: 119 LKPDYIADRIKALGKLYKLQVD 140
L + + K VD
Sbjct: 221 LTTATFTEIAQGYAKALGFDVD 242
>2hc9_A Leucine aminopeptidase 1; carbonate, structural genomics, P protein
structure initiative, NEW YORK SGX research center
structural genomics; 1.85A {Caenorhabditis elegans} PDB:
2hb6_A
Length = 491
Score = 25.9 bits (57), Expect = 9.8
Identities = 4/22 (18%), Positives = 8/22 (36%)
Query: 119 LKPDYIADRIKALGKLYKLQVD 140
L D + D +G ++
Sbjct: 184 LTTDALVDEAVKVGNATGSKIT 205
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
0.316 0.133 0.410
Gapped
Lambda K H
0.267 0.0655 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,277,168
Number of extensions: 185181
Number of successful extensions: 480
Number of sequences better than 10.0: 1
Number of HSP's gapped: 476
Number of HSP's successfully gapped: 22
Length of query: 205
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 116
Effective length of database: 4,216,824
Effective search space: 489151584
Effective search space used: 489151584
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (25.1 bits)