RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12064
(148 letters)
>3swh_A MUNC13-1, protein UNC-13 homolog A; alpha helical, neurotransmitter
release, snare motif, exocyt; 2.65A {Rattus norvegicus}
Length = 341
Score = 80.8 bits (198), Expect = 4e-19
Identities = 48/67 (71%), Positives = 58/67 (86%)
Query: 1 MEKSLSPKQCALLDASLDSIKNYFHAAGNGLKKTYLDKSPELASLRYALSLYTQTTDALI 60
KSL+PKQCA+++ +LD+IK YFHA G GLKKT+L+KSP+L SLRYALSLYTQ TD LI
Sbjct: 273 EAKSLTPKQCAVVELALDTIKQYFHAGGVGLKKTFLEKSPDLQSLRYALSLYTQATDLLI 332
Query: 61 KTFVQSQ 67
KTFVQ+Q
Sbjct: 333 KTFVQTQ 339
>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 = 38.7 bits (89), Expect = 3e-04
Identities = 27/150 (18%), Positives = 53/150 (35%), Gaps = 44/150 (29%)
Query: 14 DASLDSIKNYF------HAAGNGLKKTYLDKSPELASLRYALSLYTQTTDALIKTFVQ-- 65
D + YF H LK + L + + L F++
Sbjct: 463 DLIPPYLDQYFYSHIGHH-----LKNIEHPERMTLFRMVF-LDF----------RFLEQK 506
Query: 66 -----SQCNEGRDLIGNEEQLEFFELHICVKDYCFARDDRLVGVAVLQLKDIVEQVKHQI 120
+ N ++ +QL+F++ +IC D + +RLV + D + +++ +
Sbjct: 507 IRHDSTAWNASGSILNTLQQLKFYKPYICDND---PKYERLVN----AILDFLPKIEENL 559
Query: 121 CVKDYCFARDDRLVGVAVLQLKD--IVEQK 148
Y L+ +A L +D I E+
Sbjct: 560 ICSKYT-----DLLRIA-LMAEDEAIFEEA 583
Score = 31.7 bits (71), Expect = 0.084
Identities = 24/147 (16%), Positives = 53/147 (36%), Gaps = 32/147 (21%)
Query: 3 KSLSPKQCALLDASL----DSIKNYFHAAGNGLKKTYLDKS-----PELASLRY-ALSLY 52
+ +P++ +++ S+ + N+ H + L ++ S P + LS++
Sbjct: 323 LTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTI-IESSLNVLEPAEYRKMFDRLSVF 381
Query: 53 TQTTDALIKTFVQSQCNEGR---DLIGNEEQLEFFELH---ICVKDYCFARDDRLVGVAV 106
A I T + S D+I ++ + +LH + K + + +
Sbjct: 382 PP--SAHIPTILLS-----LIWFDVIKSDVMVVVNKLHKYSLVEKQ----PKESTISIPS 430
Query: 107 LQL----KDIVEQVKHQICVKDYCFAR 129
+ L K E H+ V Y +
Sbjct: 431 IYLELKVKLENEYALHRSIVDHYNIPK 457
Score = 26.7 bits (58), Expect = 3.6
Identities = 14/75 (18%), Positives = 32/75 (42%), Gaps = 12/75 (16%)
Query: 57 DALIKTFVQSQCNEGRDL----IGNEEQLEFFELHICVKDYCFARDDRLVGVAVLQLKDI 112
DA + F C + +D+ + EE + HI + + RL + + +++
Sbjct: 27 DAFVDNF---DCKDVQDMPKSILSKEE----ID-HIIMSKDAVSGTLRLFWTLLSKQEEM 78
Query: 113 VEQVKHQICVKDYCF 127
V++ ++ +Y F
Sbjct: 79 VQKFVEEVLRINYKF 93
>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 = 36.6 bits (84), Expect = 0.002
Identities = 21/117 (17%), Positives = 37/117 (31%), Gaps = 25/117 (21%)
Query: 4 SLSPKQCALLDASLDSIKNYFHAAGNGLKKTYLDKSPELASLRYALSLYTQTTDALIKTF 63
L + L + + IKNY A + DK A L+ + +
Sbjct: 107 KLLQENDTTLVKTKELIKNYITARIMAKRP--FDKKSNSA-------LFRAVGEGNAQLV 157
Query: 64 VQ--SQCNEGRDLIGNEEQLEFF-ELHICVKDY-CFARDDRLVGVAVLQLKDIVEQV 116
Q GN + ++F EL + Y D L+ + L +++
Sbjct: 158 AIFGGQ--------GNTD--DYFEELRDLYQTYHVLVGD--LIKFSAETLSELIRTT 202
Score = 33.1 bits (75), Expect = 0.028
Identities = 22/121 (18%), Positives = 37/121 (30%), Gaps = 30/121 (24%)
Query: 15 ASLDSIKNYFH--AAGNGL---KKTYLDKSPELASLRYAL-------SLYTQTTDALIKT 62
SL + A +GL + + ++ + S R+ L S LI
Sbjct: 384 QSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKF-SNRF-LPVASPFHSHLLVPASDLINK 441
Query: 63 FVQSQCNEGRDLIGNEEQLEFFELHICVKDYCFARDDRLVGVAVLQLKDIVEQVKHQICV 122
DL+ N ++ I V D D R++ I E++ I
Sbjct: 442 ----------DLVKNNVSFNAKDIQIPVYDTFDGSDLRVLS------GSISERIVDCIIR 485
Query: 123 K 123
Sbjct: 486 L 486
>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 = 31.5 bits (70), Expect = 0.053
Identities = 13/43 (30%), Positives = 16/43 (37%), Gaps = 20/43 (46%)
Query: 2 EKSLSPKQCALLDASLDSIKNYFHAAGNGLKKTY-LDKSPELA 43
EK + K+ L ASL K Y D +P LA
Sbjct: 18 EKQ-ALKK---LQASL---------------KLYADDSAPALA 41
Score = 28.8 bits (63), Expect = 0.47
Identities = 10/31 (32%), Positives = 16/31 (51%), Gaps = 3/31 (9%)
Query: 37 DKSPELASLRYALSLYT-QTTDAL-IKTFVQ 65
+K L L+ +L LY + AL IK ++
Sbjct: 18 EKQ-ALKKLQASLKLYADDSAPALAIKATME 47
>2nq3_A Itchy homolog E3 ubiquitin protein ligase; C2 domain, UBL
conjugation pathway, structural genomics consortium,
SGC; 1.80A {Homo sapiens} SCOP: b.7.1.1
Length = 173
Score = 28.7 bits (64), Expect = 0.50
Identities = 9/48 (18%), Positives = 20/48 (41%), Gaps = 5/48 (10%)
Query: 79 EQLEFF-----ELHICVKDYCFARDDRLVGVAVLQLKDIVEQVKHQIC 121
+ L +LH V + + D L+G A L + + ++ ++
Sbjct: 85 QPLTVIVTPVSKLHFRVWSHQTLKSDVLLGTAALDIYETLKSNNMKLE 132
>2fk9_A Protein kinase C, ETA type; ATP-binding, metal-binding,
nucleotide-binding, diacylglycerol binding,
serine/threonine-protein kinase, transferase; 1.75A
{Homo sapiens}
Length = 157
Score = 28.0 bits (62), Expect = 0.89
Identities = 6/38 (15%), Positives = 12/38 (31%)
Query: 82 EFFELHICVKDYCFARDDRLVGVAVLQLKDIVEQVKHQ 119
+ L + V D V LQ ++++
Sbjct: 97 DGGHLELAVFHETPLGYDHFVANCTLQFQELLRTTGAS 134
>3l9b_A Otoferlin; C2-domain, beta-sheets, cell membrane, synaptic V
hearing, membrane, synapse, transmembrane, membrane
protein; 1.95A {Rattus norvegicus}
Length = 144
Score = 27.3 bits (60), Expect = 1.3
Identities = 8/31 (25%), Positives = 17/31 (54%)
Query: 85 ELHICVKDYCFARDDRLVGVAVLQLKDIVEQ 115
L I + +Y ++L+G + L+ +VE+
Sbjct: 81 VLEIQIFNYSKVFSNKLIGTFRMVLQKVVEE 111
>2wm1_A 2-amino-3-carboxymuconate-6-semialdehyde decarboxylase;
neurological disorders, metal-dependent amidohydrolase,
kynurenine pathway; HET: 13P; 2.01A {Homo sapiens}
Length = 336
Score = 27.8 bits (62), Expect = 1.4
Identities = 11/50 (22%), Positives = 21/50 (42%), Gaps = 11/50 (22%)
Query: 92 DYCFARDDRLVGVAVLQLKDI---VEQVKHQICVKDYCFARDDRLVGVAV 138
+ R VG+ L ++ V++++ CVK+ F GV +
Sbjct: 102 STVVSYPRRFVGLGTLPMQAPELAVKEMER--CVKELGF------PGVQI 143
>3u5c_C Guanine nucleotide-binding protein subunit beta-L protein (ASC1,
RACK1); translation, ribosome, ribosomal, ribosomal R
ribosomal protein, eukaryotic ribosome, RNA-protein C;
3.00A {Saccharomyces cerevisiae} PDB: 3izb_E 3o30_B
3o2z_B 3u5g_C 3jyv_E* 1s1h_E
Length = 254
Score = 27.1 bits (60), Expect = 2.1
Identities = 9/42 (21%), Positives = 14/42 (33%), Gaps = 1/42 (2%)
Query: 22 NYFHAAGNGLKKTYLDKSPELAS-LRYALSLYTQTTDALIKT 62
N AA + TY +P L + +S +D
Sbjct: 209 NTLKAAFVAIGNTYGFLTPNLWAEQPLPVSPLDIYSDEASAQ 250
>2r6z_A UPF0341 protein in RSP 3' region; alpha-beta protein, structural
genomics, PSI-2, protein structure initiative; 1.80A
{Neisseria gonorrhoeae}
Length = 258
Score = 27.0 bits (59), Expect = 2.6
Identities = 9/51 (17%), Positives = 18/51 (35%), Gaps = 1/51 (1%)
Query: 8 KQCALLDASLDSIKNYFHAAGNGLKKTYLDKSPEL-ASLRYALSLYTQTTD 57
+ DA+ ++ F A GL T ++ P + L + +
Sbjct: 83 AHPTVWDATAGLGRDSFVLASLGLTVTAFEQHPAVACLLSDGIRRALLNPE 133
>1osn_A Thymidine kinase, VZV-TK; chickenpox, BVDU-MP, transferase; HET:
BVP ADP; 3.20A {Human herpesvirus 3} SCOP: c.37.1.1
Length = 341
Score = 26.7 bits (58), Expect = 3.3
Identities = 10/72 (13%), Positives = 20/72 (27%)
Query: 32 KKTYLDKSPELASLRYALSLYTQTTDALIKTFVQSQCNEGRDLIGNEEQLEFFELHICVK 91
+ D A + A I + + ++ + ++ + H
Sbjct: 76 DVSPEDAQRLTAHFQSLFCSPHAIMHAKISALMDTSTSDLVQVNKEPYKIMLSDRHPIAS 135
Query: 92 DYCFARDDRLVG 103
CF LVG
Sbjct: 136 TICFPLSRYLVG 147
>3iz6_E 40S ribosomal protein S2 (S5P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
2zkq_e 1s1h_E
Length = 274
Score = 26.4 bits (58), Expect = 3.5
Identities = 12/42 (28%), Positives = 20/42 (47%), Gaps = 1/42 (2%)
Query: 22 NYFHAAGNGLKKTYLDKSPEL-ASLRYALSLYTQTTDALIKT 62
N+ A + L KTY +P+ ++ S + + TD L K
Sbjct: 218 NFVKATFDCLMKTYGFLTPDFWRDTKFVKSPFQEYTDLLAKP 259
>2dmh_A Myoferlin; beta-sandwich, FER-1-like protein 3, muscular dystrophy,
cardiomyopathy, membrane fusion, dystrophin, structural
genomics, NPPSFA; NMR {Homo sapiens}
Length = 140
Score = 25.8 bits (57), Expect = 3.8
Identities = 11/39 (28%), Positives = 18/39 (46%)
Query: 75 IGNEEQLEFFELHICVKDYCFARDDRLVGVAVLQLKDIV 113
+ L I VKD+ ++L+G A + LKD+
Sbjct: 61 LRGIPLDFSSSLGIIVKDFETIGQNKLIGTATVALKDLT 99
>2xzm_E Ribosomal protein S5 containing protein; ribosome, translation;
3.93A {Tetrahymena thermophila} PDB: 2xzn_E
Length = 296
Score = 26.5 bits (58), Expect = 4.0
Identities = 7/42 (16%), Positives = 13/42 (30%), Gaps = 1/42 (2%)
Query: 22 NYFHAAGNGLKKTYLDKSPEL-ASLRYALSLYTQTTDALIKT 62
N+ A L TY +P+ + ++ L
Sbjct: 210 NFLKATYYALANTYRYLTPDFWGKPEDNELPFETFSEFLHTK 251
>2dvt_A Thermophilic reversible gamma-resorcylate decarbo; TIM barrel,
lyase; 1.70A {Rhizobium SP} SCOP: c.1.9.15 PDB: 2dvu_A*
2dvx_A* 3s4t_A*
Length = 327
Score = 25.9 bits (57), Expect = 5.6
Identities = 16/50 (32%), Positives = 22/50 (44%), Gaps = 11/50 (22%)
Query: 92 DYCFARDDRLVGVAVLQLKDI---VEQVKHQICVKDYCFARDDRLVGVAV 138
+ C R DR + A L L+D E+++ CV D F VG V
Sbjct: 86 EECAKRPDRFLAFAALPLQDPDAATEELQR--CVNDLGF------VGALV 127
>2f6k_A Metal-dependent hydrolase; metal dependent hydrolyse, aminohydro_2,
ACMDS, ACMS, trypto metabolism, quinolinic acid, QUIN;
2.50A {Lactobacillus plantarum} SCOP: c.1.9.15
Length = 307
Score = 25.9 bits (57), Expect = 6.6
Identities = 9/50 (18%), Positives = 16/50 (32%), Gaps = 11/50 (22%)
Query: 92 DYCFARDDRLVGVAVLQLKDI---VEQVKHQICVKDYCFARDDRLVGVAV 138
D+L +A L + V+ V+ + +GV V
Sbjct: 82 SLAQQYPDQLGYLASLPIPYELDAVKTVQQ--ALDQDGA------LGVTV 123
>1rlw_A Phospholipase A2, CALB domain; hydrolase, C2 domain; 2.40A {Homo
sapiens} SCOP: b.7.1.1
Length = 126
Score = 25.0 bits (55), Expect = 7.4
Identities = 6/28 (21%), Positives = 12/28 (42%), Gaps = 1/28 (3%)
Query: 85 ELHICVKDYCFARDDRLVGVAVLQLKDI 112
L I + D + D+ +G A + +
Sbjct: 71 VLEITLMDANYVMDE-TLGTATFTVSSM 97
>2xzm_9 RPS31E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB:
2xzn_9
Length = 189
Score = 25.1 bits (54), Expect = 8.4
Identities = 6/33 (18%), Positives = 8/33 (24%), Gaps = 1/33 (3%)
Query: 111 DIVEQVKHQICVKDYCFARDDRLVGVAVLQLKD 143
V +K QI LV +
Sbjct: 21 TSVLDLKSQISQDMGFEIDMMTLV-NNGFIAPN 52
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
0.322 0.137 0.395
Gapped
Lambda K H
0.267 0.0619 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,152,950
Number of extensions: 118448
Number of successful extensions: 296
Number of sequences better than 10.0: 1
Number of HSP's gapped: 296
Number of HSP's successfully gapped: 28
Length of query: 148
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 63
Effective length of database: 4,328,508
Effective search space: 272696004
Effective search space used: 272696004
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 (21.9 bits)
S2: 53 (24.4 bits)