BLASTP 2.2.1 [Apr-13-2001]
Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= gi|15645224|ref|NP_207394.1| hemolysin secretion protein
precursor (hylB) [Helicobacter pylori 26695]
(433 letters)
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
13,198 sequences; 2,899,336 total letters
Searching...........................done
Score E
Sequences producing significant alignments: (bits) Value
pdb|1QU7|A Chain A, Four Helical-Bundle Structure Of The Cy... 85 2e-17
pdb|1HR6|D Chain D, Yeast Mitochondrial Processing Peptidas... 34 0.028
pdb|1HR8|D Chain D, Yeast Mitochondrial Processing Peptidas... 33 0.063
pdb|1IQ0|A Chain A, Thermus Thermophilus Arginyl-Trna Synth... 33 0.063
pdb|1IO1|A Chain A, Crystal Structure Of F41 Fragment Of Fl... 31 0.31
pdb|1FGJ|A Chain A, X-Ray Structure Of Hydroxylamine Oxidor... 30 0.53
pdb|1DN1|A Chain A, Crystal Structure Of The Neuronal-Sec1S... 29 0.90
pdb|1H5Q|A Chain A, Mannitol Dehydrogenase From Agaricus Bi... 28 1.5
pdb|1EPU|A Chain A, X-Ray Crystal Structure Of Neuronal Sec... 28 2.0
pdb|1FVH|A Chain A, Crystal Structure Analysis Of Neuronal ... 28 2.6
pdb|1UCH| Deubiquitinating Enzyme Uch-L3 (Human) At 1.8 A... 28 2.6
pdb|1GCX|A Chain A, Crystal Structure Of Family B Dna Polym... 27 5.9
pdb|1YCR|A Chain A, Mdm2 Bound To The Transactivation Domai... 26 7.6
pdb|1GE9|A Chain A, Solution Structure Of The Ribosome Recy... 26 10.0
pdb|1DEQ|B Chain B, The Crystal Structure Of Modified Bovin... 26 10.0
pdb|1EH1|A Chain A, Ribosome Recycling Factor From Thermus ... 26 10.0
>pdb|1QU7|A Chain A, Four Helical-Bundle Structure Of The Cytoplasmic Domain Of
A Serine Chemotaxis Receptor
pdb|1QU7|B Chain B, Four Helical-Bundle Structure Of The Cytoplasmic Domain Of
A Serine Chemotaxis Receptor
Length = 227
Score = 84.7 bits (208), Expect = 2e-17
Identities = 53/131 (40%), Positives = 80/131 (60%), Gaps = 13/131 (9%)
Query: 124 LENAQESMQYFHQETGALLNAAKNGEAHSTEGLG---TVNKTGQDIESLYEKMQNATSLA 180
LE SM+ Q T + A+N S L T + G+ ++++ + M++
Sbjct: 9 LEQTAASME---QLTATVKQNAENARQASHLALSASETAQRGGKVVDNVVQTMRD----- 60
Query: 181 DSLNQRSNEITQVISLIDDIAEQTNLLALNAAIEAARAGEHGRGFAVVADEVRKLAEKTQ 240
++ S +I +IS+ID IA QTN+LALNAA+EAARAGE GRGFAVVA EVR LA+++
Sbjct: 61 --ISTSSQKIADIISVIDGIAFQTNILALNAAVEAARAGEQGRGFAVVAGEVRNLAQRSA 118
Query: 241 KATKEIAVVVK 251
+A +EI +++
Sbjct: 119 QAAREIKSLIE 129
>pdb|1HR6|D Chain D, Yeast Mitochondrial Processing Peptidase
pdb|1HR6|F Chain F, Yeast Mitochondrial Processing Peptidase
pdb|1HR6|H Chain H, Yeast Mitochondrial Processing Peptidase
pdb|1HR6|B Chain B, Yeast Mitochondrial Processing Peptidase
Length = 443
Score = 34.3 bits (77), Expect = 0.028
Identities = 47/175 (26%), Positives = 75/175 (42%), Gaps = 28/175 (16%)
Query: 143 NAAKNGEAHSTEGL---GTVNKTGQDIESLYEKMQNATSLADSLNQRSNEITQVISLIDD 199
N NG AH E L GT N+ Q IE +++N S ++ R N + SL +D
Sbjct: 43 NVKNNGTAHFLEHLAFKGTQNRPQQGIEL---EIENIGSHLNAYTSRENTVYYAKSLQED 99
Query: 200 IAEQTNLLA--------LNAAIEAAR------AGEHGRGF-AVVADEVRKLAEKTQKATK 244
I + ++L+ N+AIE R + E + + VV D + ++ K Q +
Sbjct: 100 IPKAVDILSDILTKSVLDNSAIERERDVIIRESEEVDKMYDEVVFDHLHEITYKDQPLGR 159
Query: 245 EIAVVVKSMQQEANDIQTNTHDINSIVSSIKGDVEEL--KSTVKNNMIVAQAAKY 297
I +K+++ T T + I + KGD L V + +V A KY
Sbjct: 160 TILGPIKNIKS-----ITRTDLKDYITKNYKGDRMVLAGAGAVDHEKLVQYAQKY 209
>pdb|1HR8|D Chain D, Yeast Mitochondrial Processing Peptidase Beta-E73q Mutant
Complexed With Cytochrome C Oxidase Iv Signal Peptide
pdb|1HR8|F Chain F, Yeast Mitochondrial Processing Peptidase Beta-E73q Mutant
Complexed With Cytochrome C Oxidase Iv Signal Peptide
pdb|1HR9|F Chain F, Yeast Mitochondrial Processing Peptidase Beta-E73q Mutant
Complexed With Malate Dehydrogenase Signal Peptide
pdb|1HR7|D Chain D, Yeast Mitochondrial Processing Peptidase Beta-E73q Mutant
pdb|1HR8|H Chain H, Yeast Mitochondrial Processing Peptidase Beta-E73q Mutant
Complexed With Cytochrome C Oxidase Iv Signal Peptide
pdb|1HR9|D Chain D, Yeast Mitochondrial Processing Peptidase Beta-E73q Mutant
Complexed With Malate Dehydrogenase Signal Peptide
pdb|1HR7|F Chain F, Yeast Mitochondrial Processing Peptidase Beta-E73q Mutant
pdb|1HR7|H Chain H, Yeast Mitochondrial Processing Peptidase Beta-E73q Mutant
pdb|1HR9|H Chain H, Yeast Mitochondrial Processing Peptidase Beta-E73q Mutant
Complexed With Malate Dehydrogenase Signal Peptide
pdb|1HR7|B Chain B, Yeast Mitochondrial Processing Peptidase Beta-E73q Mutant
pdb|1HR8|B Chain B, Yeast Mitochondrial Processing Peptidase Beta-E73q Mutant
Complexed With Cytochrome C Oxidase Iv Signal Peptide
pdb|1HR9|B Chain B, Yeast Mitochondrial Processing Peptidase Beta-E73q Mutant
Complexed With Malate Dehydrogenase Signal Peptide
Length = 443
Score = 33.1 bits (74), Expect = 0.063
Identities = 46/175 (26%), Positives = 75/175 (42%), Gaps = 28/175 (16%)
Query: 143 NAAKNGEAHSTEGL---GTVNKTGQDIESLYEKMQNATSLADSLNQRSNEITQVISLIDD 199
N NG AH + L GT N+ Q IE +++N S ++ R N + SL +D
Sbjct: 43 NVKNNGTAHFLQHLAFKGTQNRPQQGIEL---EIENIGSHLNAYTSRENTVYYAKSLQED 99
Query: 200 IAEQTNLLA--------LNAAIEAAR------AGEHGRGF-AVVADEVRKLAEKTQKATK 244
I + ++L+ N+AIE R + E + + VV D + ++ K Q +
Sbjct: 100 IPKAVDILSDILTKSVLDNSAIERERDVIIRESEEVDKMYDEVVFDHLHEITYKDQPLGR 159
Query: 245 EIAVVVKSMQQEANDIQTNTHDINSIVSSIKGDVEEL--KSTVKNNMIVAQAAKY 297
I +K+++ T T + I + KGD L V + +V A KY
Sbjct: 160 TILGPIKNIKS-----ITRTDLKDYITKNYKGDRMVLAGAGAVDHEKLVQYAQKY 209
>pdb|1IQ0|A Chain A, Thermus Thermophilus Arginyl-Trna Synthetase
Length = 592
Score = 33.1 bits (74), Expect = 0.063
Identities = 54/234 (23%), Positives = 91/234 (38%), Gaps = 25/234 (10%)
Query: 17 EIAELKKEVN---LYQSLLNLCLHEGFVGIKNNKVVFKSGNLASLNNLEEQSVHFKENAE 73
E EL++EVN L Q L+ + + + ++G L L EQS H E
Sbjct: 208 ERGELREEVNRILLAQMATMHALNARYDLLVWESDIVRAGLLQKALALLEQSPHVFRPRE 267
Query: 74 SVNLQGVSYSLKSQNIDGVQ--YFSLAKNTSCVGEYHKNDLFKTFCASLKEGLENAQESM 131
G S I G++ +F L ++ Y K+ F+ + + EGL
Sbjct: 268 G-KYAGALVMDASPVIPGLEDPFFVLLRSNGTATYYAKDIAFQFWKMGILEGLRFRPYEN 326
Query: 132 QYFHQETGALLNAAKNGEAHSTEGLGTVNKTGQDIESLYEKMQNATSLADSLNQRSNEIT 191
Y+ L +A GEA++ + T+N D+ + + +LA
Sbjct: 327 PYYP----GLRTSAPEGEAYTPKAEETINVV--DVRQSHPQALVRAALA----------- 369
Query: 192 QVISLIDDIAEQTNLLALNAAIEAARAGEHGRGFAVVADEVRKLAEKTQKATKE 245
++ +AE+ + LA + R +G AV DEV + A + +A E
Sbjct: 370 --LAGYPALAEKAHHLAYETVLLEGRQMSGRKGLAVSVDEVLEEATRRARAIVE 421
>pdb|1IO1|A Chain A, Crystal Structure Of F41 Fragment Of Flagellin
Length = 398
Score = 30.8 bits (68), Expect = 0.31
Identities = 19/56 (33%), Positives = 30/56 (52%), Gaps = 1/56 (1%)
Query: 150 AHSTEG-LGTVNKTGQDIESLYEKMQNATSLADSLNQRSNEITQVISLIDDIAEQT 204
A +TEG L +N Q + L + N+T+ L+ EITQ ++ ID ++ QT
Sbjct: 22 AQTTEGALNEINNNLQRVRELAVQSANSTNSQSDLDSIQAEITQRLNEIDRVSGQT 77
>pdb|1FGJ|A Chain A, X-Ray Structure Of Hydroxylamine Oxidoreductase
pdb|1FGJ|B Chain B, X-Ray Structure Of Hydroxylamine Oxidoreductase
Length = 546
Score = 30.0 bits (66), Expect = 0.53
Identities = 14/44 (31%), Positives = 25/44 (56%)
Query: 153 TEGLGTVNKTGQDIESLYEKMQNATSLADSLNQRSNEITQVISL 196
TEG G +N+ +I+ Y KMQ ++L +N+ + T ++ L
Sbjct: 468 TEGWGPMNRAYVEIQDEYTKMQELSALQARVNKLEGKQTSLLDL 511
>pdb|1DN1|A Chain A, Crystal Structure Of The Neuronal-Sec1SYNTAXIN 1A COMPLEX
Length = 594
Score = 29.3 bits (64), Expect = 0.90
Identities = 16/62 (25%), Positives = 31/62 (49%), Gaps = 1/62 (1%)
Query: 359 SGYRALESHHASVHAEANDLVKAVQEDHITDSKYLEHKVHLMEDSAKHVRENIDKMFYEK 418
S + + + + + + ++K + + SKY H +HL ED KH + +DK+ +
Sbjct: 311 SSSKRMNTGEKTTMRDLSQMLKKMPQYQKELSKYSTH-LHLAEDCMKHYQGTVDKLCRVE 369
Query: 419 QD 420
QD
Sbjct: 370 QD 371
>pdb|1H5Q|A Chain A, Mannitol Dehydrogenase From Agaricus Bisporus
pdb|1H5Q|B Chain B, Mannitol Dehydrogenase From Agaricus Bisporus
pdb|1H5Q|C Chain C, Mannitol Dehydrogenase From Agaricus Bisporus
pdb|1H5Q|D Chain D, Mannitol Dehydrogenase From Agaricus Bisporus
pdb|1H5Q|E Chain E, Mannitol Dehydrogenase From Agaricus Bisporus
pdb|1H5Q|F Chain F, Mannitol Dehydrogenase From Agaricus Bisporus
pdb|1H5Q|G Chain G, Mannitol Dehydrogenase From Agaricus Bisporus
pdb|1H5Q|H Chain H, Mannitol Dehydrogenase From Agaricus Bisporus
pdb|1H5Q|I Chain I, Mannitol Dehydrogenase From Agaricus Bisporus
pdb|1H5Q|J Chain J, Mannitol Dehydrogenase From Agaricus Bisporus
pdb|1H5Q|K Chain K, Mannitol Dehydrogenase From Agaricus Bisporus
pdb|1H5Q|L Chain L, Mannitol Dehydrogenase From Agaricus Bisporus
Length = 265
Score = 28.5 bits (62), Expect = 1.5
Identities = 26/105 (24%), Positives = 42/105 (39%), Gaps = 17/105 (16%)
Query: 207 LALNAAIEAARAGEHGRGFAVVADEVRKLAEKTQKATKEIAVVVKSMQQEANDIQTNTHD 266
LA A+ AA G AV+ E T+K KE V K+ Q + +NT
Sbjct: 28 LAFTRAVAAA-----GANVAVIYRSAADAVEVTEKVGKEFGVKTKAYQCDV----SNTDI 78
Query: 267 INSIVSSIKGDVEELKSTVKNN--MIVAQAAKYT------IYNIN 303
+ + I D+ + + N +V A + T +Y++N
Sbjct: 79 VTKTIQQIDADLGPISGLIANAGVSVVKPATELTHEDFAFVYDVN 123
>pdb|1EPU|A Chain A, X-Ray Crystal Structure Of Neuronal Sec1 From Squid
Length = 591
Score = 28.1 bits (61), Expect = 2.0
Identities = 13/31 (41%), Positives = 20/31 (63%), Gaps = 1/31 (3%)
Query: 390 SKYLEHKVHLMEDSAKHVRENIDKMFYEKQD 420
SKY H +HL ED K ++++DK+ +QD
Sbjct: 340 SKYSTH-LHLAEDCXKQYQQHVDKLCKVEQD 369
>pdb|1FVH|A Chain A, Crystal Structure Analysis Of Neuronal Sec1 From The Squid
L. Pealei
pdb|1FVF|A Chain A, Crystal Structure Analysis Of Neuronal Sec1 From The Squid
L. Pealei
pdb|1FVF|B Chain B, Crystal Structure Analysis Of Neuronal Sec1 From The Squid
L. Pealei
Length = 591
Score = 27.7 bits (60), Expect = 2.6
Identities = 13/31 (41%), Positives = 20/31 (63%), Gaps = 1/31 (3%)
Query: 390 SKYLEHKVHLMEDSAKHVRENIDKMFYEKQD 420
SKY H +HL ED K ++++DK+ +QD
Sbjct: 340 SKYSTH-LHLAEDCMKQYQQHVDKLCKVEQD 369
>pdb|1UCH| Deubiquitinating Enzyme Uch-L3 (Human) At 1.8 Angstrom Resolution
Length = 230
Score = 27.7 bits (60), Expect = 2.6
Identities = 25/85 (29%), Positives = 34/85 (39%), Gaps = 13/85 (15%)
Query: 352 KENFSNTSGYRALESHHASVHAEANDLVKAVQEDHITDSKYLEHKVHLMEDSAKHVRENI 411
K+ SN G L +HA AN+ K E T K+LE V + + EN
Sbjct: 88 KQTISNACGTIGL------IHAIANNKDKMHFESGSTLKKFLEESVSMSPEERARYLENY 141
Query: 412 DKM-------FYEKQDELNKIIEKI 429
D + +E Q E I EK+
Sbjct: 142 DAIRVTHETSAHEGQTEAPSIDEKV 166
>pdb|1GCX|A Chain A, Crystal Structure Of Family B Dna Polymerase From
Hyperthermophilic Archaeon Pyrococcus Kodakaraensis Kod1
Length = 774
Score = 26.6 bits (57), Expect = 5.9
Identities = 21/91 (23%), Positives = 42/91 (46%), Gaps = 6/91 (6%)
Query: 209 LNAAIEAARAGEHGRGFAVVADEVRKLAEKTQKATKEIAVVVKSMQQEANDIQTNTHDIN 268
L A+E G + RGF V + + E+ + T+ + +V + + A + Q +
Sbjct: 571 LPGALELEYEGFYKRGFFVTKKKYAVIDEEGKITTRGLEIVRRDWSEIAKETQARV--LE 628
Query: 269 SIVSSIKGDVEELKSTVKNNMIVAQAAKYTI 299
+++ GDVE+ VK + + +KY +
Sbjct: 629 ALLKD--GDVEKAVRIVKE--VTEKLSKYEV 655
>pdb|1YCR|A Chain A, Mdm2 Bound To The Transactivation Domain Of P53
Length = 109
Score = 26.2 bits (56), Expect = 7.6
Identities = 11/28 (39%), Positives = 18/28 (64%), Gaps = 1/28 (3%)
Query: 312 KLDHVVF-KNNLYGMVFGLNSFDITSHK 338
K H+V+ N+L G +FG+ SF + H+
Sbjct: 54 KQQHIVYCSNDLLGDLFGVPSFSVKEHR 81
>pdb|1GE9|A Chain A, Solution Structure Of The Ribosome Recycling Factor
Length = 184
Score = 25.8 bits (55), Expect = 10.0
Identities = 12/39 (30%), Positives = 21/39 (53%)
Query: 393 LEHKVHLMEDSAKHVRENIDKMFYEKQDELNKIIEKIQK 431
+E + ED K E + K+ + DE+NK++E +K
Sbjct: 141 IEELEGISEDEKKRALERLQKLTDKYIDEINKLMEAKEK 179
>pdb|1DEQ|B Chain B, The Crystal Structure Of Modified Bovine Fibrinogen (At ~4
Angstrom Resolution)
pdb|1DEQ|E Chain E, The Crystal Structure Of Modified Bovine Fibrinogen (At ~4
Angstrom Resolution)
pdb|1DEQ|O Chain O, The Crystal Structure Of Modified Bovine Fibrinogen (At ~4
Angstrom Resolution)
pdb|1DEQ|R Chain R, The Crystal Structure Of Modified Bovine Fibrinogen (At ~4
Angstrom Resolution)
Length = 408
Score = 25.8 bits (55), Expect = 10.0
Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 238 KTQKATKEIAVVVKSMQQ-EANDIQTNTHDINSIVSSIKGDVEELKSTVKNNM 289
+T +T + ++K+M + N +Q N + +N S ++ + TVKNN+
Sbjct: 56 RTSSSTFQYITLLKNMWKGRQNQVQDNENVVNEYSSHLEKHQLYIDETVKNNI 108
>pdb|1EH1|A Chain A, Ribosome Recycling Factor From Thermus Thermophilus
Length = 185
Score = 25.8 bits (55), Expect = 10.0
Identities = 14/52 (26%), Positives = 24/52 (45%), Gaps = 3/52 (5%)
Query: 374 EANDLVKAVQEDHITDSKYLEHKVHLMEDSAKHVRENIDKM---FYEKQDEL 422
E ++ ++ + + K L ++HL ED K I K+ F K D+L
Sbjct: 124 EGRVAIRNIRREALDKLKKLAKELHLSEDETKRAEAEIQKITDEFIAKADQL 175
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
Posted date: Dec 20, 2002 11:08 AM
Number of letters in database: 2,899,336
Number of sequences in database: 13,198
Lambda K H
0.312 0.128 0.346
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,242,569
Number of Sequences: 13198
Number of extensions: 87336
Number of successful extensions: 249
Number of sequences better than 10.0: 16
Number of HSP's better than 10.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 243
Number of HSP's gapped (non-prelim): 16
length of query: 433
length of database: 2,899,336
effective HSP length: 91
effective length of query: 342
effective length of database: 1,698,318
effective search space: 580824756
effective search space used: 580824756
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 55 (25.8 bits)