diff --git a/api/layer/layer.go b/api/layer/layer.go
index 727998a3c..70c3c789b 100644
--- a/api/layer/layer.go
+++ b/api/layer/layer.go
@@ -1,7 +1,6 @@
 package layer
 
 import (
-	"bytes"
 	"context"
 	"crypto/ecdsa"
 	"fmt"
@@ -21,7 +20,6 @@ import (
 	cid "github.com/nspcc-dev/neofs-sdk-go/container/id"
 	"github.com/nspcc-dev/neofs-sdk-go/eacl"
 	"github.com/nspcc-dev/neofs-sdk-go/netmap"
-	oid "github.com/nspcc-dev/neofs-sdk-go/object/id"
 	"github.com/nspcc-dev/neofs-sdk-go/session"
 	"github.com/nspcc-dev/neofs-sdk-go/user"
 	"go.uber.org/zap"
@@ -251,6 +249,8 @@ type (
 const (
 	tagPrefix    = "S3-Tag-"
 	tagEmptyMark = "\\"
+
+	emptyOID = "11111111111111111111111111111111"
 )
 
 func (t *VersionedObject) String() string {
@@ -543,81 +543,57 @@ func (n *layer) CopyObject(ctx context.Context, p *CopyObjectParams) (*data.Obje
 
 // DeleteObject removes all objects with the passed nice name.
 func (n *layer) deleteObject(ctx context.Context, bkt *data.BucketInfo, settings *data.BucketSettings, obj *VersionedObject) *VersionedObject {
-	var (
-		err error
-		ids []oid.ID
-	)
-
-	p := &PutObjectParams{
-		BktInfo: bkt,
-		Object:  obj.Name,
-		Reader:  bytes.NewReader(nil),
-		Header:  map[string]string{},
-	}
-
-	// Current implementation doesn't consider "unversioned" mode (so any deletion creates "delete-mark" object).
-	// The reason is difficulties to determinate whether versioning mode is "unversioned" or "suspended".
-
-	if obj.VersionID == unversionedObjectVersionID || !settings.VersioningEnabled && len(obj.VersionID) == 0 {
-		p.Header[versionsUnversionedAttr] = "true"
-		versions, err := n.headVersions(ctx, bkt, obj.Name)
-		if err != nil {
-			obj.Error = err
+	if !isRegularVersion(obj.VersionID) {
+		newVersion := &NodeVersion{
+			IsDeleteMarker: true,
+			IsUnversioned:  obj.VersionID == unversionedObjectVersionID,
+		}
+		if obj.Error = n.treeService.AddVersion(ctx, &bkt.CID, obj.Name, newVersion); obj.Error != nil {
 			return obj
 		}
-		last := versions.getLast(FromUnversioned())
-		if last == nil {
-			return obj
-		}
-		p.Header[VersionsDeleteMarkAttr] = last.Version()
-
-		for _, unversioned := range versions.unversioned() {
-			ids = append(ids, unversioned.ID)
-		}
-	} else if len(obj.VersionID) != 0 {
-		version, err := n.checkVersionsExist(ctx, bkt, obj)
-		if err != nil {
-			obj.Error = err
-			return obj
-		}
-		ids = []oid.ID{version.ID}
-		if version.Headers[VersionsDeleteMarkAttr] == DelMarkFullObject {
-			obj.DeleteMarkVersion = version.Version()
-		}
-
-		p.Header[versionsDelAttr] = obj.VersionID
-		p.Header[VersionsDeleteMarkAttr] = version.Version()
 	} else {
-		p.Header[VersionsDeleteMarkAttr] = DelMarkFullObject
+		if obj.VersionID == emptyOID {
+			obj.Error = errors.GetAPIError(errors.ErrInvalidVersion)
+			return obj
+		}
+
+		versions, err := n.treeService.GetVersions(ctx, &bkt.CID, obj.Name)
+		if err != nil {
+			obj.Error = err
+			return obj
+		}
+
+		var found bool
+		for _, version := range versions {
+			if version.OID.EncodeToString() == obj.VersionID {
+				if err = n.treeService.RemoveVersion(ctx, &bkt.CID, version.ID); err == nil {
+					if err = n.objectDelete(ctx, bkt, version.OID); err == nil {
+						if err = n.DeleteObjectTagging(ctx, bkt, &data.ObjectInfo{ID: version.OID, Bucket: bkt.Name, Name: obj.Name}); err == nil {
+							found = true
+							break
+						}
+					}
+				}
+				obj.Error = err
+				return obj
+			}
+		}
+
+		if !found {
+			obj.Error = errors.GetAPIError(errors.ErrNoSuchVersion)
+			return obj
+		}
 	}
 
-	for _, id := range ids {
-		if err = n.objectDelete(ctx, bkt, id); err != nil {
-			obj.Error = err
-			return obj
-		}
-		if err = n.DeleteObjectTagging(ctx, bkt, &data.ObjectInfo{ID: id, Bucket: bkt.Name, Name: obj.Name}); err != nil {
-			obj.Error = err
-			return obj
-		}
-	}
 	n.listsCache.CleanCacheEntriesContainingObject(obj.Name, bkt.CID)
 
-	objInfo, err := n.PutObject(ctx, p)
-	if err != nil {
-		obj.Error = err
-		return obj
-	}
-	if len(obj.VersionID) == 0 {
-		obj.DeleteMarkVersion = objInfo.Version()
-		if settings.VersioningEnabled {
-			obj.DeleteMarkerEtag = objInfo.HashSum
-		}
-	}
-
 	return obj
 }
 
+func isRegularVersion(version string) bool {
+	return len(version) != 0 && version != unversionedObjectVersionID
+}
+
 // DeleteObjects from the storage.
 func (n *layer) DeleteObjects(ctx context.Context, p *DeleteObjectParams) ([]*VersionedObject, error) {
 	for i, obj := range p.Objects {
diff --git a/api/layer/object.go b/api/layer/object.go
index fb653723e..a10adc342 100644
--- a/api/layer/object.go
+++ b/api/layer/object.go
@@ -207,7 +207,7 @@ func (n *layer) PutObject(ctx context.Context, p *PutObjectParams) (*data.Object
 		return nil, err
 	}
 
-	newVersion.OID = id
+	newVersion.OID = *id
 	if err = n.treeService.AddVersion(ctx, &p.BktInfo.CID, p.Object, newVersion); err != nil {
 		return nil, fmt.Errorf("couldn't add new verion to tree service: %w", err)
 	}
@@ -337,7 +337,7 @@ func (n *layer) headLastVersionIfNotDeleted(ctx context.Context, bkt *data.Bucke
 		return nil, apiErrors.GetAPIError(apiErrors.ErrNoSuchKey)
 	}
 
-	meta, err := n.objectHead(ctx, bkt, *node.OID)
+	meta, err := n.objectHead(ctx, bkt, node.OID)
 	if err != nil {
 		return nil, err
 	}
diff --git a/api/layer/system_object.go b/api/layer/system_object.go
index e8057925f..c0dcbceeb 100644
--- a/api/layer/system_object.go
+++ b/api/layer/system_object.go
@@ -47,7 +47,7 @@ func (n *layer) HeadSystemObject(ctx context.Context, bkt *data.BucketInfo, objN
 		return nil, err
 	}
 
-	meta, err := n.objectHead(ctx, bkt, *node.OID)
+	meta, err := n.objectHead(ctx, bkt, node.OID)
 	if err != nil {
 		return nil, err
 	}
@@ -119,7 +119,7 @@ func (n *layer) putSystemObjectIntoNeoFS(ctx context.Context, p *PutSystemObject
 		return nil, err
 	}
 
-	newVersion := &BaseNodeVersion{OID: id}
+	newVersion := &BaseNodeVersion{OID: *id}
 	if err = n.treeService.AddSystemVersion(ctx, &p.BktInfo.CID, p.ObjName, newVersion); err != nil {
 		return nil, fmt.Errorf("couldn't add new verion to tree service: %w", err)
 	}
diff --git a/api/layer/tree_service.go b/api/layer/tree_service.go
index fde0af827..8d6ba8c27 100644
--- a/api/layer/tree_service.go
+++ b/api/layer/tree_service.go
@@ -55,7 +55,7 @@ type NodeVersion struct {
 
 type BaseNodeVersion struct {
 	ID  uint64
-	OID *oid.ID
+	OID oid.ID
 }
 
 // ErrNodeNotFound is returned from Tree service in case of not found error.
diff --git a/internal/neofs/tree.go b/internal/neofs/tree.go
index a1357632b..d5aed7f8b 100644
--- a/internal/neofs/tree.go
+++ b/internal/neofs/tree.go
@@ -110,7 +110,7 @@ func newNodeVersion(node *tree.GetNodeByPathResponse_Info) (*layer.NodeVersion,
 	return &layer.NodeVersion{
 		BaseNodeVersion: layer.BaseNodeVersion{
 			ID:  node.NodeId,
-			OID: treeNode.ObjID,
+			OID: *treeNode.ObjID,
 		},
 		IsUnversioned:  isUnversioned,
 		IsDeleteMarker: isDeleteMarker,
@@ -321,6 +321,10 @@ func (c *TreeClient) addVersion(ctx context.Context, cnrID *cid.ID, treeID, attr
 		attrPath: path[len(path)-1],
 	}
 
+	if version.IsDeleteMarker {
+		meta[isDeleteMarkerKV] = "true"
+	}
+
 	if version.IsUnversioned {
 		meta[isUnversionedKV] = "true"